30S ribosomal protein S12
OrganismNot specified
State in the Current Structure
| Assembly | Oligomeric State | Construct | Mutations and Modifications | Ligands, Ions and Associated Components | Method and Experimental Conditions | Structure Quality |
|---|---|---|---|---|---|---|
| 1 | Protein–RNA Heteromer Protein × 2 RNA 1 PDB declaration: trimeric（3） Consistent with all polymer counts | Chain O； UniProt 1–124 | Not recorded | P-tRNA × 1 50S ribosomal protein L11 × 1 （P29395） | ELECTRON MICROSCOPY cryo-EM buffer：pH 7.5 cryo-EM vitrification conditions：Cryogen ETHANE；Rapid-freezing in liquid ethane | Resolution 10.80 Å |
Other States of the Same Protein in the Database
Each row is a biological assembly of the same UniProt protein in another PDB entry. The “Difference from current entry” column identifies evidence-level differences; no tag means the currently parsed fields agree.
| Other PDB | Difference from Current Entry 1PN7 | Assembly / Oligomeric State | Construct | Mutations and Modifications | Ligands, Ions and Non-polymers | Method and Experimental Conditions | Structure Quality |
|---|---|---|---|---|---|---|---|
| 10PX Crystal structure of the wild-type Thermus thermophilus 70S ribosome in complex with benzoxaborole derivative of azithromycin (AZI-BB2), mRNA, aminoacylated A-site Phe-tRNAphe, aminoacylated P-site fMet-tRNAmet, and deacylated E-site tRNAphe at 2.45A resolution Deposited 2026-02-01 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 98 PDB declaration: 112-meric |
Chain 1l
1–132（132 aa）
Chain 2l
1–132（132 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 2794 K POTASSIUM ION × 2 A1C9N AZI-BB2 × 2 ZN ZINC ION × 12 SF4 IRON/SULFUR CLUSTER × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.5% PEG-20K, 7-12% MPD, 0.5 mM BME
|
Resolution 2.45 Å R-free 0.300 |
| 1JGO The Path of Messenger RNA Through the Ribosome. THIS FILE, 1JGO, CONTAINS THE 30S RIBOSOME SUBUNIT, THREE TRNA, AND MRNA MOLECULES. 50S RIBOSOME SUBUNIT IS IN THE FILE 1GIY Deposited 2001-06-26 | Different construct Different oligomeric state Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 20 PDB declaration: 25-meric |
Chain O
1–131（131 aa）
|
Not recorded | No recorded non-water small molecule |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.4；20 mM MgCl2, 100 mM KCl, 20 mM tris HCl, pH 7.4, VAPOR DIFFUSION
|
Resolution 5.60 Å |
| 1JGP The Path of Messenger RNA Through the Ribosome. THIS FILE, 1JGP, CONTAINS THE 30S RIBOSOME SUBUNIT, THREE TRNA, AND MRNA MOLECULES. 50S RIBOSOME SUBUNIT IS IN THE FILE 1GIY Deposited 2001-06-26 | Different construct Different oligomeric state Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 20 PDB declaration: 25-meric |
Chain O
1–131（131 aa）
|
Not recorded | No recorded non-water small molecule |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.4；20 mM MgCl2, 100 mM KCl, 20 mM tris HCl, pH 7.4, VAPOR DIFFUSION
|
Resolution 7.00 Å |
| 1JGQ The Path of Messenger RNA Through the Ribosome. THIS FILE, 1JGQ, CONTAINS THE 30S RIBOSOME SUBUNIT, THREE TRNA, AND MRNA MOLECULES. 50S RIBOSOME SUBUNIT IS IN THE FILE 1GIY Deposited 2001-06-26 | Different construct Different oligomeric state Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 20 PDB declaration: 25-meric |
Chain O
1–131（131 aa）
|
Not recorded | No recorded non-water small molecule |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.4；20 mM MgCl2, 100 mM KCl, 20 mM tris HCl, pH 7.4, VAPOR DIFFUSION
|
Resolution 5.00 Å |
| 1MVR Decoding Center & Peptidyl transferase center from the X-ray structure of the Thermus thermophilus 70S ribosome, aligned to the low resolution Cryo-EM map of E.coli 70S Ribosome Deposited 2002-09-26 | Different construct Different oligomeric state Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 2 PDB declaration: octameric |
Chain O
1–131（131 aa）
|
Not recorded | No recorded non-water small molecule |
ELECTRON MICROSCOPY
cryo-EM buffer
polymix buffer；pH 7.5；polymix buffer
cryo-EM vitrification conditions
Cryogen ETHANE；Rapid-freezing in liquid ethane
|
Resolution 12.80 Å |
| 1N34 Structure of the Thermus thermophilus 30S ribosomal subunit in the presence of codon and crystallographically disordered near-cognate transfer rna anticodon stem-loop mismatched at the first codon position Deposited 2002-10-25 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 20 PDB declaration: 22-meric |
Chain L
1–135（135 aa）
|
Not recorded | ZN ZINC ION × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, HANGING DROP；pH 6.5；277 K；MPD, NH4Cl, KCl, CaCl2, magnesium acetate, potassium-MES, sodium cacodylate,
PH 6.5, VAPOR DIFFUSION, HANGING DROP AT 277K
|
Resolution 3.80 Å R-free 0.312 |
| 1N36 Structure of the Thermus thermophilus 30S ribosomal subunit in the presence of crystallographically disordered codon and near-cognate transfer RNA anticodon stem-loop mismatched at the second codon position Deposited 2002-10-25 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 20 PDB declaration: 21-meric |
Chain L
1–135（135 aa）
|
Not recorded | ZN ZINC ION × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, HANGING DROP；pH 6.5；277 K；MPD, NH4Cl, KCl, CaCl2, magnesium acetate, potassium-MES, sodium cacodylate,
PH 6.5, VAPOR DIFFUSION, HANGING DROP AT 277K
|
Resolution 3.65 Å R-free 0.324 |
| 1PN8 Coordinates of S12, L11 proteins and E-site tRNA from 70S crystal structure separately fitted into the Cryo-EM map of E.coli 70S.EF-G.GDPNP complex. The atomic coordinates originally from the E-site tRNA were fitted in the position of the hybrid P/E-site tRNA. Deposited 2003-06-12 | Parsed fields agree | Assembly 1 Protein–RNA Heteromer；Protein × 2 PDB declaration: trimeric |
Chain O
1–124（124 aa）
|
Not recorded | No recorded non-water small molecule |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE；Rapid-freezing in liquid ethane
|
Resolution 10.80 Å |
| 1QZC Coordinates of S12, SH44, LH69 and SRL separately fitted into the cryo-EM map of EF-Tu ternary complex (GDP.Kirromycin) bound 70S ribosome Deposited 2003-09-16 | Different construct Different oligomeric state Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Monomer；Protein × 1 PDB declaration: tetrameric |
Chain L
1–131（131 aa）
|
Not recorded | No recorded non-water small molecule |
ELECTRON MICROSCOPY
cryo-EM buffer
Polymix buffer；pH 7.5；Polymix buffer
cryo-EM vitrification conditions
Cryogen ETHANE；Rapid-freezing in liquid ethane
|
Resolution 9.00 Å |
| 1VVJ Crystal Structure of Frameshift Suppressor tRNA SufA6 bound to Codon CCC-G on the Ribosome Deposited 2013-05-24 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 48 PDB declaration: 55-meric |
Chain QL
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 286 PAR PAROMOMYCIN × 1 ZN ZINC ION × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7；293 K；4% PEG 20k, 4% PEG550 MME, 0.1M TRIS-ACETATE, 0.2M KSCN, 10mM MgCl, pH 7.0, vapor diffusion, temperature 293K
|
Resolution 3.44 Å R-free 0.285 |
| 1VVJ Crystal Structure of Frameshift Suppressor tRNA SufA6 bound to Codon CCC-G on the Ribosome Deposited 2013-05-24 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 48 PDB declaration: 55-meric |
Chain XL
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 315 PAR PAROMOMYCIN × 1 ZN ZINC ION × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7；293 K；4% PEG 20k, 4% PEG550 MME, 0.1M TRIS-ACETATE, 0.2M KSCN, 10mM MgCl, pH 7.0, vapor diffusion, temperature 293K
|
Resolution 3.44 Å R-free 0.285 |
| 1VY4 Crystal structure of the Thermus thermophilus 70S ribosome in the pre-attack state of peptide bond formation containing acylated tRNA-substrates in the A and P sites. Deposited 2014-05-13 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 56-meric |
Chain AL
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 1159 SF4 IRON/SULFUR CLUSTER × 1 ZN ZINC ION × 6 K POTASSIUM ION × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.5% PEG-20K, 7-12% MPD, 0.5mM BME, VAPOR DIFFUSION, temperature 292K
|
Resolution 2.60 Å R-free 0.264 |
| 1VY4 Crystal structure of the Thermus thermophilus 70S ribosome in the pre-attack state of peptide bond formation containing acylated tRNA-substrates in the A and P sites. Deposited 2014-05-13 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 49 PDB declaration: 56-meric |
Chain CL
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 889 SF4 IRON/SULFUR CLUSTER × 1 ZN ZINC ION × 6 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.5% PEG-20K, 7-12% MPD, 0.5mM BME, VAPOR DIFFUSION, temperature 292K
|
Resolution 2.60 Å R-free 0.264 |
| 1VY5 Crystal structure of the Thermus thermophilus 70S ribosome in the post-catalysis state of peptide bond formation containing dipeptydil-tRNA in the A site and deacylated tRNA in the P site. Deposited 2014-05-13 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 56-meric |
Chain AL
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 1165 SF4 IRON/SULFUR CLUSTER × 1 ZN ZINC ION × 6 K POTASSIUM ION × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.5% PEG-20K, 7-12% MPD, 0.5mM BME, VAPOR DIFFUSION, temperature 292K
|
Resolution 2.55 Å R-free 0.280 |
| 1VY5 Crystal structure of the Thermus thermophilus 70S ribosome in the post-catalysis state of peptide bond formation containing dipeptydil-tRNA in the A site and deacylated tRNA in the P site. Deposited 2014-05-13 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 49 PDB declaration: 56-meric |
Chain CL
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 912 SF4 IRON/SULFUR CLUSTER × 1 ZN ZINC ION × 6 K POTASSIUM ION × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.5% PEG-20K, 7-12% MPD, 0.5mM BME, VAPOR DIFFUSION, temperature 292K
|
Resolution 2.55 Å R-free 0.280 |
| 1VY6 Crystal structure of the Thermus thermophilus 70S ribosome in the pre-attack state of peptide bond formation containing short substrate-mimic Cytidine-Puromycin in the A site and acylated tRNA in the P site. Deposited 2014-05-13 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 55-meric |
Chain AL
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 965 SF4 IRON/SULFUR CLUSTER × 1 ZN ZINC ION × 6 K POTASSIUM ION × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.5% PEG-20K, 7-12% MPD, 0.5mM BME, VAPOR DIFFUSION, temperature 292K
|
Resolution 2.90 Å R-free 0.286 |
| 1VY6 Crystal structure of the Thermus thermophilus 70S ribosome in the pre-attack state of peptide bond formation containing short substrate-mimic Cytidine-Puromycin in the A site and acylated tRNA in the P site. Deposited 2014-05-13 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 49 PDB declaration: 55-meric |
Chain CL
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 799 SF4 IRON/SULFUR CLUSTER × 1 ZN ZINC ION × 6 K POTASSIUM ION × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.5% PEG-20K, 7-12% MPD, 0.5mM BME, VAPOR DIFFUSION, temperature 292K
|
Resolution 2.90 Å R-free 0.286 |
| 1VY7 Crystal structure of the Thermus thermophilus 70S ribosome in the pre-attack state of peptide bond formation containing short substrate-mimic Cytidine-Cytidine-Puromycin in the A site and acylated tRNA in the P site. Deposited 2014-05-13 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 56-meric |
Chain AL
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 1055 SF4 IRON/SULFUR CLUSTER × 1 ZN ZINC ION × 6 K POTASSIUM ION × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.5% PEG-20K, 7-12% MPD, 0.5mM BME, VAPOR DIFFUSION, temperature 292K
|
Resolution 2.80 Å R-free 0.280 |
| 1VY7 Crystal structure of the Thermus thermophilus 70S ribosome in the pre-attack state of peptide bond formation containing short substrate-mimic Cytidine-Cytidine-Puromycin in the A site and acylated tRNA in the P site. Deposited 2014-05-13 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 49 PDB declaration: 56-meric |
Chain CL
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 845 SF4 IRON/SULFUR CLUSTER × 1 ZN ZINC ION × 6 K POTASSIUM ION × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.5% PEG-20K, 7-12% MPD, 0.5mM BME, VAPOR DIFFUSION, temperature 292K
|
Resolution 2.80 Å R-free 0.280 |
| 2E5L A snapshot of the 30S ribosomal subunit capturing mRNA via the Shine- Dalgarno interaction Deposited 2006-12-21 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 20 PDB declaration: 23-meric |
Chain L
1–131（131 aa）
|
Not recorded | ZN ZINC ION × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, HANGING DROP；pH 7.8；293 K；10mM HEPES-KOH, 10mM MgCl2, 60mM NH4Cl, 6mM beta-mercaptoethanol, 11-12% MPD, pH 7.8, VAPOR DIFFUSION, HANGING DROP, temperature 293K
|
Resolution 3.30 Å R-free 0.301 |
| 2UU9 Structure of the Thermus thermophilus 30S ribosomal subunit complexed with a Valine-ASL with cmo5U in position 34 bound to an mRNA with a GUG-codon in the A-site and paromomycin. Deposited 2007-03-01 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 20 PDB declaration: 23-meric |
Chain L
1–131（131 aa）
|
Not recorded | PAR PAROMOMYCIN × 1 MG MAGNESIUM ION × 161 K POTASSIUM ION × 36 ZN ZINC ION × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
pH 6.5；pH 6.5
|
Resolution 3.10 Å R-free 0.268 |
| 2UUA Structure of the Thermus thermophilus 30S ribosomal subunit complexed with a Valine-ASL with cmo5U in position 34 bound to an mRNA with a GUC-codon in the A-site and paromomycin. Deposited 2007-03-01 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 20 PDB declaration: 23-meric |
Chain L
1–131（131 aa）
|
Not recorded | PAR PAROMOMYCIN × 1 MG MAGNESIUM ION × 170 K POTASSIUM ION × 22 ZN ZINC ION × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
pH 6.5；SEE 1J5E, pH 6.5
|
Resolution 2.90 Å R-free 0.254 |
| 2UUB Structure of the Thermus thermophilus 30S ribosomal subunit complexed with a Valine-ASL with cmo5U in position 34 bound to an mRNA with a GUU-codon in the A-site and paromomycin. Deposited 2007-03-01 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 20 PDB declaration: 23-meric |
Chain L
1–131（131 aa）
|
Not recorded | PAR PAROMOMYCIN × 1 MG MAGNESIUM ION × 218 K POTASSIUM ION × 35 ZN ZINC ION × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
pH 6.5；SEE 1J5E, pH 6.50
|
Resolution 2.80 Å R-free 0.243 |
| 2UUC Structure of the Thermus thermophilus 30S ribosomal subunit complexed with a Valine-ASL with cmo5U in position 34 bound to an mRNA with a GUA-codon in the A-site and paromomycin. Deposited 2007-03-01 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 20 PDB declaration: 23-meric |
Chain L
1–131（131 aa）
|
Not recorded | PAR PAROMOMYCIN × 1 MG MAGNESIUM ION × 184 K POTASSIUM ION × 56 ZN ZINC ION × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
pH 6.5；SEE 1J5E, pH 6.50
|
Resolution 3.10 Å R-free 0.245 |
| 2UXB Crystal structure of an extended tRNA anticodon stem loop in complex with its cognate mRNA GGGU in the context of the Thermus thermophilus 30S subunit. Deposited 2007-03-28 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 20 PDB declaration: 23-meric |
Chain L
1–131（131 aa）
|
Not recorded | PAR PAROMOMYCIN × 1 MG MAGNESIUM ION × 131 K POTASSIUM ION × 10 ZN ZINC ION × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, HANGING DROP；pH 6.5；277 K；MPD, AMMONIUM CHLORIDE, POTASSIUM CHLORIDE, MAGNESIUM ACETATE, SODIUM CACODYLATE, PH 6.5, VAPOR DIFFUSION, HANGING DROP AT 277K
|
Resolution 3.10 Å R-free 0.328 |
| 2UXC Crystal structure of an extended tRNA anticodon stem loop in complex with its cognate mRNA UCGU in the context of the Thermus thermophilus 30S subunit. Deposited 2007-03-28 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 20 PDB declaration: 23-meric |
Chain L
1–131（131 aa）
|
Not recorded | PAR PAROMOMYCIN × 1 MG MAGNESIUM ION × 192 K POTASSIUM ION × 26 ZN ZINC ION × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, HANGING DROP；pH 6.5；277 K；MPD, AMMONIUM CHLORIDE, POTASSIUM CHLORIDE, MAGNESIUM ACETATE, SODIUM CACODYLATE, PH 6.5, VAPOR DIFFUSION, HANGING DROP AT 277K
|
Resolution 2.90 Å R-free 0.255 |
| 2UXD Crystal structure of an extended tRNA anticodon stem loop in complex with its cognate mRNA CGGG in the context of the Thermus thermophilus 30S subunit. Deposited 2007-03-28 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 20 PDB declaration: 23-meric |
Chain L
1–131（131 aa）
|
Not recorded | PAR PAROMOMYCIN × 1 MG MAGNESIUM ION × 70 K POTASSIUM ION × 8 ZN ZINC ION × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, HANGING DROP；pH 6.5；277 K；MPD, AMMONIUM CHLORIDE, POTASSIUM CHLORIDE, MAGNESIUM ACETATE, MES, PH 6.5, VAPOR DIFFUSION, HANGING DROP AT 277K
|
Resolution 3.20 Å R-free 0.282 |
| 2VQE Modified uridines with C5-methylene substituents at the first position of the tRNA anticodon stabilize U-G wobble pairing during decoding Deposited 2008-03-13 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 20 PDB declaration: 23-meric |
Chain L
2–132（131 aa）
|
Not recorded | MG MAGNESIUM ION × 206 K POTASSIUM ION × 62 PAR PAROMOMYCIN × 1 ZN ZINC ION × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
pH 6.5；SEE WIMBERLY ET AL., NATURE 2000, pH 6.5
|
Resolution 2.50 Å R-free 0.283 |
| 2VQF Modified uridines with C5-methylene substituents at the first position of the tRNA anticodon stabilize U-G wobble pairing during decoding Deposited 2008-03-14 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 20 PDB declaration: 23-meric |
Chain L
2–132（131 aa）
|
Not recorded | PAR PAROMOMYCIN × 1 MG MAGNESIUM ION × 214 K POTASSIUM ION × 73 ZN ZINC ION × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
pH 6.5；SEE WIMBERLY ET AL.,NATURE, 2000, pH 6.5
|
Resolution 2.90 Å R-free 0.258 |
| 2ZM6 Crystal structure of the Thermus thermophilus 30S ribosomal subunit Deposited 2008-04-11 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 20 PDB declaration: 21-meric |
Chain L
2–132（131 aa）
|
Not recorded | ZN ZINC ION × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, HANGING DROP；pH 7.8；298 K；10mM HEPES-KOH, 10mM MgCl2, 60mM NH4Cl, 6mM beta-mercaptoethanol, 11-12% MPD, pH 7.8, VAPOR DIFFUSION, HANGING DROP, temperature 298K
|
Resolution 3.30 Å R-free 0.323 |
| 3T1H Structure of the Thermus thermophilus 30S ribosomal subunit complexed with a human anti-codon stem loop (HASL) of transfer RNA lysine 3 (tRNALys3) bound to an mRNA with an AAA-codon in the A-site and Paromomycin Deposited 2011-07-21 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 20 PDB declaration: 23-meric |
Chain L
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 185 PAR PAROMOMYCIN × 1 ZN ZINC ION × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, HANGING DROP；pH 6.5；277 K；MPD, NH4Cl, KCl, CaCl2, magnesium acetate, sodium cacodylate, pH 6.5, VAPOR DIFFUSION, HANGING DROP, temperature 277K
|
Resolution 3.11 Å R-free 0.276 |
| 3T1Y Structure of the Thermus thermophilus 30S ribosomal subunit complexed with a human anti-codon stem loop (HASL) of transfer RNA Lysine 3 (TRNALYS3) bound to an mRNA with an AAG-codon in the A-site and paromomycin Deposited 2011-07-22 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 20 PDB declaration: 23-meric |
Chain L
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 186 PAR PAROMOMYCIN × 1 ZN ZINC ION × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, HANGING DROP；pH 6.5；277 K；MPD, NH4Cl, KCl, CaCl2, magnesium acetate, sodium cacodylate, pH 6.5, VAPOR DIFFUSION, HANGING DROP, temperature 277K
|
Resolution 2.80 Å R-free 0.268 |
| 4B3M Crystal structure of the 30S ribosome in complex with compound 1 Deposited 2012-07-25 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 20 PDB declaration: 23-meric |
Chain L
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 240 K POTASSIUM ION × 17 ON0 (1R,2R,3S,4R,6S)-4,6-diamino-2-{[3-O-(2,6-diamino-2,6-dideoxy-beta-L-idopyranosyl)-beta-D-ribofuranosyl]oxy}-3-hydroxycyclohexyl 2-amino-4,6-O-benzylidene-2-deoxy-alpha-D-glucopyranoside × 1 ZN ZINC ION × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, HANGING DROP；277 K；MPD, NH4CL, KCL, CACL2, MAGNESIUM ACETATE, SODIUM CACODYLATE, PH 6.5,VAPOUR DIFFUSION, HANGING DROP AT 277K
|
Resolution 2.90 Å R-free 0.251 |
| 4B3R Crystal structure of the 30S ribosome in complex with compound 30 Deposited 2012-07-26 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 20 PDB declaration: 23-meric |
Chain L
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 207 K POTASSIUM ION × 14 M5Z (1R,2R,3S,4R,6S)-4,6-diamino-2-{[3-O-(2,6-diamino-2,6-dideoxy-beta-L-idopyranosyl)-beta-D-ribofuranosyl]oxy}-3-hydroxycyclohexyl 2-amino-2-deoxy-4,6-O-[(1R)-3-phenylpropylidene]-alpha-D-glucopyranoside × 1 ZN ZINC ION × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, HANGING DROP；277 K；4% MPD, 75MM NH4CL, 200MM KCL, 15MM MAGNESIUM CHLORIDE, MES-KOH PH 6.5,VAPOUR DIFFUSION, HANGING DROP AT 277K
|
Resolution 3.00 Å R-free 0.248 |
| 4B3S Crystal structure of the 30S ribosome in complex with compound 37 Deposited 2012-07-26 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 20 PDB declaration: 23-meric |
Chain L
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 166 K POTASSIUM ION × 13 RPO (1R,2R,3S,4R,6S)-4,6-diamino-2-{[3-O-(2,6-diamino-2,6-dideoxy-beta-L-idopyranosyl)-beta-D-ribofuranosyl]oxy}-3-hydroxycyclohexyl 2-amino-4-O-benzyl-2-deoxy-alpha-D-glucopyranoside × 1 ZN ZINC ION × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, HANGING DROP；277 K；4% MPD, 75MM NH4CL, 200MM KCL, 15MM MAGNESIUM CHLORIDE, MES-KOH PH 6.5,VAPOR DIFFUSION, HANGING DROP AT 277K
|
Resolution 3.15 Å R-free 0.247 |
| 4B3T Crystal structure of the 30S ribosome in complex with compound 39 Deposited 2012-07-26 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 20 PDB declaration: 23-meric |
Chain L
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 219 K POTASSIUM ION × 17 3TS (2S,3S,4R,5R,6R)-2-(aminomethyl)-5-azanyl-6-[(2R,3S,4R,5S)-5-[(1R,2R,3S,5R,6S)-3,5-bis(azanyl)-2-[(2S,3R,4R,5S,6R)-3-azanyl-5-[(4-chlorophenyl)methoxy]-6-(hydroxymethyl)-4-oxidanyl-oxan-2-yl]oxy-6-oxidanyl-cyclohexyl]oxy-2-(hydroxymethyl)-4-oxidanyl-oxolan-3-yl]oxy-oxane-3,4-diol × 1 ZN ZINC ION × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, HANGING DROP；277 K；4% MPD, 75MM NH4CL, 200MM KCL, 15MM MAGNESIUM CHLORIDE, MES-KOH PH 6.5,VAPOR DIFFUSION, HANGING DROP AT 277K
|
Resolution 3.00 Å R-free 0.243 |
| 4GKJ Structure of the Thermus thermophilus 30S ribosomal subunit complexed with a human mitochondrial anticodon stem loop (ASL) of transfer RNA Methionine (TRNAMET) bound to an mRNA with an AUG-codon in the A-site and paromomycin. Deposited 2012-08-11 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 20 PDB declaration: 23-meric |
Chain L
2–125（124 aa）
|
Not recorded | MG MAGNESIUM ION × 186 PAR PAROMOMYCIN × 1 ZN ZINC ION × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, HANGING DROP；pH 6.5；277 K；MPD, NH4Cl, KCl, CaCl2, magnesium acetate, sodium cacodylate, pH 6.5 VAPOR DIFFUSION, HANGING DROP, temperature 277K, temperature 277.0K
|
Resolution 3.30 Å R-free 0.222 |
| 4GKK Structure of the Thermus thermophilus 30S ribosomal subunit complexed with a human mitochondrial anticodon stem loop (ASL) of transfer RNA Methionine (TRNAMET) bound to an mRNA with an AUA-codon in the A-site and paromomycin Deposited 2012-08-11 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 20 PDB declaration: 23-meric |
Chain L
2–125（124 aa）
|
Not recorded | MG MAGNESIUM ION × 186 PAR PAROMOMYCIN × 1 ZN ZINC ION × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, HANGING DROP；pH 6.5；277 K；MPD, NH4Cl, KCl, CaCl2, magnesium acetate, sodium cacodylate, pH 6.5, VAPOR DIFFUSION, HANGING DROP, temperature 277K, temperature 277.0K
|
Resolution 3.20 Å R-free 0.236 |
| 4JV5 Crystal structures of pseudouridinilated stop codons with ASLs Deposited 2013-03-25 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 20 PDB declaration: 23-meric |
Chain L
5–129（125 aa）
|
Not recorded | MG MAGNESIUM ION × 17 ZN ZINC ION × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
EVAPORATION；pH 6.5；277.15 K；12%MPD 0.1M MES-KOH pH6.5 50mM KCL 10mM NH4-CL 15mM Mg2CL, EVAPORATION, temperature 277.15K
|
Resolution 3.16 Å R-free 0.249 |
| 4JYA Crystal structures of pseudouridinilated stop codons with ASLs Deposited 2013-03-29 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 20 PDB declaration: 23-meric |
Chain L
5–129（125 aa）
|
Not recorded | MG MAGNESIUM ION × 14 PAR PAROMOMYCIN × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
EVAPORATION；pH 6.5；277.15 K；12% MPD, 0.1M MES-KOH, 0.075M magnesium chloride, 0.1M KCL, pH 6.5, EVAPORATION, temperature 277.15K
|
Resolution 3.10 Å R-free 0.232 |
| 4K0K Crystal structure of the Thermus thermophilus 30S ribosomal subunit complexed with a serine-ASL and mRNA containing a stop codon Deposited 2013-04-04 | Different construct Different oligomeric state Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 20 PDB declaration: 23-meric |
Chain L
5–130（126 aa）
|
Not recorded | No recorded non-water small molecule |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 6.5；277.15 K；01.M MES-KOH, 50mM KCL, 15mM Mg+2-acetate, 12% MPD, pH 6.5, VAPOR DIFFUSION, temperature 277.15K
|
Resolution 3.40 Å R-free 0.242 |
| 4KHP Structure of the Thermus thermophilus 30S ribosomal subunit in complex with de-6-MSA-pactamycin Deposited 2013-05-01 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 20 PDB declaration: 22-meric |
Chain L
5–129（125 aa）
|
Not recorded | PAR PAROMOMYCIN × 7 PCY Pactamycin × 1 MG MAGNESIUM ION × 103 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, HANGING DROP；pH 6.5；277.15 K；100 mM Mes-KOH (pH 6.5), 200 mM KCl, 75 mM NH4Cl, 15 mM MgCl2, and 26% (vol/vol) 2-Methyl-2,4-pentanediol (MPD), VAPOR DIFFUSION, HANGING DROP, temperature 277.15K
|
Resolution 3.10 Å R-free 0.226 |
| 4L47 Crystal Structure of Frameshift Suppressor tRNA SufA6 Bound to Codon CCC-U on the Ribosome Deposited 2013-06-07 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 56-meric |
Chain QL
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 325 PAR PAROMOMYCIN × 1 ZN ZINC ION × 3 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7；293 K；4% PEG 20k, 4% PEG550 MME, 0.1M TRIS-ACETATE, 0.2M KSCN, 10mM MgCl, pH 7.0, vapor diffusion, temperature 293K
|
Resolution 3.22 Å R-free 0.260 |
| 4L47 Crystal Structure of Frameshift Suppressor tRNA SufA6 Bound to Codon CCC-U on the Ribosome Deposited 2013-06-07 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 49 PDB declaration: 56-meric |
Chain XL
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 354 PAR PAROMOMYCIN × 1 ZN ZINC ION × 3 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7；293 K；4% PEG 20k, 4% PEG550 MME, 0.1M TRIS-ACETATE, 0.2M KSCN, 10mM MgCl, pH 7.0, vapor diffusion, temperature 293K
|
Resolution 3.22 Å R-free 0.260 |
| 4L71 Crystal Structure of Frameshift Suppressor tRNA SufA6 Bound to Codon CCC-A on the Ribosome Deposited 2013-06-13 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 56-meric |
Chain QL
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 325 PAR PAROMOMYCIN × 1 ZN ZINC ION × 3 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7；293 K；4% PEG 20k, 4% PEG550 MME, 0.1M TRIS-ACETATE, 0.2M KSCN, 10mM MgCl, pH 7.0, vapor diffusion, temperature 293K
|
Resolution 3.90 Å R-free 0.278 |
| 4L71 Crystal Structure of Frameshift Suppressor tRNA SufA6 Bound to Codon CCC-A on the Ribosome Deposited 2013-06-13 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 49 PDB declaration: 56-meric |
Chain XL
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 351 PAR PAROMOMYCIN × 1 ZN ZINC ION × 3 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7；293 K；4% PEG 20k, 4% PEG550 MME, 0.1M TRIS-ACETATE, 0.2M KSCN, 10mM MgCl, pH 7.0, vapor diffusion, temperature 293K
|
Resolution 3.90 Å R-free 0.278 |
| 4LEL Crystal Structure of Frameshift Suppressor tRNA SufA6 Bound to Codon CCG-G on the Ribosome Deposited 2013-06-25 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 56-meric |
Chain QL
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 321 PAR PAROMOMYCIN × 1 ZN ZINC ION × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7；293 K；4% PEG 20k, 4% PEG550 MME, 0.1M TRIS-ACETATE, 0.2M KSCN, 10mM MgCl, pH 7.0, vapor diffusion, temperature 293K
|
Resolution 3.90 Å R-free 0.298 |
| 4LEL Crystal Structure of Frameshift Suppressor tRNA SufA6 Bound to Codon CCG-G on the Ribosome Deposited 2013-06-25 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 49 PDB declaration: 56-meric |
Chain XL
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 349 PAR PAROMOMYCIN × 1 ZN ZINC ION × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7；293 K；4% PEG 20k, 4% PEG550 MME, 0.1M TRIS-ACETATE, 0.2M KSCN, 10mM MgCl, pH 7.0, vapor diffusion, temperature 293K
|
Resolution 3.90 Å R-free 0.298 |
| 4LFZ Crystal Structure of Frameshift Suppressor tRNA SufA6 Bound to Codon CCC-U in the Absence of Paromomycin Deposited 2013-06-27 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 56-meric |
Chain QL
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 320 ZN ZINC ION × 3 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7；293 K；4% PEG 20k, 4% PEG550 MME, 0.1M TRIS-ACETATE, 0.2M KSCN, 10mM MgCl2, pH 7.0, vapor diffusion, temperature 293K
|
Resolution 3.92 Å R-free 0.265 |
| 4LFZ Crystal Structure of Frameshift Suppressor tRNA SufA6 Bound to Codon CCC-U in the Absence of Paromomycin Deposited 2013-06-27 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 49 PDB declaration: 56-meric |
Chain XL
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 354 ZN ZINC ION × 3 AMP ADENOSINE MONOPHOSPHATE × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7；293 K；4% PEG 20k, 4% PEG550 MME, 0.1M TRIS-ACETATE, 0.2M KSCN, 10mM MgCl2, pH 7.0, vapor diffusion, temperature 293K
|
Resolution 3.92 Å R-free 0.265 |
| 4LNT Crystal Structure of tRNA Proline (CGG) Bound to Codon CCC-U on the Ribosome Deposited 2013-07-12 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 56-meric |
Chain QL
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 325 PAR PAROMOMYCIN × 1 ZN ZINC ION × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7；293 K；4% PEG 20k, 4% PEG550 MME, 0.1M TRIS-ACETATE, 0.2M KSCN, 10mM MgCl2, pH 7.0, vapor diffusion, temperature 293K
|
Resolution 2.94 Å R-free 0.265 |
| 4LNT Crystal Structure of tRNA Proline (CGG) Bound to Codon CCC-U on the Ribosome Deposited 2013-07-12 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 49 PDB declaration: 56-meric |
Chain XL
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 352 PAR PAROMOMYCIN × 1 ZN ZINC ION × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7；293 K；4% PEG 20k, 4% PEG550 MME, 0.1M TRIS-ACETATE, 0.2M KSCN, 10mM MgCl2, pH 7.0, vapor diffusion, temperature 293K
|
Resolution 2.94 Å R-free 0.265 |
| 4LSK Crystal Structure of tRNA Proline (CGG) Bound to Codon CCG-G on the Ribosome Deposited 2013-07-22 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 56-meric |
Chain QL
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 321 PAR PAROMOMYCIN × 1 ZN ZINC ION × 3 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7；293 K；4% PEG 20k, 4% PEG550 MME, 0.1M TRIS-ACETATE, 0.2M KSCN, 10mM MgCl, pH 7.0, vapor diffusion, temperature 293K
|
Resolution 3.48 Å R-free 0.270 |
| 4LSK Crystal Structure of tRNA Proline (CGG) Bound to Codon CCG-G on the Ribosome Deposited 2013-07-22 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 49 PDB declaration: 56-meric |
Chain XL
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 351 PAR PAROMOMYCIN × 1 ZN ZINC ION × 3 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7；293 K；4% PEG 20k, 4% PEG550 MME, 0.1M TRIS-ACETATE, 0.2M KSCN, 10mM MgCl, pH 7.0, vapor diffusion, temperature 293K
|
Resolution 3.48 Å R-free 0.270 |
| 4LT8 Crystal Structure of tRNA Proline (CGG) Bound to Codon CCC-G on the Ribosome Deposited 2013-07-23 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 56-meric |
Chain QL
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 324 PAR PAROMOMYCIN × 1 ZN ZINC ION × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7；293 K；4% PEG 20k, 4% PEG550 MME, 0.1M TRIS-ACETATE, 0.2M KSCN, 10mM MgCl2, pH 7.0, vapor diffusion, temperature 293K
|
Resolution 3.14 Å R-free 0.262 |
| 4LT8 Crystal Structure of tRNA Proline (CGG) Bound to Codon CCC-G on the Ribosome Deposited 2013-07-23 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 49 PDB declaration: 56-meric |
Chain XL
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 352 PAR PAROMOMYCIN × 1 ZN ZINC ION × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7；293 K；4% PEG 20k, 4% PEG550 MME, 0.1M TRIS-ACETATE, 0.2M KSCN, 10mM MgCl2, pH 7.0, vapor diffusion, temperature 293K
|
Resolution 3.14 Å R-free 0.262 |
| 4OX9 Crystal structure of the aminoglycoside resistance methyltransferase NpmA bound to the 30S ribosomal subunit Deposited 2014-02-04 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 21 PDB declaration: 22-meric |
Chain L
1–131（131 aa）
|
Not recorded | MG MAGNESIUM ION × 120 ZN ZINC ION × 2 SFG SINEFUNGIN × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, HANGING DROP；pH 6.5；277 K；14% MPD, 0.2 M KCL , 75 mM NH4Cl, 15 mM MgCl2 , 0.1M MES
X-ray crystallization conditions
VAPOR DIFFUSION, HANGING DROP；pH 7；277 K；14% MPD, 0.2 M KCL , 75 mM NH4Cl, 15 mM MgCl2 , 0.1M MES
|
Resolution 3.80 Å R-free 0.257 |
| 4P6F Crystal structure of the peptolide 12C bound to bacterial ribosome Deposited 2014-03-24 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 57-meric |
Chain QL
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 328 PAR PAROMOMYCIN × 1 ZN ZINC ION × 3 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；pH 7；293 K；3.5-4.5% PEG 20K, 3.5-4.5% PEG550 MME, 0.1M Tris-Acetate, 0.2M KSCN, 10 mM MgCl2
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；pH 7；293 K；3.5-4.5% PEG 20K, 3.5-4.5% PEG550 MME, 0.1M Tris-Acetate, 0.2M KSCN, 10 mM MgCl2
|
Resolution 3.60 Å R-free 0.254 |
| 4P6F Crystal structure of the peptolide 12C bound to bacterial ribosome Deposited 2014-03-24 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 50 PDB declaration: 57-meric |
Chain XL
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 368 PAR PAROMOMYCIN × 1 ZN ZINC ION × 3 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；pH 7；293 K；3.5-4.5% PEG 20K, 3.5-4.5% PEG550 MME, 0.1M Tris-Acetate, 0.2M KSCN, 10 mM MgCl2
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；pH 7；293 K；3.5-4.5% PEG 20K, 3.5-4.5% PEG550 MME, 0.1M Tris-Acetate, 0.2M KSCN, 10 mM MgCl2
|
Resolution 3.60 Å R-free 0.254 |
| 4P70 Crystal Structure of Unmodified tRNA Proline (CGG) Bound to Codon CCG on the Ribosome Deposited 2014-03-25 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 56-meric |
Chain QL
1–132（132 aa）
|
Not recorded | PAR PAROMOMYCIN × 1 MG MAGNESIUM ION × 338 ZN ZINC ION × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；pH 7；293 K；4% PEG 20k, 4% PEG550 MME, 0.1M TRIS-ACETATE, 0.2M KSCN, 10mM MgCl
|
Resolution 3.68 Å R-free 0.272 |
| 4P70 Crystal Structure of Unmodified tRNA Proline (CGG) Bound to Codon CCG on the Ribosome Deposited 2014-03-25 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 49 PDB declaration: 56-meric |
Chain XL
1–132（132 aa）
|
Not recorded | PAR PAROMOMYCIN × 1 MG MAGNESIUM ION × 362 ZN ZINC ION × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；pH 7；293 K；4% PEG 20k, 4% PEG550 MME, 0.1M TRIS-ACETATE, 0.2M KSCN, 10mM MgCl
|
Resolution 3.68 Å R-free 0.272 |
| 4TUA Crystal structure of ASL-Thr bound to Codon ACC-A on the Ribosome Deposited 2014-06-24 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 56-meric |
Chain QL
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 425 PAR PAROMOMYCIN × 1 ZN ZINC ION × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；pH 7；293 K；4% PEG 20k, 4% PEG550 MME, 0.1M TRIS-ACETATE, 0.2M KSCN, 10mM MgCl
|
Resolution 3.60 Å R-free 0.252 |
| 4TUA Crystal structure of ASL-Thr bound to Codon ACC-A on the Ribosome Deposited 2014-06-24 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 49 PDB declaration: 56-meric |
Chain XL
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 471 PAR PAROMOMYCIN × 1 ZN ZINC ION × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；pH 7；293 K；4% PEG 20k, 4% PEG550 MME, 0.1M TRIS-ACETATE, 0.2M KSCN, 10mM MgCl
|
Resolution 3.60 Å R-free 0.252 |
| 4TUB Crystal structure of tRNA-Thr bound to Codon ACC-C on the Ribosome Deposited 2014-06-24 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 56-meric |
Chain QL
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 426 PAR PAROMOMYCIN × 1 ZN ZINC ION × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；pH 7；293 K；4% PEG 20k, 4% PEG550 MME, 0.1M TRIS-ACETATE, 0.2M KSCN, 10mM MgCl
|
Resolution 3.60 Å R-free 0.259 |
| 4TUB Crystal structure of tRNA-Thr bound to Codon ACC-C on the Ribosome Deposited 2014-06-24 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 49 PDB declaration: 56-meric |
Chain XL
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 492 PAR PAROMOMYCIN × 1 ZN ZINC ION × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；pH 7；293 K；4% PEG 20k, 4% PEG550 MME, 0.1M TRIS-ACETATE, 0.2M KSCN, 10mM MgCl
|
Resolution 3.60 Å R-free 0.259 |
| 4TUC Crystal structure of ASL-SufJ bound to Codon ACC-A on the Ribosome Deposited 2014-06-24 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 56-meric |
Chain QL
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 354 ZN ZINC ION × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；pH 7；293 K；4% PEG 20k, 4% PEG550 MME, 0.1M TRIS-ACETATE, 0.2M KSCN, 10mM MgCl
|
Resolution 3.60 Å R-free 0.253 |
| 4TUC Crystal structure of ASL-SufJ bound to Codon ACC-A on the Ribosome Deposited 2014-06-24 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 49 PDB declaration: 56-meric |
Chain XL
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 394 ZN ZINC ION × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；pH 7；293 K；4% PEG 20k, 4% PEG550 MME, 0.1M TRIS-ACETATE, 0.2M KSCN, 10mM MgCl
|
Resolution 3.60 Å R-free 0.253 |
| 4TUD Crystal structure of ASL-SufJ bound to Codon ACC-C on the Ribosome Deposited 2014-06-24 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 56-meric |
Chain QL
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 393 PAR PAROMOMYCIN × 1 ZN ZINC ION × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；pH 7；293 K；4% PEG 20k, 4% PEG550 MME, 0.1M TRIS-ACETATE, 0.2M KSCN, 10mM MgCl
|
Resolution 3.60 Å R-free 0.244 |
| 4TUD Crystal structure of ASL-SufJ bound to Codon ACC-C on the Ribosome Deposited 2014-06-24 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 49 PDB declaration: 56-meric |
Chain XL
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 418 PAR PAROMOMYCIN × 1 ZN ZINC ION × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；pH 7；293 K；4% PEG 20k, 4% PEG550 MME, 0.1M TRIS-ACETATE, 0.2M KSCN, 10mM MgCl
|
Resolution 3.60 Å R-free 0.244 |
| 4TUE Crystal structure of ASL-SufJ bound to Codon ACC-U on the Ribosome Deposited 2014-06-24 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 56-meric |
Chain QL
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 422 PAR PAROMOMYCIN × 1 ZN ZINC ION × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；pH 7；293 K；4% PEG 20k, 4% PEG550 MME, 0.1M TRIS-ACETATE, 0.2M KSCN, 10mM MgCl
|
Resolution 3.50 Å R-free 0.250 |
| 4TUE Crystal structure of ASL-SufJ bound to Codon ACC-U on the Ribosome Deposited 2014-06-24 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 49 PDB declaration: 56-meric |
Chain XL
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 463 PAR PAROMOMYCIN × 1 ZN ZINC ION × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；pH 7；293 K；4% PEG 20k, 4% PEG550 MME, 0.1M TRIS-ACETATE, 0.2M KSCN, 10mM MgCl
|
Resolution 3.50 Å R-free 0.250 |
| 4V42 Crystal structure of the ribosome at 5.5 A resolution. Deposited 2001-03-30 | Different construct Different oligomeric state Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Insufficient information Heteromer；Protein × 42 PDB declaration: 49-meric |
Chain AO
1–131（131 aa）
|
Not recorded | No recorded non-water small molecule | X-RAY DIFFRACTION mmCIF provides none of the parsed conditions | Resolution 5.50 Å |
| 4V4P Crystal structure of 70S ribosome with thrS operator and tRNAs. Deposited 2005-01-19 | Different construct Different oligomeric state Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 52 PDB declaration: 58-meric |
Chain BO
1–135（135 aa）
|
Not recorded | No recorded non-water small molecule |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, HANGING DROP；pH 7.5；293 K；MPD, pH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 293K
|
Resolution 5.50 Å R-free 0.356 |
| 4V4X Crystal structure of the 70S Thermus thermophilus ribosome showing how the 16S 3'-end mimicks mRNA E and P codons. Deposited 2006-06-27 | Different construct Different oligomeric state Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 55-meric |
Chain AO
0–131（132 aa）
|
Not recorded | No recorded non-water small molecule |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, HANGING DROP；pH 7.5；293 K；MPD, pH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 293K
|
Resolution 5.00 Å R-free 0.323 |
| 4V51 Structure of the Thermus thermophilus 70S ribosome complexed with mRNA, tRNA and paromomycin Deposited 2006-07-31 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 56-meric |
Chain AL
1–131（131 aa）
|
Not recorded | MG MAGNESIUM ION × 741 PAR PAROMOMYCIN × 1 ZN ZINC ION × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
pH 7；0.2M KSCN, 4% PEG 20K, 4% PEG550 MME, 0.1M TRIS-ACETATE PH 7
|
Resolution 2.80 Å R-free 0.313 |
| 4V51 Structure of the Thermus thermophilus 70S ribosome complexed with mRNA, tRNA and paromomycin Deposited 2006-07-31 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 49 PDB declaration: 56-meric |
Chain CL
1–131（131 aa）
|
Not recorded | MG MAGNESIUM ION × 638 PAR PAROMOMYCIN × 1 ZN ZINC ION × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
pH 7；0.2M KSCN, 4% PEG 20K, 4% PEG550 MME, 0.1M TRIS-ACETATE PH 7
|
Resolution 2.80 Å R-free 0.313 |
| 4V5A Structure of the Ribosome Recycling Factor bound to the Thermus thermophilus 70S ribosome with mRNA, ASL-Phe and tRNA-fMet Deposited 2007-06-28 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 56-meric |
Chain AL
1–131（131 aa）
|
Not recorded | MG MAGNESIUM ION × 741 ZN ZINC ION × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
pH 7；COMPARE SELMER ET AL SCIENCE 2006, pH 7.0
|
Resolution 3.50 Å R-free 0.326 |
| 4V5A Structure of the Ribosome Recycling Factor bound to the Thermus thermophilus 70S ribosome with mRNA, ASL-Phe and tRNA-fMet Deposited 2007-06-28 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 50 PDB declaration: 56-meric |
Chain CL
1–131（131 aa）
|
Not recorded | MG MAGNESIUM ION × 741 ZN ZINC ION × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
pH 7；COMPARE SELMER ET AL SCIENCE 2006, pH 7.0
|
Resolution 3.50 Å R-free 0.326 |
| 4V5C Structure of the Thermus thermophilus 70S ribosome in complex with mRNA, paromomycin, acylated A-site tRNA, deacylated P-site tRNA, and E-site tRNA. Deposited 2009-03-24 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 57-meric |
Chain AL
2–132（131 aa）
Fragment：RESIDUES 2-132
|
Not recorded | MG MAGNESIUM ION × 741 PAR PAROMOMYCIN × 1 ZN ZINC ION × 3 |
X-RAY DIFFRACTION
X-ray crystallization conditions
pH 7.1；pH 7.1
|
Resolution 3.30 Å R-free 0.272 |
| 4V5C Structure of the Thermus thermophilus 70S ribosome in complex with mRNA, paromomycin, acylated A-site tRNA, deacylated P-site tRNA, and E-site tRNA. Deposited 2009-03-24 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 50 PDB declaration: 57-meric |
Chain CL
2–132（131 aa）
Fragment：RESIDUES 2-132
|
Not recorded | MG MAGNESIUM ION × 741 PAR PAROMOMYCIN × 1 ZN ZINC ION × 3 |
X-RAY DIFFRACTION
X-ray crystallization conditions
pH 7.1；pH 7.1
|
Resolution 3.30 Å R-free 0.272 |
| 4V5D Structure of the Thermus thermophilus 70S ribosome in complex with mRNA, paromomycin, acylated A- and P-site tRNAs, and E-site tRNA. Deposited 2009-03-24 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 57-meric |
Chain AL
2–132（131 aa）
Fragment：RESIDUES 2-132
|
Not recorded | MG MAGNESIUM ION × 673 PAR PAROMOMYCIN × 1 ZN ZINC ION × 3 |
X-RAY DIFFRACTION
X-ray crystallization conditions
pH 7.1；pH 7.1
|
Resolution 3.50 Å R-free 0.256 |
| 4V5D Structure of the Thermus thermophilus 70S ribosome in complex with mRNA, paromomycin, acylated A- and P-site tRNAs, and E-site tRNA. Deposited 2009-03-24 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 50 PDB declaration: 57-meric |
Chain CL
2–132（131 aa）
Fragment：RESIDUES 2-132
|
Not recorded | MG MAGNESIUM ION × 673 PAR PAROMOMYCIN × 1 ZN ZINC ION × 3 |
X-RAY DIFFRACTION
X-ray crystallization conditions
pH 7.1；pH 7.1
|
Resolution 3.50 Å R-free 0.256 |
| 4V5E Insights into translational termination from the structure of RF2 bound to the ribosome Deposited 2009-04-30 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 53 PDB declaration: 59-meric |
Chain AL
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 546 ZN ZINC ION × 3 |
X-RAY DIFFRACTION
X-ray crystallization conditions
pH 7.1；SEE SELMER ET AL., SCIENCE 2006, pH 7.1
|
Resolution 3.45 Å R-free 0.257 |
| 4V5E Insights into translational termination from the structure of RF2 bound to the ribosome Deposited 2009-04-30 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 53 PDB declaration: 59-meric |
Chain CL
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 546 ZN ZINC ION × 3 |
X-RAY DIFFRACTION
X-ray crystallization conditions
pH 7.1；SEE SELMER ET AL., SCIENCE 2006, pH 7.1
|
Resolution 3.45 Å R-free 0.257 |
| 4V5F The structure of the ribosome with elongation factor G trapped in the post-translocational state Deposited 2009-09-01 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 56 PDB declaration: 62-meric |
Chain AL
1–132（132 aa）
|
Not recorded | ZN ZINC ION × 4 MG MAGNESIUM ION × 1 FUA FUSIDIC ACID × 1 GDP GUANOSINE-5'-DIPHOSPHATE × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
pH 6.5；100 MM MES PH 6.5, 12%PEG 20K, 50 MM KCL, 10 MM NH4CL, 3UM DEOXY-BIG-CHAP
|
Resolution 3.60 Å R-free 0.260 |
| 4V5F The structure of the ribosome with elongation factor G trapped in the post-translocational state Deposited 2009-09-01 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 56 PDB declaration: 62-meric |
Chain CL
1–132（132 aa）
|
Not recorded | ZN ZINC ION × 4 MG MAGNESIUM ION × 1 FUA FUSIDIC ACID × 1 GDP GUANOSINE-5'-DIPHOSPHATE × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
pH 6.5；100 MM MES PH 6.5, 12%PEG 20K, 50 MM KCL, 10 MM NH4CL, 3UM DEOXY-BIG-CHAP
|
Resolution 3.60 Å R-free 0.260 |
| 4V5G The crystal structure of the 70S ribosome bound to EF-Tu and tRNA Deposited 2009-09-01 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 52 PDB declaration: 59-meric |
Chain AL
2–132（131 aa）
Fragment：RESIDUES 2-132
|
Not recorded | PAR PAROMOMYCIN × 1 ZN ZINC ION × 4 MG MAGNESIUM ION × 1 GDP GUANOSINE-5'-DIPHOSPHATE × 1 KIR KIRROMYCIN × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
pH 6.3；100 MM MES PH 6.3, 22-25 MM KCL, 50 MM SUCROSE, 1% GLYCEROL, 5.4% (W/V) PEG20K
|
Resolution 3.60 Å R-free 0.315 |
| 4V5G The crystal structure of the 70S ribosome bound to EF-Tu and tRNA Deposited 2009-09-01 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 52 PDB declaration: 59-meric |
Chain CL
2–132（131 aa）
Fragment：RESIDUES 2-132
|
Not recorded | PAR PAROMOMYCIN × 1 ZN ZINC ION × 4 MG MAGNESIUM ION × 1 GDP GUANOSINE-5'-DIPHOSPHATE × 1 KIR KIRROMYCIN × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
pH 6.3；100 MM MES PH 6.3, 22-25 MM KCL, 50 MM SUCROSE, 1% GLYCEROL, 5.4% (W/V) PEG20K
|
Resolution 3.60 Å R-free 0.315 |
| 4V5J Structure of the 70S ribosome bound to Release factor 2 and a substrate analog provides insights into catalysis of peptide release Deposited 2010-03-24 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 53 PDB declaration: 59-meric |
Chain AL
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 548 ZN ZINC ION × 3 |
X-RAY DIFFRACTION
X-ray crystallization conditions
pH 6.5；SEE SELMER ET AL., SCIENCE 2006, pH 6.5
|
Resolution 3.10 Å R-free 0.264 |
| 4V5J Structure of the 70S ribosome bound to Release factor 2 and a substrate analog provides insights into catalysis of peptide release Deposited 2010-03-24 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 53 PDB declaration: 59-meric |
Chain CL
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 546 ZN ZINC ION × 3 |
X-RAY DIFFRACTION
X-ray crystallization conditions
pH 6.5；SEE SELMER ET AL., SCIENCE 2006, pH 6.5
|
Resolution 3.10 Å R-free 0.264 |
| 4V5K Structure of cytotoxic domain of colicin E3 bound to the 70S ribosome Deposited 2010-05-29 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Insufficient information Heteromer；Protein × 52 PDB declaration: 58-meric |
Chain AL
1–135（135 aa）
|
Not recorded | MG MAGNESIUM ION × 1164 ZN ZINC ION × 3 |
X-RAY DIFFRACTION
X-ray crystallization conditions
pH 7.18；AS STATED IN STRUCTURE OF THE 70S RIBOSOME COMPLEXED WITH MRNA AND TRNA. (2006) SCIENCE 313: 1935, PH 7.18
|
Resolution 3.20 Å R-free 0.270 |
| 4V5K Structure of cytotoxic domain of colicin E3 bound to the 70S ribosome Deposited 2010-05-29 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Insufficient information Heteromer；Protein × 52 PDB declaration: 58-meric |
Chain CL
1–135（135 aa）
|
Not recorded | MG MAGNESIUM ION × 1170 ZN ZINC ION × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
pH 7.18；AS STATED IN STRUCTURE OF THE 70S RIBOSOME COMPLEXED WITH MRNA AND TRNA. (2006) SCIENCE 313: 1935, PH 7.18
|
Resolution 3.20 Å R-free 0.270 |
| 4V5M tRNA tranlocation on the 70S ribosome: the pre-translocational translocation intermediate TI(PRE) Deposited 2010-10-01 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 52 PDB declaration: 57-meric |
Chain AL
1–132（132 aa）
|
Not recorded | FUA FUSIDIC ACID × 1 GDP GUANOSINE-5'-DIPHOSPHATE × 1 |
ELECTRON MICROSCOPY
cryo-EM vitrification conditions
Cryogen ETHANE；VITRIFICATION 1 -- CRYOGEN- ETHANE, INSTRUMENT- VITROBOT (FEI)
|
Resolution 7.80 Å |
| 4V5N tRNA translocation on the 70S ribosome: the post- translocational translocation intermediate TI(POST) Deposited 2010-10-21 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 52 PDB declaration: 57-meric |
Chain AL
1–132（132 aa）
|
Not recorded | FUA FUSIDIC ACID × 1 GDP GUANOSINE-5'-DIPHOSPHATE × 1 |
ELECTRON MICROSCOPY
cryo-EM vitrification conditions
Cryogen ETHANE；VITRIFICATION 1 -- CRYOGEN- ETHANE, INSTRUMENT- VITROBOT (FEI)
|
Resolution 7.60 Å |
| 4V5P The crystal structure of EF-Tu and A9C-tRNA-Trp bound to a near- cognate codon on the 70S ribosome Deposited 2010-12-07 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 52 PDB declaration: 59-meric |
Chain AL
2–132（131 aa）
|
Not recorded | ZN ZINC ION × 4 GDP GUANOSINE-5'-DIPHOSPHATE × 1 KIR KIRROMYCIN × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
pH 6.3；100 MM MES PH 6.3, 60-100 MM KCL, 50 MM SUCROSE, 1% GLYCEROL, 5.2% (W/V) PEG20K
|
Resolution 3.10 Å R-free 0.267 |
| 4V5P The crystal structure of EF-Tu and A9C-tRNA-Trp bound to a near- cognate codon on the 70S ribosome Deposited 2010-12-07 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 52 PDB declaration: 59-meric |
Chain CL
2–132（131 aa）
|
Not recorded | ZN ZINC ION × 4 GDP GUANOSINE-5'-DIPHOSPHATE × 1 KIR KIRROMYCIN × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
pH 6.3；100 MM MES PH 6.3, 60-100 MM KCL, 50 MM SUCROSE, 1% GLYCEROL, 5.2% (W/V) PEG20K
|
Resolution 3.10 Å R-free 0.267 |
| 4V5Q The crystal structure of EF-Tu and G24A-tRNA-Trp bound to a near- cognate codon on the 70S ribosome Deposited 2010-12-07 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 52 PDB declaration: 59-meric |
Chain AL
1–132（132 aa）
|
Not recorded | ZN ZINC ION × 4 GDP GUANOSINE-5'-DIPHOSPHATE × 1 KIR KIRROMYCIN × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
pH 6.3；100 MM MES PH 6.3, 60-100 MM KCL, 50 MM SUCROSE, 1% GLYCEROL, 5.2% (W/V) PEG20K
|
Resolution 3.10 Å R-free 0.275 |
| 4V5Q The crystal structure of EF-Tu and G24A-tRNA-Trp bound to a near- cognate codon on the 70S ribosome Deposited 2010-12-07 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 52 PDB declaration: 59-meric |
Chain CL
2–132（131 aa）
|
Not recorded | ZN ZINC ION × 4 GDP GUANOSINE-5'-DIPHOSPHATE × 1 KIR KIRROMYCIN × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
pH 6.3；100 MM MES PH 6.3, 60-100 MM KCL, 50 MM SUCROSE, 1% GLYCEROL, 5.2% (W/V) PEG20K
|
Resolution 3.10 Å R-free 0.275 |
| 4V5R The crystal structure of EF-Tu and Trp-tRNA-Trp bound to a cognate codon on the 70S ribosome. Deposited 2010-12-07 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 52 PDB declaration: 59-meric |
Chain AL
2–132（131 aa）
|
Not recorded | ZN ZINC ION × 4 GDP GUANOSINE-5'-DIPHOSPHATE × 1 KIR KIRROMYCIN × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
pH 6.3；100 MM MES PH 6.3, 60-100 MM KCL, 50 MM SUCROSE, 1% GLYCEROL, 5.2% (W/V) PEG20K
|
Resolution 3.10 Å R-free 0.264 |
| 4V5R The crystal structure of EF-Tu and Trp-tRNA-Trp bound to a cognate codon on the 70S ribosome. Deposited 2010-12-07 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 52 PDB declaration: 59-meric |
Chain CL
2–132（131 aa）
|
Not recorded | ZN ZINC ION × 4 GDP GUANOSINE-5'-DIPHOSPHATE × 1 KIR KIRROMYCIN × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
pH 6.3；100 MM MES PH 6.3, 60-100 MM KCL, 50 MM SUCROSE, 1% GLYCEROL, 5.2% (W/V) PEG20K
|
Resolution 3.10 Å R-free 0.264 |
| 4V5S The crystal structure of EF-Tu and G24A-tRNA-Trp bound to a cognate codon on the 70S ribosome. Deposited 2010-12-07 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 52 PDB declaration: 59-meric |
Chain AL
2–132（131 aa）
|
Not recorded | ZN ZINC ION × 4 GDP GUANOSINE-5'-DIPHOSPHATE × 1 KIR KIRROMYCIN × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
pH 6.3；100 MM MES PH 6.3, 60-100 MM KCL, 50 MM SUCROSE, 1% GLYCEROL, 5.2% (W/V) PEG20K
|
Resolution 3.10 Å R-free 0.285 |
| 4V5S The crystal structure of EF-Tu and G24A-tRNA-Trp bound to a cognate codon on the 70S ribosome. Deposited 2010-12-07 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 52 PDB declaration: 59-meric |
Chain CL
2–132（131 aa）
|
Not recorded | ZN ZINC ION × 4 GDP GUANOSINE-5'-DIPHOSPHATE × 1 KIR KIRROMYCIN × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
pH 6.3；100 MM MES PH 6.3, 60-100 MM KCL, 50 MM SUCROSE, 1% GLYCEROL, 5.2% (W/V) PEG20K
|
Resolution 3.10 Å R-free 0.285 |
| 4V68 T. thermophilus 70S ribosome in complex with mRNA, tRNAs and EF-Tu.GDP.kirromycin ternary complex, fitted to a 6.4 A Cryo-EM map. Deposited 2008-12-11 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 52 PDB declaration: 60-meric |
Chain AL
2–126（125 aa）
|
Not recorded | PHA PHENYLALANINAL × 1 GDP GUANOSINE-5'-DIPHOSPHATE × 1 MAU N-METHYL KIRROMYCIN × 1 BME BETA-MERCAPTOETHANOL × 1 |
ELECTRON MICROSCOPY
cryo-EM vitrification conditions
Cryogen METHANE；A Vitrobot was used to shock-freeze the sample in liquid methane.
|
Resolution 6.40 Å |
| 4V6A Structure of EF-P bound to the 70S ribosome. Deposited 2009-06-15 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 51 PDB declaration: 56-meric |
Chain AL
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 611 ZN ZINC ION × 3 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCL, 0.1 M Tris pH 7.6, 2.5 % Peg 20K, 7-12% MPD, 0.5 mM BME, vapor diffusion, temperature 292K
|
Resolution 3.10 Å R-free 0.302 |
| 4V6A Structure of EF-P bound to the 70S ribosome. Deposited 2009-06-15 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 51 PDB declaration: 56-meric |
Chain CL
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 439 ZN ZINC ION × 3 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCL, 0.1 M Tris pH 7.6, 2.5 % Peg 20K, 7-12% MPD, 0.5 mM BME, vapor diffusion, temperature 292K
|
Resolution 3.10 Å R-free 0.302 |
| 4V6F Elongation complex of the 70S ribosome with three tRNAs and mRNA. Deposited 2009-07-09 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Insufficient information Heteromer；Protein × 48 PDB declaration: 55-meric |
Chain BO
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 2089 ZN ZINC ION × 3 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.5；293 K；4% PEG20K, 4% PEGMME 550, 100mM Tris/HAc, 200mM KSCN, pH 7.5, vapor diffusion, temperature 293K
|
Resolution 3.10 Å R-free 0.255 |
| 4V6F Elongation complex of the 70S ribosome with three tRNAs and mRNA. Deposited 2009-07-09 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Insufficient information Heteromer；Protein × 52 PDB declaration: 59-meric |
Chain CO
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 3256 ZN ZINC ION × 3 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.5；293 K；4% PEG20K, 4% PEGMME 550, 100mM Tris/HAc, 200mM KSCN, pH 7.5, vapor diffusion, temperature 293K
|
Resolution 3.10 Å R-free 0.255 |
| 4V6G Initiation complex of 70S ribosome with two tRNAs and mRNA. Deposited 2009-07-10 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Insufficient information Heteromer；Protein × 48 PDB declaration: 54-meric |
Chain AO
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 1216 ZN ZINC ION × 4 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.5；293 K；4% PEG20K, 4% PEGMME 550, 100mM Tris/HAc, 200mM KSCN, pH 7.5, vapor diffusion, temperature 293K
|
Resolution 3.50 Å R-free 0.252 |
| 4V6G Initiation complex of 70S ribosome with two tRNAs and mRNA. Deposited 2009-07-10 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Insufficient information Heteromer；Protein × 48 PDB declaration: 55-meric |
Chain CO
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 1437 ZN ZINC ION × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.5；293 K；4% PEG20K, 4% PEGMME 550, 100mM Tris/HAc, 200mM KSCN, pH 7.5, vapor diffusion, temperature 293K
|
Resolution 3.50 Å R-free 0.252 |
| 4V7J Structure of RelE nuclease bound to the 70S ribosome (precleavage state) Deposited 2009-11-02 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Insufficient information Heteromer；Protein × 52 PDB declaration: 58-meric |
Chain not uniquely mapped
Reference range not declared
|
Not recorded | ZN ZINC ION × 4 MG MAGNESIUM ION × 532 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, HANGING DROP；pH 7.2；293 K；0.1M Tris-HAc, 0.2M KSCN, 3-4.5% w/v PEG 20k, 3-4.5% PEG 550 monomethylether, pH 7.2, VAPOR DIFFUSION, HANGING DROP, temperature 293K
|
Resolution 3.30 Å R-free 0.247 |
| 4V7J Structure of RelE nuclease bound to the 70S ribosome (precleavage state) Deposited 2009-11-02 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Insufficient information Heteromer；Protein × 52 PDB declaration: 58-meric |
Chain Bl
1–132（132 aa）
|
Not recorded | ZN ZINC ION × 4 MG MAGNESIUM ION × 532 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, HANGING DROP；pH 7.2；293 K；0.1M Tris-HAc, 0.2M KSCN, 3-4.5% w/v PEG 20k, 3-4.5% PEG 550 monomethylether, pH 7.2, VAPOR DIFFUSION, HANGING DROP, temperature 293K
|
Resolution 3.30 Å R-free 0.247 |
| 4V7K Structure of RelE nuclease bound to the 70S ribosome (postcleavage state) Deposited 2009-11-02 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 52 PDB declaration: 58-meric |
Chain Al
1–132（132 aa）
|
Not recorded | ZN ZINC ION × 4 MG MAGNESIUM ION × 532 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；pH 7.2；293 K；0.1 M Tris-HAc, 0.2 M KSCN, 3-4.5% PEG20K (W/V), 3-4.5% PEG550 MME, pH 7.2, VAPOR DIFFUSION, SITTING DROP, temperature 293K
|
Resolution 3.60 Å R-free 0.245 |
| 4V7K Structure of RelE nuclease bound to the 70S ribosome (postcleavage state) Deposited 2009-11-02 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 52 PDB declaration: 58-meric |
Chain Bl
1–132（132 aa）
|
Not recorded | ZN ZINC ION × 4 MG MAGNESIUM ION × 532 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；pH 7.2；293 K；0.1 M Tris-HAc, 0.2 M KSCN, 3-4.5% PEG20K (W/V), 3-4.5% PEG550 MME, pH 7.2, VAPOR DIFFUSION, SITTING DROP, temperature 293K
|
Resolution 3.60 Å R-free 0.245 |
| 4V7L The structures of viomycin bound to the 70S ribosome. Deposited 2009-11-12 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 51 PDB declaration: 58-meric |
Chain AL
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 577 ZN ZINC ION × 4 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCL, 0.1 M Tris pH 7.6, 2.5% Peg 20K, 7-12% MPD, 0.5 mM BME, vapor diffusion, temperature 292K
|
Resolution 3.00 Å R-free 0.272 |
| 4V7L The structures of viomycin bound to the 70S ribosome. Deposited 2009-11-12 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 51 PDB declaration: 58-meric |
Chain CL
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 388 ZN ZINC ION × 4 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCL, 0.1 M Tris pH 7.6, 2.5% Peg 20K, 7-12% MPD, 0.5 mM BME, vapor diffusion, temperature 292K
|
Resolution 3.00 Å R-free 0.272 |
| 4V7M The structures of Capreomycin bound to the 70S ribosome. Deposited 2009-11-12 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 51 PDB declaration: 58-meric |
Chain AL
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 483 ZN ZINC ION × 4 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCL, 0.1 M Tris pH 7.6, 2.5% Peg 20K, 7-12% MPD, 0.5 mM BME, vapor diffusion, temperature 292K
|
Resolution 3.45 Å R-free 0.268 |
| 4V7M The structures of Capreomycin bound to the 70S ribosome. Deposited 2009-11-12 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 51 PDB declaration: 58-meric |
Chain CL
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 359 ZN ZINC ION × 4 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCL, 0.1 M Tris pH 7.6, 2.5% Peg 20K, 7-12% MPD, 0.5 mM BME, vapor diffusion, temperature 292K
|
Resolution 3.45 Å R-free 0.268 |
| 4V7W Structure of the Thermus thermophilus ribosome complexed with chloramphenicol. Deposited 2010-08-16 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 48 PDB declaration: 51-meric |
Chain AL
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 445 ZN ZINC ION × 2 K POTASSIUM ION × 1 CLM CHLORAMPHENICOL × 1 | X-RAY DIFFRACTION mmCIF provides none of the parsed conditions | Resolution 3.00 Å R-free 0.281 |
| 4V7W Structure of the Thermus thermophilus ribosome complexed with chloramphenicol. Deposited 2010-08-16 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 48 PDB declaration: 51-meric |
Chain CL
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 400 ZN ZINC ION × 2 K POTASSIUM ION × 1 CLM CHLORAMPHENICOL × 1 | X-RAY DIFFRACTION mmCIF provides none of the parsed conditions | Resolution 3.00 Å R-free 0.281 |
| 4V7X Structure of the Thermus thermophilus ribosome complexed with erythromycin. Deposited 2010-08-17 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 48 PDB declaration: 51-meric |
Chain AL
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 438 ZN ZINC ION × 2 K POTASSIUM ION × 1 ERY ERYTHROMYCIN A × 1 | X-RAY DIFFRACTION mmCIF provides none of the parsed conditions | Resolution 3.00 Å R-free 0.278 |
| 4V7X Structure of the Thermus thermophilus ribosome complexed with erythromycin. Deposited 2010-08-17 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 48 PDB declaration: 51-meric |
Chain CL
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 392 ZN ZINC ION × 2 K POTASSIUM ION × 1 ERY ERYTHROMYCIN A × 1 | X-RAY DIFFRACTION mmCIF provides none of the parsed conditions | Resolution 3.00 Å R-free 0.278 |
| 4V7Y Structure of the Thermus thermophilus 70S ribosome complexed with azithromycin. Deposited 2010-08-18 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 48 PDB declaration: 51-meric |
Chain AL
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 421 ZN ZINC ION × 2 K POTASSIUM ION × 1 ZIT AZITHROMYCIN × 1 | X-RAY DIFFRACTION mmCIF provides none of the parsed conditions | Resolution 3.00 Å R-free 0.269 |
| 4V7Y Structure of the Thermus thermophilus 70S ribosome complexed with azithromycin. Deposited 2010-08-18 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 48 PDB declaration: 51-meric |
Chain CL
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 373 ZN ZINC ION × 2 K POTASSIUM ION × 1 ZIT AZITHROMYCIN × 1 | X-RAY DIFFRACTION mmCIF provides none of the parsed conditions | Resolution 3.00 Å R-free 0.269 |
| 4V7Z Structure of the Thermus thermophilus 70S ribosome complexed with telithromycin. Deposited 2010-08-18 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 48 PDB declaration: 51-meric |
Chain AL
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 435 ZN ZINC ION × 2 K POTASSIUM ION × 1 TEL TELITHROMYCIN × 1 | X-RAY DIFFRACTION mmCIF provides none of the parsed conditions | Resolution 3.10 Å R-free 0.284 |
| 4V7Z Structure of the Thermus thermophilus 70S ribosome complexed with telithromycin. Deposited 2010-08-18 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 48 PDB declaration: 51-meric |
Chain CL
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 384 ZN ZINC ION × 2 K POTASSIUM ION × 1 TEL TELITHROMYCIN × 1 | X-RAY DIFFRACTION mmCIF provides none of the parsed conditions | Resolution 3.10 Å R-free 0.284 |
| 4V87 Crystal structure analysis of ribosomal decoding. Deposited 2011-09-20 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 48 PDB declaration: 55-meric |
Chain BO
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 937 ZN ZINC ION × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, HANGING DROP；pH 7.5；293 K；4% PEG20K, 4% PEGMME 550, 100mM Tris/HAc, 200mM KSCN, pH 7.5, vapor diffusion, hanging drop, temperature 293K
|
Resolution 3.10 Å R-free 0.240 |
| 4V87 Crystal structure analysis of ribosomal decoding. Deposited 2011-09-20 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 48 PDB declaration: 55-meric |
Chain CO
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 779 ZN ZINC ION × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, HANGING DROP；pH 7.5；293 K；4% PEG20K, 4% PEGMME 550, 100mM Tris/HAc, 200mM KSCN, pH 7.5, vapor diffusion, hanging drop, temperature 293K
|
Resolution 3.10 Å R-free 0.240 |
| 4V8A The structure of thermorubin in complex with the 70S ribosome from Thermus thermophilus. Deposited 2011-12-05 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 48 PDB declaration: 51-meric |
Chain DL
1–132（132 aa）
|
Not recorded | T8B Thermorubin × 1 MG MAGNESIUM ION × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；pH 7.6；293 K；2.9% PEG 20K, 9% MPD, 0.1M Tris-HCl pH 7.6, 175 mM L-Arginine, VAPOR DIFFUSION, SITTING DROP, temperature 293K
|
Resolution 3.20 Å R-free 0.273 |
| 4V8A The structure of thermorubin in complex with the 70S ribosome from Thermus thermophilus. Deposited 2011-12-05 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 48 PDB declaration: 51-meric |
Chain CL
1–132（132 aa）
|
Not recorded | T8B Thermorubin × 1 MG MAGNESIUM ION × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；pH 7.6；293 K；2.9% PEG 20K, 9% MPD, 0.1M Tris-HCl pH 7.6, 175 mM L-Arginine, VAPOR DIFFUSION, SITTING DROP, temperature 293K
|
Resolution 3.20 Å R-free 0.273 |
| 4V8B Crystal structure analysis of ribosomal decoding (near-cognate tRNA-leu complex). Deposited 2011-12-06 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 48 PDB declaration: 55-meric |
Chain AO
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 924 ZN ZINC ION × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, HANGING DROP；pH 7.5；293 K；4% PEG20K, 4% PEGMME 550, 100mM Tris/HAc, 200mM KSCN, pH 7.5, vapor diffusion, hanging drop, temperature 293K
|
Resolution 3.00 Å R-free 0.272 |
| 4V8B Crystal structure analysis of ribosomal decoding (near-cognate tRNA-leu complex). Deposited 2011-12-06 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 48 PDB declaration: 55-meric |
Chain CO
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 772 ZN ZINC ION × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, HANGING DROP；pH 7.5；293 K；4% PEG20K, 4% PEGMME 550, 100mM Tris/HAc, 200mM KSCN, pH 7.5, vapor diffusion, hanging drop, temperature 293K
|
Resolution 3.00 Å R-free 0.272 |
| 4V8C Crystal structure analysis of ribosomal decoding (near-cognate tRNA-leu complex with paromomycin). Deposited 2011-12-07 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 48 PDB declaration: 55-meric |
Chain CO
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 926 PAR PAROMOMYCIN × 1 ZN ZINC ION × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, HANGING DROP；pH 7.5；293 K；4% PEG20K, 4% PEGMME 550, 100mM Tris/HAc, 200mM KSCN, pH 7.5, vapor diffusion, hanging drop, temperature 293K
|
Resolution 3.30 Å R-free 0.237 |
| 4V8C Crystal structure analysis of ribosomal decoding (near-cognate tRNA-leu complex with paromomycin). Deposited 2011-12-07 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 48 PDB declaration: 55-meric |
Chain DO
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 771 PAR PAROMOMYCIN × 1 ZN ZINC ION × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, HANGING DROP；pH 7.5；293 K；4% PEG20K, 4% PEGMME 550, 100mM Tris/HAc, 200mM KSCN, pH 7.5, vapor diffusion, hanging drop, temperature 293K
|
Resolution 3.30 Å R-free 0.237 |
| 4V8D Structure analysis of ribosomal decoding (cognate tRNA-tyr complex). Deposited 2011-12-07 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 48 PDB declaration: 55-meric |
Chain AO
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 847 ZN ZINC ION × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, HANGING DROP；pH 7.5；293 K；4% PEG20K, 4% PEGMME 550, 100mM Tris/HAc, 200mM KSCN, pH 7.5, vapor diffusion, hanging drop, temperature 293K
|
Resolution 3.00 Å R-free 0.235 |
| 4V8D Structure analysis of ribosomal decoding (cognate tRNA-tyr complex). Deposited 2011-12-07 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 48 PDB declaration: 55-meric |
Chain CO
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 757 ZN ZINC ION × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, HANGING DROP；pH 7.5；293 K；4% PEG20K, 4% PEGMME 550, 100mM Tris/HAc, 200mM KSCN, pH 7.5, vapor diffusion, hanging drop, temperature 293K
|
Resolution 3.00 Å R-free 0.235 |
| 4V8E Crystal structure analysis of ribosomal decoding (near-cognate tRNA-tyr complex). Deposited 2011-12-07 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 48 PDB declaration: 55-meric |
Chain BO
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 479 OHX osmium (III) hexammine × 370 ZN ZINC ION × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, HANGING DROP；pH 7.5；293 K；4% PEG20K, 4% PEGMME 550, 100mM Tris/HAc, 200mM KSCN, pH 7.5, vapor diffusion, hanging drop, temperature 293K
|
Resolution 3.30 Å R-free 0.259 |
| 4V8E Crystal structure analysis of ribosomal decoding (near-cognate tRNA-tyr complex). Deposited 2011-12-07 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 48 PDB declaration: 55-meric |
Chain DO
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 415 OHX osmium (III) hexammine × 342 ZN ZINC ION × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, HANGING DROP；pH 7.5；293 K；4% PEG20K, 4% PEGMME 550, 100mM Tris/HAc, 200mM KSCN, pH 7.5, vapor diffusion, hanging drop, temperature 293K
|
Resolution 3.30 Å R-free 0.259 |
| 4V8F Crystal structure analysis of ribosomal decoding (near-cognate tRNA-ttyr complex with paromomycin). Deposited 2011-12-07 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 48 PDB declaration: 55-meric |
Chain BO
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 486 OHX osmium (III) hexammine × 369 PAR PAROMOMYCIN × 1 ZN ZINC ION × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, HANGING DROP；pH 7.5；293 K；4% PEG20K, 4% PEGMME 550, 100mM Tris/HAc, 200mM KSCN, pH 7.5, vapor diffusion, hanging drop, temperature 293K
|
Resolution 3.30 Å R-free 0.247 |
| 4V8F Crystal structure analysis of ribosomal decoding (near-cognate tRNA-ttyr complex with paromomycin). Deposited 2011-12-07 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 48 PDB declaration: 55-meric |
Chain CO
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 417 OHX osmium (III) hexammine × 341 PAR PAROMOMYCIN × 1 ZN ZINC ION × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, HANGING DROP；pH 7.5；293 K；4% PEG20K, 4% PEGMME 550, 100mM Tris/HAc, 200mM KSCN, pH 7.5, vapor diffusion, hanging drop, temperature 293K
|
Resolution 3.30 Å R-free 0.247 |
| 4V8G Crystal structure of RMF bound to the 70S ribosome. Deposited 2011-12-11 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 53-meric |
Chain AL
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 776 ZN ZINC ION × 7 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.5% PEG-20K, 7-12% MPD, 0.5mM BME, VAPOR DIFFUSION, temperature 292K
|
Resolution 3.00 Å R-free 0.254 |
| 4V8G Crystal structure of RMF bound to the 70S ribosome. Deposited 2011-12-11 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 50 PDB declaration: 53-meric |
Chain CL
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 512 ZN ZINC ION × 7 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.5% PEG-20K, 7-12% MPD, 0.5mM BME, VAPOR DIFFUSION, temperature 292K
|
Resolution 3.00 Å R-free 0.254 |
| 4V8H Crystal structure of HPF bound to the 70S ribosome. Deposited 2011-12-11 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 53-meric |
Chain AL
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 857 ZN ZINC ION × 7 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.5% PEG-20K, 7-12% MPD, 0.5mM BME, VAPOR DIFFUSION, temperature 292K
|
Resolution 3.10 Å R-free 0.258 |
| 4V8H Crystal structure of HPF bound to the 70S ribosome. Deposited 2011-12-11 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 50 PDB declaration: 53-meric |
Chain CL
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 791 ZN ZINC ION × 7 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.5% PEG-20K, 7-12% MPD, 0.5mM BME, VAPOR DIFFUSION, temperature 292K
|
Resolution 3.10 Å R-free 0.258 |
| 4V8I Crystal structure of YfiA bound to the 70S ribosome. Deposited 2011-12-12 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 53-meric |
Chain AL
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 1042 ZN ZINC ION × 7 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.5% PEG-20K, 7-12% MPD, 0.5mM BME, VAPOR DIFFUSION, temperature 292K
|
Resolution 2.70 Å R-free 0.254 |
| 4V8I Crystal structure of YfiA bound to the 70S ribosome. Deposited 2011-12-12 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 50 PDB declaration: 53-meric |
Chain CL
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 889 ZN ZINC ION × 7 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.5% PEG-20K, 7-12% MPD, 0.5mM BME, VAPOR DIFFUSION, temperature 292K
|
Resolution 2.70 Å R-free 0.254 |
| 4V8J Crystal structure of the bacterial ribosome ram mutation G347U. Deposited 2011-12-20 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 57-meric |
Chain AL
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 369 PAR PAROMOMYCIN × 1 ZN ZINC ION × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；pH 7；293 K；3.5-4.5% PEG 20K, 3.5-4.5% PEG550 MME, 0.1M TRIS-ACETATE, 0.2M KSCN, 10MM MGCL2, PH 7.0, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 293K
|
Resolution 3.90 Å R-free 0.269 |
| 4V8J Crystal structure of the bacterial ribosome ram mutation G347U. Deposited 2011-12-20 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 50 PDB declaration: 57-meric |
Chain CL
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 371 PAR PAROMOMYCIN × 1 ZN ZINC ION × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；pH 7；293 K；3.5-4.5% PEG 20K, 3.5-4.5% PEG550 MME, 0.1M TRIS-ACETATE, 0.2M KSCN, 10MM MGCL2, PH 7.0, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 293K
|
Resolution 3.90 Å R-free 0.269 |
| 4V8N The crystal structure of agmatidine tRNA-Ile2 bound to the 70S ribosome in the A and P site. Deposited 2013-02-13 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 51 PDB declaration: 58-meric |
Chain AL
2–132（131 aa）
|
Not recorded | ZN ZINC ION × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
pH 7.1；0.1 M TRIS-ACETATE PH 7, 0.2 M KSCN, 3.5-5.5% (W/V) PEG 20K, AND 3.5-5.5% (W/V) PEG 550 MONOMETHYL ETHER
|
Resolution 3.10 Å R-free 0.280 |
| 4V8N The crystal structure of agmatidine tRNA-Ile2 bound to the 70S ribosome in the A and P site. Deposited 2013-02-13 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 51 PDB declaration: 58-meric |
Chain CL
2–132（131 aa）
|
Not recorded | ZN ZINC ION × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
pH 7.1；0.1 M TRIS-ACETATE PH 7, 0.2 M KSCN, 3.5-5.5% (W/V) PEG 20K, AND 3.5-5.5% (W/V) PEG 550 MONOMETHYL ETHER
|
Resolution 3.10 Å R-free 0.280 |
| 4V8O Crystal structure of the hybrid state of ribosome in complex with the guanosine triphosphatase release factor 3 Deposited 2011-07-26 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 52 PDB declaration: 57-meric |
Chain AL
2–132（131 aa）
|
Not recorded | GCP PHOSPHOMETHYLPHOSPHONIC ACID GUANYLATE ESTER × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
pH 6.7；100 MM MES-KOH PH 6.7, 20 MM KCL, 7.4% (W/V) PEG20K
|
Resolution 3.80 Å R-free 0.351 |
| 4V8Q Complex of SmpB, a tmRNA fragment and EF-Tu-GDP-Kirromycin with the 70S ribosome Deposited 2011-12-10 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 53 PDB declaration: 60-meric |
Chain BL
2–132（131 aa）
|
Not recorded | ZN ZINC ION × 3 MG MAGNESIUM ION × 2 KIR KIRROMYCIN × 1 GDP GUANOSINE-5'-DIPHOSPHATE × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
pH 6.5；100 MM MES PH 6.5, 20 MM KCL, 8% (W/V) PEG20K
|
Resolution 3.10 Å R-free 0.270 |
| 4V8U Crystal Structure of 70S Ribosome with Both Cognate tRNAs in the E and P Sites Representing an Authentic Elongation Complex. Deposited 2012-08-28 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 51 PDB declaration: 57-meric |
Chain AL
1–132（132 aa）
|
Not recorded | ZN ZINC ION × 4 FUA FUSIDIC ACID × 1 GDP GUANOSINE-5'-DIPHOSPHATE × 1 MG MAGNESIUM ION × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
pH 6.4；0.1M MES, PH6.5, 8.5-9.0% PEG20K, 0-25MM KCL, pH 6.4
|
Resolution 3.70 Å R-free 0.249 |
| 4V8U Crystal Structure of 70S Ribosome with Both Cognate tRNAs in the E and P Sites Representing an Authentic Elongation Complex. Deposited 2012-08-28 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 51 PDB declaration: 57-meric |
Chain CL
1–132（132 aa）
|
Not recorded | ZN ZINC ION × 4 FUA FUSIDIC ACID × 1 GDP GUANOSINE-5'-DIPHOSPHATE × 1 MG MAGNESIUM ION × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
pH 6.4；0.1M MES, PH6.5, 8.5-9.0% PEG20K, 0-25MM KCL, pH 6.4
|
Resolution 3.70 Å R-free 0.249 |
| 4V8X Structure of Thermus thermophilus ribosome Deposited 2013-07-19 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Insufficient information Heteromer；Protein × 53 PDB declaration: 59-meric |
Chain not uniquely mapped
Reference range not declared
|
Not recorded | MG MAGNESIUM ION × 352 ZN ZINC ION × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
pH 7.1；0.1 M TRIS-HAC PH 7.2, 0.2 M KSCN, 4.1%-4.3% (W/V) PEG 20K AND 4.1%-4.3% (W/V) PEG 550MME
|
Resolution 3.35 Å R-free 0.261 |
| 4V8X Structure of Thermus thermophilus ribosome Deposited 2013-07-19 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Insufficient information Heteromer；Protein × 53 PDB declaration: 59-meric |
Chain CL
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 355 ZN ZINC ION × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
pH 7.1；0.1 M TRIS-HAC PH 7.2, 0.2 M KSCN, 4.1%-4.3% (W/V) PEG 20K AND 4.1%-4.3% (W/V) PEG 550MME
|
Resolution 3.35 Å R-free 0.261 |
| 4V90 Thermus thermophilus Ribosome Deposited 2014-02-22 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 53 PDB declaration: 58-meric |
Chain AL
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 523 ZN ZINC ION × 3 GCP PHOSPHOMETHYLPHOSPHONIC ACID GUANYLATE ESTER × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
pH 6.5；0.1M MES PH 6.5, 5.8-6.8%PEG20K, 30-120 MM KCL AND 0.8-2.5% GLYCEROL
|
Resolution 2.95 Å R-free 0.244 |
| 4V95 Crystal structure of YAEJ bound to the 70S ribosome Deposited 2012-01-27 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 55-meric |
Chain AL
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 1359 ZN ZINC ION × 7 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.5% PEG-20K, 7-12% MPD, 0.5mM BME, vapor diffusion, temperature 292K
|
Resolution 3.20 Å R-free 0.245 |
| 4V95 Crystal structure of YAEJ bound to the 70S ribosome Deposited 2012-01-27 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 49 PDB declaration: 54-meric |
Chain CL
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 977 ZN ZINC ION × 7 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.5% PEG-20K, 7-12% MPD, 0.5mM BME, vapor diffusion, temperature 292K
|
Resolution 3.20 Å R-free 0.245 |
| 4V97 Crystal structure of the bacterial ribosome ram mutation G299A. Deposited 2012-04-06 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 57-meric |
Chain AL
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 457 PAR PAROMOMYCIN × 1 ZN ZINC ION × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；pH 7；293 K；4% PEG 20k, 4% PEG550 MME, 0.1M TRIS-ACETATE, 0.2M KSCN, 10mM MgCl2, pH 7.0, VAPOR DIFFUSION, SITTING DROP, temperature 293K
|
Resolution 3.52 Å R-free 0.249 |
| 4V97 Crystal structure of the bacterial ribosome ram mutation G299A. Deposited 2012-04-06 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 50 PDB declaration: 57-meric |
Chain CL
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 576 PAR PAROMOMYCIN × 1 ZN ZINC ION × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；pH 7；293 K；4% PEG 20k, 4% PEG550 MME, 0.1M TRIS-ACETATE, 0.2M KSCN, 10mM MgCl2, pH 7.0, VAPOR DIFFUSION, SITTING DROP, temperature 293K
|
Resolution 3.52 Å R-free 0.249 |
| 4V9A Crystal Structure of the 70S ribosome with tetracycline. Deposited 2012-07-18 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 48 PDB declaration: 53-meric |
Chain AO
1–128（128 aa）
|
Not recorded | MG MAGNESIUM ION × 921 TAC TETRACYCLINE × 1 ZN ZINC ION × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, HANGING DROP；pH 7.5；293 K；4% PEG20K, 4% PEGMME 550, 100mM Tris/HAc, 200mM KSCN, pH 7.5, vapor diffusion, hanging drop, temperature 293K
|
Resolution 3.30 Å R-free 0.254 |
| 4V9A Crystal Structure of the 70S ribosome with tetracycline. Deposited 2012-07-18 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 48 PDB declaration: 53-meric |
Chain CO
1–128（128 aa）
|
Not recorded | MG MAGNESIUM ION × 766 TAC TETRACYCLINE × 1 ZN ZINC ION × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, HANGING DROP；pH 7.5；293 K；4% PEG20K, 4% PEGMME 550, 100mM Tris/HAc, 200mM KSCN, pH 7.5, vapor diffusion, hanging drop, temperature 293K
|
Resolution 3.30 Å R-free 0.254 |
| 4V9B Crystal Structure of the 70S ribosome with tigecycline. Deposited 2012-07-18 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 48 PDB declaration: 54-meric |
Chain AO
1–128（128 aa）
|
Not recorded | MG MAGNESIUM ION × 922 T1C TIGECYCLINE × 1 ZN ZINC ION × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, HANGING DROP；pH 7.5；293 K；4% PEG20K, 4% PEGMME 550, 100mM Tris/HAc, 200mM KSCN, pH 7.5, vapor diffusion, hanging drop, temperature 293K
|
Resolution 3.10 Å R-free 0.269 |
| 4V9B Crystal Structure of the 70S ribosome with tigecycline. Deposited 2012-07-18 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 48 PDB declaration: 54-meric |
Chain CO
1–128（128 aa）
|
Not recorded | MG MAGNESIUM ION × 764 T1C TIGECYCLINE × 1 ZN ZINC ION × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, HANGING DROP；pH 7.5；293 K；4% PEG20K, 4% PEGMME 550, 100mM Tris/HAc, 200mM KSCN, pH 7.5, vapor diffusion, hanging drop, temperature 293K
|
Resolution 3.10 Å R-free 0.269 |
| 4V9H Crystal structure of the ribosome bound to elongation factor G in the guanosine triphosphatase state Deposited 2013-03-25 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 53 PDB declaration: 58-meric |
Chain AL
5–128（124 aa）
|
Not recorded | MG MAGNESIUM ION × 138 GCP PHOSPHOMETHYLPHOSPHONIC ACID GUANYLATE ESTER × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, HANGING DROP；pH 6.3；294 K；100mM MES pH 6.3, 75mM KCl, 6.0% PEG 20K, VAPOR DIFFUSION, HANGING DROP, temperature 294K
|
Resolution 2.86 Å R-free 0.250 |
| 4V9I Crystal structure of thermus thermophilus 70S in complex with tRNAs and mRNA containing a pseudouridine in a stop codon Deposited 2013-04-04 | Different construct Different oligomeric state Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 51 PDB declaration: 58-meric |
Chain AL
5–128（124 aa）
|
Not recorded | No recorded non-water small molecule | X-RAY DIFFRACTION mmCIF provides none of the parsed conditions | Resolution 3.30 Å R-free 0.279 |
| 4V9I Crystal structure of thermus thermophilus 70S in complex with tRNAs and mRNA containing a pseudouridine in a stop codon Deposited 2013-04-04 | Different construct Different oligomeric state Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 51 PDB declaration: 58-meric |
Chain CL
5–128（124 aa）
|
Not recorded | No recorded non-water small molecule | X-RAY DIFFRACTION mmCIF provides none of the parsed conditions | Resolution 3.30 Å R-free 0.279 |
| 4V9R Crystal structure of antibiotic DITYROMYCIN bound to 70S ribosome Deposited 2013-12-05 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 55-meric |
Chain AL
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 1086 SF4 IRON/SULFUR CLUSTER × 1 ZN ZINC ION × 6 FME N-FORMYLMETHIONINE × 1 K POTASSIUM ION × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.5% PEG-20K, 7-12% MPD, 0.5mM BME, VAPOR DIFFUSION, temperature 292K
|
Resolution 3.00 Å R-free 0.259 |
| 4V9R Crystal structure of antibiotic DITYROMYCIN bound to 70S ribosome Deposited 2013-12-05 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 50 PDB declaration: 55-meric |
Chain CL
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 887 SF4 IRON/SULFUR CLUSTER × 1 ZN ZINC ION × 6 FME N-FORMYLMETHIONINE × 1 K POTASSIUM ION × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.5% PEG-20K, 7-12% MPD, 0.5mM BME, VAPOR DIFFUSION, temperature 292K
|
Resolution 3.00 Å R-free 0.259 |
| 4V9S Crystal structure of antibiotic GE82832 bound to 70S ribosome Deposited 2013-12-05 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 55-meric |
Chain AL
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 1086 SF4 IRON/SULFUR CLUSTER × 1 ZN ZINC ION × 6 FME N-FORMYLMETHIONINE × 1 K POTASSIUM ION × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.5% PEG-20K, 7-12% MPD, 0.5mM BME, VAPOR DIFFUSION, temperature 292K
|
Resolution 3.10 Å R-free 0.260 |
| 4V9S Crystal structure of antibiotic GE82832 bound to 70S ribosome Deposited 2013-12-05 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 50 PDB declaration: 55-meric |
Chain CL
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 887 SF4 IRON/SULFUR CLUSTER × 1 ZN ZINC ION × 6 FME N-FORMYLMETHIONINE × 1 K POTASSIUM ION × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.5% PEG-20K, 7-12% MPD, 0.5mM BME, VAPOR DIFFUSION, temperature 292K
|
Resolution 3.10 Å R-free 0.260 |
| 4W2E Crystal structure of Elongation Factor 4 (EF4/LepA) bound to the Thermus thermophilus 70S ribosome Deposited 2014-06-04 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Insufficient information Heteromer；Protein × 51 PDB declaration: 57-meric |
Chain l
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 906 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 PHE PHENYLALANINE × 1 GDP GUANOSINE-5'-DIPHOSPHATE × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.6-3.0% PEG-20K, 7-10% MPD, 0.5mM BME, VAPOR DIFFUSION, temperature 292K
|
Resolution 2.90 Å R-free 0.304 |
| 4W2F Crystal structure of the Thermus thermophilus 70S ribosome in complex with amicoumacin, mRNA and three deacylated tRNAs in the A, P and E sites Deposited 2014-09-12 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 56-meric |
Chain AL
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 1338 UAM Amicoumacin A × 1 SF4 IRON/SULFUR CLUSTER × 1 ZN ZINC ION × 6 K POTASSIUM ION × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.5% PEG-20K, 7-12% MPD, 0.5 mM BME, VAPOR DIFFUSION, temperature 292K
|
Resolution 2.40 Å R-free 0.277 |
| 4W2F Crystal structure of the Thermus thermophilus 70S ribosome in complex with amicoumacin, mRNA and three deacylated tRNAs in the A, P and E sites Deposited 2014-09-12 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 49 PDB declaration: 56-meric |
Chain CL
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 969 UAM Amicoumacin A × 1 SF4 IRON/SULFUR CLUSTER × 1 ZN ZINC ION × 6 K POTASSIUM ION × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.5% PEG-20K, 7-12% MPD, 0.5 mM BME, VAPOR DIFFUSION, temperature 292K
|
Resolution 2.40 Å R-free 0.277 |
| 4W2G Crystal structure of the Thermus thermophilus 70S ribosome in complex with pactamycin (soaked), mRNA and three deacylated tRNAs in the A, P and E sites Deposited 2014-09-12 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 56-meric |
Chain AL
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 1218 PCY Pactamycin × 1 SF4 IRON/SULFUR CLUSTER × 1 ZN ZINC ION × 6 K POTASSIUM ION × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.5% PEG-20K, 7-12% MPD, 0.5 mM BME, VAPOR DIFFUSION, temperature 292K
|
Resolution 2.55 Å R-free 0.273 |
| 4W2G Crystal structure of the Thermus thermophilus 70S ribosome in complex with pactamycin (soaked), mRNA and three deacylated tRNAs in the A, P and E sites Deposited 2014-09-12 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 49 PDB declaration: 56-meric |
Chain CL
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 916 PCY Pactamycin × 1 SF4 IRON/SULFUR CLUSTER × 1 ZN ZINC ION × 6 K POTASSIUM ION × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.5% PEG-20K, 7-12% MPD, 0.5 mM BME, VAPOR DIFFUSION, temperature 292K
|
Resolution 2.55 Å R-free 0.273 |
| 4W2H Crystal structure of the Thermus thermophilus 70S ribosome in complex with pactamycin (co-crystallized), mRNA and deacylated tRNA in the P site Deposited 2014-09-12 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 55-meric |
Chain AL
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 1135 PCY Pactamycin × 1 SF4 IRON/SULFUR CLUSTER × 1 ZN ZINC ION × 6 K POTASSIUM ION × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.5% PEG-20K, 7-12% MPD, 0.5 mM BME, VAPOR DIFFUSION, temperature 292K
|
Resolution 2.70 Å R-free 0.262 |
| 4W2H Crystal structure of the Thermus thermophilus 70S ribosome in complex with pactamycin (co-crystallized), mRNA and deacylated tRNA in the P site Deposited 2014-09-12 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 49 PDB declaration: 55-meric |
Chain CL
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 908 PCY Pactamycin × 1 SF4 IRON/SULFUR CLUSTER × 1 ZN ZINC ION × 6 K POTASSIUM ION × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.5% PEG-20K, 7-12% MPD, 0.5 mM BME, VAPOR DIFFUSION, temperature 292K
|
Resolution 2.70 Å R-free 0.262 |
| 4W2I Crystal structure of the Thermus thermophilus 70S ribosome in complex with negamycin, mRNA and three deacylated tRNAs in the A, P and E sites Deposited 2014-09-12 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 56-meric |
Chain AL
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 1147 NEG NEGAMYCIN × 9 SF4 IRON/SULFUR CLUSTER × 1 ZN ZINC ION × 6 K POTASSIUM ION × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.5% PEG-20K, 7-12% MPD, 0.5 mM BME, VAPOR DIFFUSION, temperature 292K
|
Resolution 2.70 Å R-free 0.257 |
| 4W2I Crystal structure of the Thermus thermophilus 70S ribosome in complex with negamycin, mRNA and three deacylated tRNAs in the A, P and E sites Deposited 2014-09-12 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 49 PDB declaration: 56-meric |
Chain CL
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 866 NEG NEGAMYCIN × 10 SF4 IRON/SULFUR CLUSTER × 1 ZN ZINC ION × 6 K POTASSIUM ION × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.5% PEG-20K, 7-12% MPD, 0.5 mM BME, VAPOR DIFFUSION, temperature 292K
|
Resolution 2.70 Å R-free 0.257 |
| 4W4G Postcleavage state of 70S bound to HigB toxin and AAA (lysine) codon Deposited 2014-08-14 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 56-meric |
Chain QL
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 581 ZN ZINC ION × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；pH 7；293 K；4% PEG 20k, 4% PEG550 MME, 0.1M TRIS-ACETATE, 0.2M KSCN
|
Resolution 3.30 Å R-free 0.238 |
| 4W4G Postcleavage state of 70S bound to HigB toxin and AAA (lysine) codon Deposited 2014-08-14 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 50 PDB declaration: 56-meric |
Chain XL
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 659 ZN ZINC ION × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；pH 7；293 K；4% PEG 20k, 4% PEG550 MME, 0.1M TRIS-ACETATE, 0.2M KSCN
|
Resolution 3.30 Å R-free 0.238 |
| 4WPO Crystal structure of the Thermus thermophilus 70S ribosome in complex with elongation factor G in the pre-translocational state Deposited 2014-10-20 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Insufficient information Heteromer；Protein × 52 PDB declaration: 59-meric |
Chain BL
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 1163 K POTASSIUM ION × 1 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 GDP GUANOSINE-5'-DIPHOSPHATE × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.6-3.0% PEG-20K, 7-10% MPD, 0.5mM BME
|
Resolution 2.80 Å R-free 0.252 |
| 4WPO Crystal structure of the Thermus thermophilus 70S ribosome in complex with elongation factor G in the pre-translocational state Deposited 2014-10-20 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Insufficient information Heteromer；Protein × 52 PDB declaration: 59-meric |
Chain DL
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 893 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 GDP GUANOSINE-5'-DIPHOSPHATE × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.6-3.0% PEG-20K, 7-10% MPD, 0.5mM BME
|
Resolution 2.80 Å R-free 0.252 |
| 4WQF Crystal structure of the Thermus thermophilus 70S ribosome in complex with elongation factor G and fusidic acid in the post-translocational state Deposited 2014-10-21 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Insufficient information Heteromer；Protein × 52 PDB declaration: 58-meric |
Chain BL
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 1147 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 FUA FUSIDIC ACID × 1 GDP GUANOSINE-5'-DIPHOSPHATE × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.6-3.0% PEG-20K, 7-10% MPD, 0.5mM BME
|
Resolution 2.80 Å R-free 0.255 |
| 4WQF Crystal structure of the Thermus thermophilus 70S ribosome in complex with elongation factor G and fusidic acid in the post-translocational state Deposited 2014-10-21 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Insufficient information Heteromer；Protein × 52 PDB declaration: 58-meric |
Chain DL
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 893 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 FUA FUSIDIC ACID × 1 GDP GUANOSINE-5'-DIPHOSPHATE × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.6-3.0% PEG-20K, 7-10% MPD, 0.5mM BME
|
Resolution 2.80 Å R-free 0.255 |
| 4WQR Complex of 70S ribosome with tRNA-Phe and mRNA with C-A mismatch in the first position in the A-site. Deposited 2014-10-22 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 48 PDB declaration: 55-meric |
Chain 3I
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 726 ZN ZINC ION × 3 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；pH 7；298 K；Tris-acetate, KSCN, PEG 550MME, PEG 20K
|
Resolution 3.15 Å R-free 0.231 |
| 4WQR Complex of 70S ribosome with tRNA-Phe and mRNA with C-A mismatch in the first position in the A-site. Deposited 2014-10-22 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 48 PDB declaration: 55-meric |
Chain 3A
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 513 ZN ZINC ION × 3 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；pH 7；298 K；Tris-acetate, KSCN, PEG 550MME, PEG 20K
|
Resolution 3.15 Å R-free 0.231 |
| 4WQU Crystal structure of the Thermus thermophilus 70S ribosome in complex with elongation factor G trapped by the antibiotic dityromycin Deposited 2014-10-22 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Insufficient information Heteromer；Protein × 53 PDB declaration: 59-meric |
Chain BL
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 1147 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 GDP GUANOSINE-5'-DIPHOSPHATE × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.6-3.0% PEG-20K, 7-10% MPD, 0.5mM BME
|
Resolution 2.80 Å R-free 0.264 |
| 4WQU Crystal structure of the Thermus thermophilus 70S ribosome in complex with elongation factor G trapped by the antibiotic dityromycin Deposited 2014-10-22 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Insufficient information Heteromer；Protein × 53 PDB declaration: 59-meric |
Chain DL
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 893 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 GDP GUANOSINE-5'-DIPHOSPHATE × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.6-3.0% PEG-20K, 7-10% MPD, 0.5mM BME
|
Resolution 2.80 Å R-free 0.264 |
| 4WQY Crystal structure of the Thermus thermophilus 70S ribosome in complex with elongation factor G in the post-translocational state (without fusitic acid) Deposited 2014-10-22 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Insufficient information Heteromer；Protein × 52 PDB declaration: 57-meric |
Chain BL
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 1155 K POTASSIUM ION × 1 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 GDP GUANOSINE-5'-DIPHOSPHATE × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.6-3.0% PEG-20K, 7-10% MPD, 0.5mM BME
|
Resolution 2.80 Å R-free 0.266 |
| 4WQY Crystal structure of the Thermus thermophilus 70S ribosome in complex with elongation factor G in the post-translocational state (without fusitic acid) Deposited 2014-10-22 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Insufficient information Heteromer；Protein × 52 PDB declaration: 57-meric |
Chain DL
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 890 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 GDP GUANOSINE-5'-DIPHOSPHATE × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.6-3.0% PEG-20K, 7-10% MPD, 0.5mM BME
|
Resolution 2.80 Å R-free 0.266 |
| 4WRO Complex of 70S ribosome with tRNA-Phe and mRNA with C-A mismatch in the second position in the A-site Deposited 2014-10-24 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 48 PDB declaration: 55-meric |
Chain 3I
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 727 ZN ZINC ION × 3 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；298 K；Tris-acetate, KSCN, PEG 550MME, PEG 20K
|
Resolution 3.05 Å R-free 0.231 |
| 4WSD Complex of 70S ribosome with tRNA-Phe and mRNA with C-A mismatch in the second position in the A-site and with antibiotic paromomycin. Deposited 2014-10-27 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 48 PDB declaration: 55-MERIC |
Chain 3I
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 713 PAR PAROMOMYCIN × 1 ZN ZINC ION × 3 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；pH 7；298 K；Tris-acetate, KSCN, PEG 550MME, PEG 20K
|
Resolution 2.95 Å R-free 0.235 |
| 4WSD Complex of 70S ribosome with tRNA-Phe and mRNA with C-A mismatch in the second position in the A-site and with antibiotic paromomycin. Deposited 2014-10-27 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 48 PDB declaration: 55-MERIC |
Chain 3A
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 525 PAR PAROMOMYCIN × 1 ZN ZINC ION × 3 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；pH 7；298 K；Tris-acetate, KSCN, PEG 550MME, PEG 20K
|
Resolution 2.95 Å R-free 0.235 |
| 4WSM Complex of 70S ribosome with tRNA-Leu and mRNA with G-U mismatch in the first position in the A- and P-sites Deposited 2014-10-28 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 47 PDB declaration: 54-meric |
Chain 3I
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 685 ZN ZINC ION × 3 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；298 K；Tris-acetate, KSCN, PEG 550MME, PEG 20K
|
Resolution 3.30 Å |
| 4WSM Complex of 70S ribosome with tRNA-Leu and mRNA with G-U mismatch in the first position in the A- and P-sites Deposited 2014-10-28 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 47 PDB declaration: 54-meric |
Chain 3A
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 649 ZN ZINC ION × 3 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；298 K；Tris-acetate, KSCN, PEG 550MME, PEG 20K
|
Resolution 3.30 Å |
| 4WT1 Complex of 70S ribosome with tRNA-Phe and mRNA with A-A mismatch in the second position in the A-site Deposited 2014-10-29 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 48 PDB declaration: 55-MERIC |
Chain 3I
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 701 ZN ZINC ION × 3 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；pH 7；298 K；Tris-acetate, KSCN, PEG 550MME, PEG 20K
|
Resolution 3.05 Å |
| 4WT1 Complex of 70S ribosome with tRNA-Phe and mRNA with A-A mismatch in the second position in the A-site Deposited 2014-10-29 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 48 PDB declaration: 55-MERIC |
Chain 3A
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 546 ZN ZINC ION × 3 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；pH 7；298 K；Tris-acetate, KSCN, PEG 550MME, PEG 20K
|
Resolution 3.05 Å |
| 4WT8 Crystal Structure of bactobolin A bound to 70S ribosome-tRNA complex Deposited 2014-10-29 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Insufficient information Heteromer；Protein × 51 PDB declaration: 61-meric |
Chain AL
2–125（124 aa）
|
Not recorded | PAR PAROMOMYCIN × 1 3V6 Bactobolin A × 1 MG MAGNESIUM ION × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
EVAPORATION；293 K；0.2M KSCN, 0.1M Tris-HAc pH7, 3.5-4.5%(w/v) PEG20K, 3.5-
4.5%(w/v) PEG550MME
|
Resolution 3.40 Å R-free 0.241 |
| 4WT8 Crystal Structure of bactobolin A bound to 70S ribosome-tRNA complex Deposited 2014-10-29 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Insufficient information Heteromer；Protein × 51 PDB declaration: 62-meric |
Chain BL
2–125（124 aa）
|
Not recorded | PAR PAROMOMYCIN × 1 3V6 Bactobolin A × 1 MG MAGNESIUM ION × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
EVAPORATION；293 K；0.2M KSCN, 0.1M Tris-HAc pH7, 3.5-4.5%(w/v) PEG20K, 3.5-
4.5%(w/v) PEG550MME
|
Resolution 3.40 Å R-free 0.241 |
| 4WZO Complex of 70S ribosome with tRNA-fMet and mRNA Deposited 2014-11-20 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 48 PDB declaration: 56-MERIC |
Chain 3I
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 576 ZN ZINC ION × 3 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；pH 7；298 K；Tris-acetate, KSCN, PEG 550MME, PEG 20K
|
Resolution 3.30 Å R-free 0.258 |
| 4WZO Complex of 70S ribosome with tRNA-fMet and mRNA Deposited 2014-11-20 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 47 PDB declaration: 55-MERIC |
Chain 3A
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 413 ZN ZINC ION × 3 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；pH 7；298 K；Tris-acetate, KSCN, PEG 550MME, PEG 20K
|
Resolution 3.30 Å R-free 0.258 |
| 4X62 Crystal Structure of 30S ribosomal subunit from Thermus thermophilus Deposited 2014-12-06 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 20 PDB declaration: 23-meric |
Chain L
2–126（125 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | PAR PAROMOMYCIN × 6 MG MAGNESIUM ION × 280 K POTASSIUM ION × 29 ZN ZINC ION × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, HANGING DROP；pH 6.5；277 K；MPD
|
Resolution 3.45 Å R-free 0.214 |
| 4X64 Crystal Structure of 30S ribosomal subunit from Thermus thermophilus Deposited 2014-12-06 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 20 PDB declaration: 23-meric |
Chain L
2–126（125 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | PAR PAROMOMYCIN × 6 MG MAGNESIUM ION × 311 K POTASSIUM ION × 41 ZN ZINC ION × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, HANGING DROP；pH 6.5；277 K；MPD
|
Resolution 3.35 Å R-free 0.205 |
| 4X65 Crystal Structure of 30S ribosomal subunit from Thermus thermophilus Deposited 2014-12-06 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 20 PDB declaration: 23-meric |
Chain L
2–126（125 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | PAR PAROMOMYCIN × 6 MG MAGNESIUM ION × 317 K POTASSIUM ION × 46 ZN ZINC ION × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, HANGING DROP；pH 6.5；277 K；MPD
|
Resolution 3.35 Å R-free 0.210 |
| 4X66 Crystal Structure of 30S ribosomal subunit from Thermus thermophilus Deposited 2014-12-06 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 20 PDB declaration: 23-meric |
Chain L
2–126（125 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | PAR PAROMOMYCIN × 6 MG MAGNESIUM ION × 301 K POTASSIUM ION × 46 ZN ZINC ION × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, HANGING DROP；pH 6.5；277 K；MPD
|
Resolution 3.45 Å R-free 0.227 |
| 4Y4O Crystal structure of the Thermus thermophilus 70S ribosome with rRNA modifications and bound to protein Y (YfiA) at 2.3A resolution Deposited 2015-02-10 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 53-meric |
Chain 1l
1–132（132 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 1495 MPD (4S)-2-METHYL-2,4-PENTANEDIOL × 4 ARG ARGININE × 2 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.5% PEG-20K, 7-12% MPD, 0.5 mM BME
|
Resolution 2.30 Å R-free 0.247 |
| 4Y4O Crystal structure of the Thermus thermophilus 70S ribosome with rRNA modifications and bound to protein Y (YfiA) at 2.3A resolution Deposited 2015-02-10 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 50 PDB declaration: 53-meric |
Chain 2l
1–132（132 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 1022 MPD (4S)-2-METHYL-2,4-PENTANEDIOL × 3 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.5% PEG-20K, 7-12% MPD, 0.5 mM BME
|
Resolution 2.30 Å R-free 0.247 |
| 4Y4P Crystal structure of the Thermus thermophilus 70S ribosome with rRNA modifications and bound to mRNA and A-, P- and E-site tRNAs at 2.5A resolution Deposited 2015-02-10 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 56-meric |
Chain 1l
1–132（132 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 1572 K POTASSIUM ION × 1 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.5% PEG-20K, 7-12% MPD, 0.5 mM BME
|
Resolution 2.50 Å R-free 0.281 |
| 4Y4P Crystal structure of the Thermus thermophilus 70S ribosome with rRNA modifications and bound to mRNA and A-, P- and E-site tRNAs at 2.5A resolution Deposited 2015-02-10 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 49 PDB declaration: 56-meric |
Chain 2l
1–132（132 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 1265 K POTASSIUM ION × 1 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.5% PEG-20K, 7-12% MPD, 0.5 mM BME
|
Resolution 2.50 Å R-free 0.281 |
| 4YHH Crystal structure of the 30S ribosomal subunit from Thermus thermophilus in complex with tigecycline Deposited 2015-02-27 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 20 PDB declaration: 21-meric |
Chain L
2–125（124 aa）
|
Not recorded | T1C TIGECYCLINE × 1 MG MAGNESIUM ION × 103 ZN ZINC ION × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, HANGING DROP；291 K；HEPES-KOH, MgCl2, NH4Cl, beta-mercaptoethanol, MPD, spermidine
|
Resolution 3.42 Å R-free 0.287 |
| 4YPB Precleavage 70S structure of the P. vulgaris HigB DeltaH92 toxin bound to the AAA codon Deposited 2015-03-12 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 56-meric |
Chain QL
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 624 ZN ZINC ION × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；pH 7；293 K；4% PEG 20k, 4% PEG550 MME, 0.1M TRIS-ACETATE, 0.2M KSCN
|
Resolution 3.40 Å R-free 0.234 |
| 4YPB Precleavage 70S structure of the P. vulgaris HigB DeltaH92 toxin bound to the AAA codon Deposited 2015-03-12 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 50 PDB declaration: 56-meric |
Chain XL
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 684 ZN ZINC ION × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；pH 7；293 K；4% PEG 20k, 4% PEG550 MME, 0.1M TRIS-ACETATE, 0.2M KSCN
|
Resolution 3.40 Å R-free 0.234 |
| 4YY3 30S ribosomal subunit- HigB complex Deposited 2015-03-23 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 21 PDB declaration: 22-meric |
Chain L
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 194 ZN ZINC ION × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；pH 6.5；277 K；14% MPD, 0.2 M KCL , 75 mM NH4Cl, 15 mM MgCl2 , 0.1M MES
|
Resolution 3.60 Å R-free 0.239 |
| 4YZV Precleavage 70S structure of the P. vulgaris HigB deltaH92 toxin bound to the ACA codon Deposited 2015-03-25 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 56-meric |
Chain QL
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 638 ZN ZINC ION × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；pH 7；293 K；4% PEG 20k, 4% PEG550 MME, 0.1M TRIS-ACETATE, 0.2M KSCN
|
Resolution 3.10 Å R-free 0.237 |
| 4YZV Precleavage 70S structure of the P. vulgaris HigB deltaH92 toxin bound to the ACA codon Deposited 2015-03-25 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 50 PDB declaration: 56-meric |
Chain XL
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 708 ZN ZINC ION × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；pH 7；293 K；4% PEG 20k, 4% PEG550 MME, 0.1M TRIS-ACETATE, 0.2M KSCN
|
Resolution 3.10 Å R-free 0.237 |
| 4Z3S Crystal structure of the Thermus thermophilus 70S ribosome in complex with antibiotic A201A, mRNA and three tRNAs in the A, P and E sites at 2.65A resolution Deposited 2015-03-31 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 56-meric |
Chain 1l
1–132（132 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 1328 4M2 3'-deoxy-3'-{[(2E)-3-(4-{[(4Z)-6-O-(6-deoxy-3,4-di-O-methyl-alpha-D-mannopyranosyl)-5-O-methyl-alpha-D-threo-hex-4-enofuranosyl]oxy}phenyl)-2-methylprop-2-enoyl]amino}-N,N-dimethyladenosine × 1 K POTASSIUM ION × 1 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 FME N-FORMYLMETHIONINE × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.5% PEG-20K, 7-12% MPD, 0.5 mM BME
|
Resolution 2.65 Å R-free 0.271 |
| 4Z3S Crystal structure of the Thermus thermophilus 70S ribosome in complex with antibiotic A201A, mRNA and three tRNAs in the A, P and E sites at 2.65A resolution Deposited 2015-03-31 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 49 PDB declaration: 56-meric |
Chain 2l
1–132（132 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 964 4M2 3'-deoxy-3'-{[(2E)-3-(4-{[(4Z)-6-O-(6-deoxy-3,4-di-O-methyl-alpha-D-mannopyranosyl)-5-O-methyl-alpha-D-threo-hex-4-enofuranosyl]oxy}phenyl)-2-methylprop-2-enoyl]amino}-N,N-dimethyladenosine × 1 K POTASSIUM ION × 1 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 FME N-FORMYLMETHIONINE × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.5% PEG-20K, 7-12% MPD, 0.5 mM BME
|
Resolution 2.65 Å R-free 0.271 |
| 4Z8C Crystal structure of the Thermus thermophilus 70S ribosome bound to translation inhibitor oncocin Deposited 2015-04-08 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 55-meric |
Chain 1l
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 1448 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.9% PEG-20K, 7-12% MPD, 0.5 mM BME
|
Resolution 2.90 Å R-free 0.248 |
| 4Z8C Crystal structure of the Thermus thermophilus 70S ribosome bound to translation inhibitor oncocin Deposited 2015-04-08 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 50 PDB declaration: 55-meric |
Chain 2l
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 890 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.9% PEG-20K, 7-12% MPD, 0.5 mM BME
|
Resolution 2.90 Å R-free 0.248 |
| 4ZSN 70S-wild-type HigB toxin complex bound to a AAA lysine codon Deposited 2015-05-13 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 56-meric |
Chain QL
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 610 ZN ZINC ION × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；pH 7；293 K；4% PEG 20k, 4% PEG550 MME, 0.1M TRIS-ACETATE, 0.2M KSCN
|
Resolution 3.60 Å R-free 0.234 |
| 4ZSN 70S-wild-type HigB toxin complex bound to a AAA lysine codon Deposited 2015-05-13 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 50 PDB declaration: 56-meric |
Chain XL
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 671 ZN ZINC ION × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；pH 7；293 K；4% PEG 20k, 4% PEG550 MME, 0.1M TRIS-ACETATE, 0.2M KSCN
|
Resolution 3.60 Å R-free 0.234 |
| 5AA0 Complex of Thermous thermophilus ribosome (A-and P-site tRNA) bound to BipA-GDPCP Deposited 2015-07-23 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 52 PDB declaration: 58-meric |
Chain BP
2–125（124 aa）
|
Not recorded | NMY NEOMYCIN × 2 8AN 3'-amino-3'-deoxyadenosine 5'-(dihydrogen phosphate) × 2 GCP PHOSPHOMETHYLPHOSPHONIC ACID GUANYLATE ESTER × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
5 MM HEPES PH 7.5, 10 MM MGAC, 50 MM KCL, 10 MM NH4CL, AND 6 MM 2- MERCAPTOETHANOL；pH 7.5；5 MM HEPES PH 7.5, 10 MM MGAC, 50 MM KCL, 10 MM NH4CL, AND 6 MM 2- MERCAPTOETHANOL
cryo-EM vitrification conditions
Cryogen ETHANE；LIQUID ETHANE
|
Resolution 5.00 Å |
| 5BR8 Ambient-temperature crystal structure of 30S ribosomal subunit from Thermus thermophilus in complex with paromomycin Deposited 2015-05-29 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 20 PDB declaration: 21-meric |
Chain L
2–132（131 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | PAR PAROMOMYCIN × 6 MG MAGNESIUM ION × 287 ZN ZINC ION × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, HANGING DROP；pH 6.5；277 K；MPD
|
Resolution 3.40 Å R-free 0.234 |
| 5CZP 70S termination complex containing E. coli RF2 Deposited 2015-07-31 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 55-meric |
Chain XL
1–132（132 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 1027 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；pH 7；293 K；4.9% PEG 20k, 9.8% PEG 200, 0.1M TRIS-ACETATE, 0.2M KSCN, 10mM MAGNESIUM ACETATE
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；pH 7；293 K；5.4% PEG 20k, 10.8% PEG 200, 0.1M TRIS-ACETATE, 0.2M KSCN, 10mM MAGNESIUM ACETATE
|
Resolution 3.30 Å R-free 0.286 |
| 5CZP 70S termination complex containing E. coli RF2 Deposited 2015-07-31 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 50 PDB declaration: 55-meric |
Chain QL
1–132（132 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 1493 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；pH 7；293 K；4.9% PEG 20k, 9.8% PEG 200, 0.1M TRIS-ACETATE, 0.2M KSCN, 10mM MAGNESIUM ACETATE
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；pH 7；293 K；5.4% PEG 20k, 10.8% PEG 200, 0.1M TRIS-ACETATE, 0.2M KSCN, 10mM MAGNESIUM ACETATE
|
Resolution 3.30 Å R-free 0.286 |
| 5DFE 70S termination complex containing E. coli RF2 Deposited 2015-08-26 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 55-meric |
Chain QL
1–132（132 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 1488 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；pH 7；293 K；5.5% PEG 20k, 11% PEG 200, 100 mM TRIS-ACETATE, 200 mM KSCN, 10 mM MAGNESIUM ACETATE 2.8 mM DOBC
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；pH 7；293 K；5.8% PEG 20k, 11.6% PEG 200, 200 mM TRIS-ACETATE, 200 mM KSCN, 10 mM MAGNESIUM ACETATE 2.8mM DOBC
|
Resolution 3.10 Å R-free 0.227 |
| 5DFE 70S termination complex containing E. coli RF2 Deposited 2015-08-26 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 50 PDB declaration: 55-meric |
Chain XL
1–132（132 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 1025 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；pH 7；293 K；5.5% PEG 20k, 11% PEG 200, 100 mM TRIS-ACETATE, 200 mM KSCN, 10 mM MAGNESIUM ACETATE 2.8 mM DOBC
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；pH 7；293 K；5.8% PEG 20k, 11.6% PEG 200, 200 mM TRIS-ACETATE, 200 mM KSCN, 10 mM MAGNESIUM ACETATE 2.8mM DOBC
|
Resolution 3.10 Å R-free 0.227 |
| 5DOX Crystal structure of the Thermus thermophilus 70S ribosome in complex with Hygromycin-A at 3.1A resolution Deposited 2015-09-11 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 52-meric |
Chain 1l
1–132（132 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 1019 HGR Hygromycin A × 1 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.5% PEG-20K, 7-12% MPD, 0.5 mM BME
|
Resolution 3.10 Å R-free 0.284 |
| 5DOX Crystal structure of the Thermus thermophilus 70S ribosome in complex with Hygromycin-A at 3.1A resolution Deposited 2015-09-11 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 49 PDB declaration: 52-meric |
Chain 2l
1–132（132 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 699 HGR Hygromycin A × 1 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.5% PEG-20K, 7-12% MPD, 0.5 mM BME
|
Resolution 3.10 Å R-free 0.284 |
| 5DOY Crystal structure of the Thermus thermophilus 70S ribosome in complex with antibiotic Hygromycin A, mRNA and three tRNAs in the A, P and E sites at 2.6A resolution Deposited 2015-09-11 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 56-meric |
Chain 1l
1–132（132 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 1358 K POTASSIUM ION × 1 HGR Hygromycin A × 1 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 FME N-FORMYLMETHIONINE × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.5% PEG-20K, 7-12% MPD, 0.5 mM BME
|
Resolution 2.60 Å R-free 0.283 |
| 5DOY Crystal structure of the Thermus thermophilus 70S ribosome in complex with antibiotic Hygromycin A, mRNA and three tRNAs in the A, P and E sites at 2.6A resolution Deposited 2015-09-11 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 49 PDB declaration: 56-meric |
Chain 2l
1–132（132 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 943 K POTASSIUM ION × 1 HGR Hygromycin A × 1 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 FME N-FORMYLMETHIONINE × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.5% PEG-20K, 7-12% MPD, 0.5 mM BME
|
Resolution 2.60 Å R-free 0.283 |
| 5E7K Structure of T. thermophilus 70S ribosome complex with mRNA and cognate tRNALys in the A-site Deposited 2015-10-12 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 48 PDB declaration: 55-meric |
Chain 3I
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 628 SF4 IRON/SULFUR CLUSTER × 1 ZN ZINC ION × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；293 K；PEG 20000, PEG 550mme, KSCN, Tris-OAc
|
Resolution 3.20 Å R-free 0.258 |
| 5E7K Structure of T. thermophilus 70S ribosome complex with mRNA and cognate tRNALys in the A-site Deposited 2015-10-12 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 47 PDB declaration: 54-meric |
Chain 3A
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 510 SF4 IRON/SULFUR CLUSTER × 1 ZN ZINC ION × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；293 K；PEG 20000, PEG 550mme, KSCN, Tris-OAc
|
Resolution 3.20 Å R-free 0.258 |
| 5EL4 Structure of T. thermophilus 70S ribosome complex with mRNA and tRNALys in the A-site with a U-U mismatch in the first position Deposited 2015-11-04 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 48 PDB declaration: 55-meric |
Chain 3I
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 671 SF4 IRON/SULFUR CLUSTER × 1 ZN ZINC ION × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；293 K；PEG 20000, PEG 550mme, KSCN, Tris-OAc
|
Resolution 3.15 Å R-free 0.251 |
| 5EL4 Structure of T. thermophilus 70S ribosome complex with mRNA and tRNALys in the A-site with a U-U mismatch in the first position Deposited 2015-11-04 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 46 PDB declaration: 53-meric |
Chain 3A
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 536 SF4 IRON/SULFUR CLUSTER × 1 ZN ZINC ION × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；293 K；PEG 20000, PEG 550mme, KSCN, Tris-OAc
|
Resolution 3.15 Å R-free 0.251 |
| 5EL5 Structure of T. thermophilus 70S ribosome complex with mRNA and tRNALys in the A-site with a U-U mismatch in the second position Deposited 2015-11-04 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 48 PDB declaration: 55-MERIC |
Chain 3I
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 660 SF4 IRON/SULFUR CLUSTER × 1 ZN ZINC ION × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；293 K；PEG 20000, PEG 550mme, KSCN, Tris-OAc
|
Resolution 3.15 Å R-free 0.254 |
| 5EL5 Structure of T. thermophilus 70S ribosome complex with mRNA and tRNALys in the A-site with a U-U mismatch in the second position Deposited 2015-11-04 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 46 PDB declaration: 53-MERIC |
Chain 3A
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 522 SF4 IRON/SULFUR CLUSTER × 1 ZN ZINC ION × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；293 K；PEG 20000, PEG 550mme, KSCN, Tris-OAc
|
Resolution 3.15 Å R-free 0.254 |
| 5EL6 Structure of T. thermophilus 70S ribosome complex with mRNA and tRNALys in the A-site with a U-U mismatch in the first position and antibiotic paromomycin Deposited 2015-11-04 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 48 PDB declaration: 55-meric |
Chain 3I
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 593 PAR PAROMOMYCIN × 1 SF4 IRON/SULFUR CLUSTER × 1 ZN ZINC ION × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；293 K；PEG 20000, PEG 550mme, KSCN, Tris-OAc
|
Resolution 3.10 Å R-free 0.249 |
| 5EL6 Structure of T. thermophilus 70S ribosome complex with mRNA and tRNALys in the A-site with a U-U mismatch in the first position and antibiotic paromomycin Deposited 2015-11-04 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 47 PDB declaration: 54-meric |
Chain 3A
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 480 PAR PAROMOMYCIN × 1 SF4 IRON/SULFUR CLUSTER × 1 ZN ZINC ION × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；293 K；PEG 20000, PEG 550mme, KSCN, Tris-OAc
|
Resolution 3.10 Å R-free 0.249 |
| 5EL7 Structure of T. thermophilus 70S ribosome complex with mRNA and tRNALys in the A-site with a U-U mismatch in the second position and antibiotic paromomycin Deposited 2015-11-04 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 48 PDB declaration: 55-meric |
Chain 3I
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 687 PAR PAROMOMYCIN × 1 SF4 IRON/SULFUR CLUSTER × 1 ZN ZINC ION × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；293 K；PEG 20000, PEG 550mme, KSCN, Tris-OAc
|
Resolution 3.15 Å R-free 0.247 |
| 5EL7 Structure of T. thermophilus 70S ribosome complex with mRNA and tRNALys in the A-site with a U-U mismatch in the second position and antibiotic paromomycin Deposited 2015-11-04 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 47 PDB declaration: 54-meric |
Chain 3A
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 574 PAR PAROMOMYCIN × 1 SF4 IRON/SULFUR CLUSTER × 1 ZN ZINC ION × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；293 K；PEG 20000, PEG 550mme, KSCN, Tris-OAc
|
Resolution 3.15 Å R-free 0.247 |
| 5F8K Crystal structure of the Bac7(1-16) antimicrobial peptide bound to the Thermus thermophilus 70S ribosome Deposited 2015-12-09 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 55-meric |
Chain 1l
2–123（122 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 1363 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 K POTASSIUM ION × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；pH 7.6；293 K；Tris-HCl, PEG 20000, MPD, Arginine
|
Resolution 2.80 Å R-free 0.292 |
| 5F8K Crystal structure of the Bac7(1-16) antimicrobial peptide bound to the Thermus thermophilus 70S ribosome Deposited 2015-12-09 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 50 PDB declaration: 55-meric |
Chain 2l
2–123（122 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 1340 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 K POTASSIUM ION × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；pH 7.6；293 K；Tris-HCl, PEG 20000, MPD, Arginine
|
Resolution 2.80 Å R-free 0.292 |
| 5FDU Crystal structure of the Metalnikowin I antimicrobial peptide bound to the Thermus thermophilus 70S ribosome Deposited 2015-12-16 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 51 PDB declaration: 54-meric |
Chain 1l
2–123（122 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 1292 AMP ADENOSINE MONOPHOSPHATE × 1 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；pH 7.6；293 K；Tris-HCl, PEG 20000, MPD, Arginine
|
Resolution 2.90 Å R-free 0.234 |
| 5FDU Crystal structure of the Metalnikowin I antimicrobial peptide bound to the Thermus thermophilus 70S ribosome Deposited 2015-12-16 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 51 PDB declaration: 54-meric |
Chain 2l
2–123（122 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 1127 AMP ADENOSINE MONOPHOSPHATE × 1 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；pH 7.6；293 K；Tris-HCl, PEG 20000, MPD, Arginine
|
Resolution 2.90 Å R-free 0.234 |
| 5FDV Crystal structure of the Pyrrhocoricin antimicrobial peptide bound to the Thermus thermophilus 70S ribosome Deposited 2015-12-16 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 51 PDB declaration: 54-meric |
Chain 1l
2–123（122 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 1292 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；pH 7.6；293 K；Tris-HCl, PEG 20000, MPD, Arginine
|
Resolution 2.80 Å R-free 0.240 |
| 5FDV Crystal structure of the Pyrrhocoricin antimicrobial peptide bound to the Thermus thermophilus 70S ribosome Deposited 2015-12-16 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 51 PDB declaration: 54-meric |
Chain 2l
2–123（122 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 1128 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 AMP ADENOSINE MONOPHOSPHATE × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；pH 7.6；293 K；Tris-HCl, PEG 20000, MPD, Arginine
|
Resolution 2.80 Å R-free 0.240 |
| 5HAU Crystal structure of antimicrobial peptide Bac7(1-19) bound to the Thermus thermophilus 70S ribosome Deposited 2015-12-30 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Insufficient information Heteromer；Protein × 53 PDB declaration: 58-meric |
Chain 1l
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 1081 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 GDP GUANOSINE-5'-DIPHOSPHATE × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；292 K；0.15M Arginine-HCl, 0.1M Tris-HCl pH 7.3-7.6, 2.6-2.9% PEG-20K, 9-10% MPD, 0.5 mM BME
|
Resolution 3.00 Å R-free 0.265 |
| 5HAU Crystal structure of antimicrobial peptide Bac7(1-19) bound to the Thermus thermophilus 70S ribosome Deposited 2015-12-30 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Insufficient information Heteromer；Protein × 53 PDB declaration: 58-meric |
Chain 2l
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 848 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 GDP GUANOSINE-5'-DIPHOSPHATE × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；292 K；0.15M Arginine-HCl, 0.1M Tris-HCl pH 7.3-7.6, 2.6-2.9% PEG-20K, 9-10% MPD, 0.5 mM BME
|
Resolution 3.00 Å R-free 0.265 |
| 5HCP Crystal structure of antimicrobial peptide Metalnikowin bound to the Thermus thermophilus 70S ribosome Deposited 2016-01-04 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 55-meric |
Chain 1l
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 1593 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；292 K；0.15M Arginine-HCl, 0.1M Tris-HCl pH 7.3-7.6, 2.6-2.9% PEG-20K, 9-10% MPD, 0.5 mM BME
|
Resolution 2.89 Å R-free 0.268 |
| 5HCP Crystal structure of antimicrobial peptide Metalnikowin bound to the Thermus thermophilus 70S ribosome Deposited 2016-01-04 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 50 PDB declaration: 55-meric |
Chain 2l
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 887 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；292 K；0.15M Arginine-HCl, 0.1M Tris-HCl pH 7.3-7.6, 2.6-2.9% PEG-20K, 9-10% MPD, 0.5 mM BME
|
Resolution 2.89 Å R-free 0.268 |
| 5HCQ Crystal structure of antimicrobial peptide Oncocin d15-19 bound to the Thermus thermophilus 70S ribosome Deposited 2016-01-04 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 55-meric |
Chain 1l
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 1540 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；292 K；0.15M Arginine-HCl, 0.1M Tris-HCl pH 7.3-7.6, 2.6-2.9% PEG-20K, 9-10% MPD, 0.5 mM BME
|
Resolution 2.80 Å R-free 0.251 |
| 5HCQ Crystal structure of antimicrobial peptide Oncocin d15-19 bound to the Thermus thermophilus 70S ribosome Deposited 2016-01-04 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 50 PDB declaration: 55-meric |
Chain 2l
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 890 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；292 K；0.15M Arginine-HCl, 0.1M Tris-HCl pH 7.3-7.6, 2.6-2.9% PEG-20K, 9-10% MPD, 0.5 mM BME
|
Resolution 2.80 Å R-free 0.251 |
| 5HCR Crystal structure of antimicrobial peptide Oncocin 10wt bound to the Thermus thermophilus 70S ribosome Deposited 2016-01-04 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 55-meric |
Chain 1l
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 1585 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；292 K；0.15M Arginine-HCl, 0.1M Tris-HCl pH 7.3-7.6, 2.6-2.9% PEG-20K, 9-10% MPD, 0.5 mM BME
|
Resolution 2.80 Å R-free 0.268 |
| 5HCR Crystal structure of antimicrobial peptide Oncocin 10wt bound to the Thermus thermophilus 70S ribosome Deposited 2016-01-04 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 50 PDB declaration: 55-meric |
Chain 2l
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 837 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；292 K；0.15M Arginine-HCl, 0.1M Tris-HCl pH 7.3-7.6, 2.6-2.9% PEG-20K, 9-10% MPD, 0.5 mM BME
|
Resolution 2.80 Å R-free 0.268 |
| 5HD1 Crystal structure of antimicrobial peptide Pyrrhocoricin bound to the Thermus thermophilus 70S ribosome Deposited 2016-01-04 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 55-meric |
Chain 1l
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 1701 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；292 K；0.15M Arginine-HCl, 0.1M Tris-HCl pH 7.3-7.6, 2.6-2.9% PEG-20K, 9-10% MPD, 0.5 mM BME
|
Resolution 2.70 Å R-free 0.272 |
| 5HD1 Crystal structure of antimicrobial peptide Pyrrhocoricin bound to the Thermus thermophilus 70S ribosome Deposited 2016-01-04 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 50 PDB declaration: 55-meric |
Chain 2l
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 900 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；292 K；0.15M Arginine-HCl, 0.1M Tris-HCl pH 7.3-7.6, 2.6-2.9% PEG-20K, 9-10% MPD, 0.5 mM BME
|
Resolution 2.70 Å R-free 0.272 |
| 5IB7 Structure of T. thermophilus 70S ribosome complex with mRNA, tRNAfMet, near-cognate tRNALys with U-G mismatch in the A-site and antibiotic paromomycin Deposited 2016-02-22 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 56-meric |
Chain 3I
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 695 PAR PAROMOMYCIN × 1 SF4 IRON/SULFUR CLUSTER × 1 ZN ZINC ION × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；pH 7.5；293 K；PEG 20000, PEG 550mme, KSCN, Tris-OAc
|
Resolution 2.99 Å R-free 0.241 |
| 5IB7 Structure of T. thermophilus 70S ribosome complex with mRNA, tRNAfMet, near-cognate tRNALys with U-G mismatch in the A-site and antibiotic paromomycin Deposited 2016-02-22 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 46 PDB declaration: 53-meric |
Chain 3A
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 563 PAR PAROMOMYCIN × 1 SF4 IRON/SULFUR CLUSTER × 1 ZN ZINC ION × 2 SPE THERMINE × 3 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；pH 7.5；293 K；PEG 20000, PEG 550mme, KSCN, Tris-OAc
|
Resolution 2.99 Å R-free 0.241 |
| 5IB8 Structure of T. thermophilus 70S ribosome complex with mRNA, tRNAfMet and near-cognate tRNALys with U-G mismatch in the A-site Deposited 2016-02-22 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 48 PDB declaration: 55-meric |
Chain 3I
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 723 SF4 IRON/SULFUR CLUSTER × 1 ZN ZINC ION × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；pH 7.5；293 K；PEG 20000, PEG 550mme, KSCN, Tris-OAc
|
Resolution 3.13 Å R-free 0.244 |
| 5IB8 Structure of T. thermophilus 70S ribosome complex with mRNA, tRNAfMet and near-cognate tRNALys with U-G mismatch in the A-site Deposited 2016-02-22 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 46 PDB declaration: 53-meric |
Chain 3A
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 614 SF4 IRON/SULFUR CLUSTER × 1 ZN ZINC ION × 2 SPE THERMINE × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；pH 7.5；293 K；PEG 20000, PEG 550mme, KSCN, Tris-OAc
|
Resolution 3.13 Å R-free 0.244 |
| 5IBB Structure of T. thermophilus 70S ribosome complex with mRNA, tRNAfMet and cognate tRNAVal in the A-site Deposited 2016-02-22 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 48 PDB declaration: 55-meric |
Chain 3I
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 736 SPE THERMINE × 1 SF4 IRON/SULFUR CLUSTER × 1 ZN ZINC ION × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；pH 7.5；293 K；PEG 20000, PEG 550mme, KSCN, Tris-OAc
|
Resolution 2.96 Å R-free 0.243 |
| 5IBB Structure of T. thermophilus 70S ribosome complex with mRNA, tRNAfMet and cognate tRNAVal in the A-site Deposited 2016-02-22 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 48 PDB declaration: 55-meric |
Chain 3A
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 608 SPE THERMINE × 4 SF4 IRON/SULFUR CLUSTER × 1 ZN ZINC ION × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；pH 7.5；293 K；PEG 20000, PEG 550mme, KSCN, Tris-OAc
|
Resolution 2.96 Å R-free 0.243 |
| 5IMQ Structure of ribosome bound to cofactor at 3.8 angstrom resolution Deposited 2016-03-06 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 51 PDB declaration: 56-meric |
Chain P
1–132（132 aa）
|
Not recorded | GCP PHOSPHOMETHYLPHOSPHONIC ACID GUANYLATE ESTER × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5；Buffer G
5 mM HEPES pH 7.5, 10 mM MgAc, 50 mM KCl, 10 mM NH4Cl, and 6 mM 2-mercaptoethanol
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.80 Å |
| 5IMR Structure of ribosome bound to cofactor at 5.7 angstrom resolution Deposited 2016-03-06 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 51 PDB declaration: 56-meric |
Chain P
1–132（132 aa）
|
Not recorded | GCP PHOSPHOMETHYLPHOSPHONIC ACID GUANYLATE ESTER × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5；Buffer G
5 mM HEPES pH 7.5, 10 mM MgAc, 50 mM KCl, 10 mM NH4Cl, and 6 mM 2-mercaptoethanol
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 5.70 Å |
| 5IWA Crystal structure of the 30S ribosomal subunit from Thermus thermophilus in complex with the GE81112 peptide antibiotic Deposited 2016-03-22 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 20 PDB declaration: 21-meric |
Chain L
2–125（124 aa）
|
Not recorded | MG MAGNESIUM ION × 204 ZN ZINC ION × 2 6EK (2S,3S)-2-{[(2S)-3-(2-amino-1H-imidazol-5-yl)-2-{[(2S,4S)-5-(carbamoyloxy)-4-hydroxy-2-({[(2S,3S)-3-hydroxypiperidin-2-yl]carbonyl}amino)pentanoyl]amino}propanoyl]amino}-3-(2-chloro-1H-imidazol-5-yl)-3-hydroxypropanoic acid × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, HANGING DROP；292 K；HEPES-KOH, MgCl2, NH4Cl, beta-mercaptoethanol, MPD, spermidine
|
Resolution 3.50 Å R-free 0.218 |
| 5J30 Thermus thermophilus 70S termination complex containing E. coli RF1 Deposited 2016-03-30 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 55-meric |
Chain QL
1–132（132 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 1431 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；pH 7；293 K；5.1% PEG 20k, 10.2% PEG 200, 100 mM TRIS-ACETATE, 200 mM KSCN, 10 mM MAGNESIUM ACETATE 2.8 mM DOBC
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；pH 7；293 K；4.0% PEG 20k, 8.0% PEG 200, 200 mM TRIS-ACETATE, 200 mM KSCN, 10 mM MAGNESIUM ACETATE 2.8mM DOBC
|
Resolution 3.20 Å R-free 0.244 |
| 5J30 Thermus thermophilus 70S termination complex containing E. coli RF1 Deposited 2016-03-30 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 50 PDB declaration: 55-meric |
Chain XL
1–132（132 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 1000 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；pH 7；293 K；5.1% PEG 20k, 10.2% PEG 200, 100 mM TRIS-ACETATE, 200 mM KSCN, 10 mM MAGNESIUM ACETATE 2.8 mM DOBC
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；pH 7；293 K；4.0% PEG 20k, 8.0% PEG 200, 200 mM TRIS-ACETATE, 200 mM KSCN, 10 mM MAGNESIUM ACETATE 2.8mM DOBC
|
Resolution 3.20 Å R-free 0.244 |
| 5J3C Thermus thermophilus 70S termination complex containing E. coli RF1 Deposited 2016-03-30 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 55-meric |
Chain QL
1–132（132 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 1425 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；pH 7；293 K；5.2% PEG 20k, 10.4% PEG 200, 100 mM TRIS-ACETATE, 200 mM KSCN, 10 mM MAGNESIUM ACETATE 2.8 mM DOBC
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；pH 7；293 K；4.0% PEG 20k, 8.0% PEG 200, 200 mM TRIS-ACETATE, 200 mM KSCN, 10 mM MAGNESIUM ACETATE 2.8mM DOBC
|
Resolution 3.04 Å R-free 0.279 |
| 5J3C Thermus thermophilus 70S termination complex containing E. coli RF1 Deposited 2016-03-30 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 50 PDB declaration: 55-meric |
Chain XL
1–132（132 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 1011 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；pH 7；293 K；5.2% PEG 20k, 10.4% PEG 200, 100 mM TRIS-ACETATE, 200 mM KSCN, 10 mM MAGNESIUM ACETATE 2.8 mM DOBC
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；pH 7；293 K；4.0% PEG 20k, 8.0% PEG 200, 200 mM TRIS-ACETATE, 200 mM KSCN, 10 mM MAGNESIUM ACETATE 2.8mM DOBC
|
Resolution 3.04 Å R-free 0.279 |
| 5J4B Crystal structure of the Thermus thermophilus 70S ribosome in complex with cisplatin (co-crystallized) and bound to mRNA and A-, P- and E-site tRNAs at 2.6A resolution Deposited 2016-03-31 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 56-meric |
Chain 1l
1–132（132 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 1706 K POTASSIUM ION × 1 CPT Cisplatin × 9 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.5% PEG-20K, 7-12% MPD, 0.5 mM BME
|
Resolution 2.60 Å R-free 0.264 |
| 5J4B Crystal structure of the Thermus thermophilus 70S ribosome in complex with cisplatin (co-crystallized) and bound to mRNA and A-, P- and E-site tRNAs at 2.6A resolution Deposited 2016-03-31 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 49 PDB declaration: 56-meric |
Chain 2l
1–132（132 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 1311 K POTASSIUM ION × 1 CPT Cisplatin × 7 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.5% PEG-20K, 7-12% MPD, 0.5 mM BME
|
Resolution 2.60 Å R-free 0.264 |
| 5J4C Crystal structure of the Thermus thermophilus 70S ribosome in complex with cisplatin (soaked) and bound to mRNA and A-, P- and E-site tRNAs at 2.8A resolution Deposited 2016-03-31 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 56-meric |
Chain 1l
1–132（132 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 1796 CPT Cisplatin × 4 K POTASSIUM ION × 1 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.5% PEG-20K, 7-12% MPD, 0.5 mM BME
|
Resolution 2.80 Å R-free 0.268 |
| 5J4C Crystal structure of the Thermus thermophilus 70S ribosome in complex with cisplatin (soaked) and bound to mRNA and A-, P- and E-site tRNAs at 2.8A resolution Deposited 2016-03-31 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 49 PDB declaration: 56-meric |
Chain 2l
1–132（132 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 1275 CPT Cisplatin × 4 K POTASSIUM ION × 1 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.5% PEG-20K, 7-12% MPD, 0.5 mM BME
|
Resolution 2.80 Å R-free 0.268 |
| 5J8B Crystal structure of Elongation Factor 4 (EF-4/LepA) in complex with GDPCP bound to the Thermus thermophilus 70S ribosome Deposited 2016-04-07 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Insufficient information Heteromer；Protein × 52 PDB declaration: 59-meric |
Chain l
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 919 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 GCP PHOSPHOMETHYLPHOSPHONIC ACID GUANYLATE ESTER × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.6-3.0% PEG-20K, 7-10% MPD, 0.5mM BME
|
Resolution 2.60 Å R-free 0.261 |
| 5LMN Structure of bacterial 30S-IF1-IF3-mRNA translation pre-initiation complex (state-1A) Deposited 2016-08-01 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 22 PDB declaration: 24-meric |
Chain L
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 127 ZN ZINC ION × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.55 Å |
| 5LMO Structure of bacterial 30S-IF1-IF3-mRNA translation pre-initiation complex (state-1B) Deposited 2016-08-01 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 22 PDB declaration: 24-meric |
Chain L
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 108 ZN ZINC ION × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 4.30 Å |
| 5LMP Structure of bacterial 30S-IF1-IF3-mRNA translation pre-initiation complex (state-1C) Deposited 2016-08-01 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 22 PDB declaration: 24-meric |
Chain L
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 108 ZN ZINC ION × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 5.35 Å |
| 5LMQ Structure of bacterial 30S-IF1-IF3-mRNA-tRNA translation pre-initiation complex, open form (state-2A) Deposited 2016-08-01 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 22 PDB declaration: 25-meric |
Chain L
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 64 ZN ZINC ION × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 4.20 Å |
| 5LMR Structure of bacterial 30S-IF1-IF3-mRNA-tRNA translation pre-initiation complex(state-2B) Deposited 2016-08-01 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 22 PDB declaration: 25-meric |
Chain L
1–132（132 aa）
|
Not recorded | ZN ZINC ION × 2 MG MAGNESIUM ION × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 4.45 Å |
| 5LMS Structure of bacterial 30S-IF1-IF3-mRNA-tRNA translation pre-initiation complex(state-2C) Deposited 2016-08-01 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 22 PDB declaration: 25-meric |
Chain L
1–132（132 aa）
|
Not recorded | ZN ZINC ION × 2 MG MAGNESIUM ION × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 5.10 Å |
| 5LMT Structure of bacterial 30S-IF1-IF3-mRNA-tRNA translation pre-initiation complex(state-3) Deposited 2016-08-01 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 22 PDB declaration: 25-meric |
Chain L
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 86 ZN ZINC ION × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 4.15 Å |
| 5LMU Structure of bacterial 30S-IF3-mRNA-tRNA translation pre-initiation complex, closed form (state-4) Deposited 2016-08-01 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 21 PDB declaration: 24-meric |
Chain L
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 80 ZN ZINC ION × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 4.00 Å |
| 5LMV Structure of bacterial 30S-IF1-IF2-IF3-mRNA-tRNA translation pre-initiation complex(state-III) Deposited 2016-08-01 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 23 PDB declaration: 26-meric |
Chain L
1–132（132 aa）
|
Not recorded | ZN ZINC ION × 2 MG MAGNESIUM ION × 2 FME N-FORMYLMETHIONINE × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 6.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 4.90 Å |
| 5NDJ Crystal structure of aminoglycoside TC007 in complex with 70S ribosome from Thermus thermophilus, three tRNAs and mRNA (soaking) Deposited 2017-03-08 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 47 PDB declaration: 54-meric |
Chain 3I
1–132（132 aa）
|
Not recorded | 8UZ TC007 × 6 MG MAGNESIUM ION × 931 ZN ZINC ION × 3 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；pH 7.5；293 K；4% PEG20K, 4% PEGMME 550, 100mM Tris/HAc, 200mM KSCN
|
Resolution 3.15 Å R-free 0.247 |
| 5NDJ Crystal structure of aminoglycoside TC007 in complex with 70S ribosome from Thermus thermophilus, three tRNAs and mRNA (soaking) Deposited 2017-03-08 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 47 PDB declaration: 54-meric |
Chain 3A
1–132（132 aa）
|
Not recorded | 8UZ TC007 × 7 MG MAGNESIUM ION × 839 ZN ZINC ION × 3 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；pH 7.5；293 K；4% PEG20K, 4% PEGMME 550, 100mM Tris/HAc, 200mM KSCN
|
Resolution 3.15 Å R-free 0.247 |
| 5NDK Crystal structure of aminoglycoside TC007 co-crystallized with 70S ribosome from Thermus thermophilus, three tRNAs and mRNA Deposited 2017-03-08 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 47 PDB declaration: 54-meric |
Chain 3I
1–132（132 aa）
|
Not recorded | 8UZ TC007 × 2 MG MAGNESIUM ION × 846 ZN ZINC ION × 3 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；pH 7.5；293 K；4% PEG20K, 4% PEGMME 550, 100mM Tris/HAc, 200mM KSCN
|
Resolution 2.95 Å R-free 0.253 |
| 5NDK Crystal structure of aminoglycoside TC007 co-crystallized with 70S ribosome from Thermus thermophilus, three tRNAs and mRNA Deposited 2017-03-08 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 47 PDB declaration: 54-meric |
Chain 3A
1–132（132 aa）
|
Not recorded | 8UZ TC007 × 2 MG MAGNESIUM ION × 800 ZN ZINC ION × 3 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；pH 7.5；293 K；4% PEG20K, 4% PEGMME 550, 100mM Tris/HAc, 200mM KSCN
|
Resolution 2.95 Å R-free 0.253 |
| 5OT7 Elongation factor G-ribosome complex captures in the absence of inhibitors. Deposited 2017-08-21 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 54 PDB declaration: 59-meric |
Chain K
2–126（125 aa）
|
Not recorded | MG MAGNESIUM ION × 462 ZN ZINC ION × 3 GDP GUANOSINE-5'-DIPHOSPHATE × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.80 Å |
| 5UQ7 70S ribosome complex with dnaX mRNA stemloop and E-site tRNA ("in" conformation) Deposited 2017-02-07 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 56-meric |
Chain l
2–123（122 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.50 Å |
| 5UQ8 70S ribosome complex with dnaX mRNA stem-loop and E-site tRNA ("out" conformation) Deposited 2017-02-07 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 56-meric |
Chain l
2–123（122 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.20 Å |
| 5VP2 Crystal structure of the Thermus thermophilus 70S ribosome in complex with madumycin II and bound to mRNA and A-, P- and E-site tRNAs at 2.8A resolution Deposited 2017-05-04 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 56-meric |
Chain 1l
1–132（132 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 1587 K POTASSIUM ION × 1 M2D Madumycin II × 1 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.5% PEG-20K, 7-12% MPD, 0.5 mM BME
|
Resolution 2.80 Å R-free 0.278 |
| 5VP2 Crystal structure of the Thermus thermophilus 70S ribosome in complex with madumycin II and bound to mRNA and A-, P- and E-site tRNAs at 2.8A resolution Deposited 2017-05-04 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 49 PDB declaration: 56-meric |
Chain 2l
1–132（132 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 1216 K POTASSIUM ION × 1 M2D Madumycin II × 1 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.5% PEG-20K, 7-12% MPD, 0.5 mM BME
|
Resolution 2.80 Å R-free 0.278 |
| 5VPO The 70S P-site ASL SufA6 complex Deposited 2017-05-05 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 54-meric |
Chain QL
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 325 ZN ZINC ION × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；pH 7；293 K；5% PEG 20k, 5% PEG 550 MME, 100 mM TRIS-ACETATE, 200 mM KSCN, 10 mM MAGNESIUM CHLORIDE
|
Resolution 3.34 Å R-free 0.267 |
| 5VPO The 70S P-site ASL SufA6 complex Deposited 2017-05-05 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 49 PDB declaration: 54-meric |
Chain XL
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 352 ZN ZINC ION × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；pH 7；293 K；5% PEG 20k, 5% PEG 550 MME, 100 mM TRIS-ACETATE, 200 mM KSCN, 10 mM MAGNESIUM CHLORIDE
|
Resolution 3.34 Å R-free 0.267 |
| 5VPP The 70S P-site tRNA SufA6 complex Deposited 2017-05-05 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 48 PDB declaration: 53-meric |
Chain QL
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 768 ZN ZINC ION × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；pH 7；293 K；5% PEG 20k, 5% PEG 550 MME, 100 mM TRIS-ACETATE, 200 mM KSCN, 10 mM MAGNESIUM CHLORIDE
|
Resolution 3.90 Å |
| 5VPP The 70S P-site tRNA SufA6 complex Deposited 2017-05-05 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 48 PDB declaration: 53-meric |
Chain XL
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 547 ZN ZINC ION × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；pH 7；293 K；5% PEG 20k, 5% PEG 550 MME, 100 mM TRIS-ACETATE, 200 mM KSCN, 10 mM MAGNESIUM CHLORIDE
|
Resolution 3.90 Å |
| 5W4K Crystal structure of the Thermus thermophilus 70S ribosome in complex with Klebsazolicin and bound to mRNA and A-, P- and E-site tRNAs at 2.7A resolution Deposited 2017-06-12 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 57-meric |
Chain 1l
1–132（132 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 1724 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.5% PEG-20K, 7-12% MPD, 0.5 mM BME
|
Resolution 2.70 Å R-free 0.252 |
| 5W4K Crystal structure of the Thermus thermophilus 70S ribosome in complex with Klebsazolicin and bound to mRNA and A-, P- and E-site tRNAs at 2.7A resolution Deposited 2017-06-12 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 50 PDB declaration: 57-meric |
Chain 2l
1–132（132 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 1201 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 K POTASSIUM ION × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.5% PEG-20K, 7-12% MPD, 0.5 mM BME
|
Resolution 2.70 Å R-free 0.252 |
| 5WIS Crystal structure of the Thermus thermophilus 70S ribosome in complex with methymycin and bound to mRNA and A-, P- and E-site tRNAs at 2.7A resolution Deposited 2017-07-20 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 56-meric |
Chain 1l
1–132（132 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 1587 MT9 (3R,4S,5S,7R,9E,11S,12R)-12-ethyl-11-hydroxy-3,5,7,11-tetramethyl-2,8-dioxooxacyclododec-9-en-4-yl 3,4,6-trideoxy-3-(dimethylamino)-beta-D-xylo-hexopyranoside × 1 K POTASSIUM ION × 1 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.5% PEG-20K, 7-12% MPD, 0.5 mM BME
|
Resolution 2.70 Å R-free 0.266 |
| 5WIS Crystal structure of the Thermus thermophilus 70S ribosome in complex with methymycin and bound to mRNA and A-, P- and E-site tRNAs at 2.7A resolution Deposited 2017-07-20 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 49 PDB declaration: 56-meric |
Chain 2l
1–132（132 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 1262 MT9 (3R,4S,5S,7R,9E,11S,12R)-12-ethyl-11-hydroxy-3,5,7,11-tetramethyl-2,8-dioxooxacyclododec-9-en-4-yl 3,4,6-trideoxy-3-(dimethylamino)-beta-D-xylo-hexopyranoside × 1 K POTASSIUM ION × 1 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.5% PEG-20K, 7-12% MPD, 0.5 mM BME
|
Resolution 2.70 Å R-free 0.266 |
| 5WIT Crystal structure of the Thermus thermophilus 70S ribosome in complex with pikromycin and bound to mRNA and A-, P- and E-site tRNAs at 2.6A resolution Deposited 2017-07-20 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 56-meric |
Chain 1l
1–132（132 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 1411 K POTASSIUM ION × 1 AQJ (3R,5R,6S,7S,9R,11E,13S,14R)-14-ethyl-13-hydroxy-3,5,7,9,13-pentamethyl-2,4,10-trioxo-1-oxacyclotetradec-11-en-6-yl 3,4,6-trideoxy-3-(dimethylamino)-beta-D-xylo-hexopyranoside × 1 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.5% PEG-20K, 7-12% MPD, 0.5 mM BME
|
Resolution 2.60 Å R-free 0.283 |
| 5WIT Crystal structure of the Thermus thermophilus 70S ribosome in complex with pikromycin and bound to mRNA and A-, P- and E-site tRNAs at 2.6A resolution Deposited 2017-07-20 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 49 PDB declaration: 56-meric |
Chain 2l
1–132（132 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 982 K POTASSIUM ION × 1 AQJ (3R,5R,6S,7S,9R,11E,13S,14R)-14-ethyl-13-hydroxy-3,5,7,9,13-pentamethyl-2,4,10-trioxo-1-oxacyclotetradec-11-en-6-yl 3,4,6-trideoxy-3-(dimethylamino)-beta-D-xylo-hexopyranoside × 1 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.5% PEG-20K, 7-12% MPD, 0.5 mM BME
|
Resolution 2.60 Å R-free 0.283 |
| 5WNP Crystal Structure of 30S ribosomal subunit from Thermus thermophilus Deposited 2017-08-01 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 20 PDB declaration: 23-meric |
Chain L
2–126（125 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 253 K POTASSIUM ION × 22 ZN ZINC ION × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
MICROBATCH；pH 6.5；298 K；17% MPD
|
Resolution 3.30 Å R-free 0.224 |
| 5WNQ Crystal Structure of 30S ribosomal subunit from Thermus thermophilus Deposited 2017-08-01 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 20 PDB declaration: 21-meric |
Chain L
2–125（124 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 254 ZN ZINC ION × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
MICROBATCH；pH 6.5；298 K；17% MPD
|
Resolution 3.50 Å R-free 0.245 |
| 5WNR Crystal Structure of 30S ribosomal subunit from Thermus thermophilus Deposited 2017-08-01 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 20 PDB declaration: 21-meric |
Chain L
2–125（124 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 254 ZN ZINC ION × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
MICROBATCH；pH 6.5；298 K；17% MPD
|
Resolution 3.50 Å R-free 0.256 |
| 5WNS Crystal Structure of 30S ribosomal subunit from Thermus thermophilus Deposited 2017-08-01 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 20 PDB declaration: 21-meric |
Chain L
2–125（124 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 254 ZN ZINC ION × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
MICROBATCH；pH 6.5；298 K；17% MPD
|
Resolution 3.50 Å R-free 0.255 |
| 5WNT Crystal Structure of 30S ribosomal subunit from Thermus thermophilus Deposited 2017-08-01 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 20 PDB declaration: 23-meric |
Chain L
2–126（125 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 252 K POTASSIUM ION × 22 B6M (1R,2S,3S,4R,6R)-4,6-diamino-2-{[3-O-(2,6-diamino-2,6-dideoxy-alpha-L-altropyranosyl)-beta-L-arabinofuranosyl]oxy}-3-hydroxycyclohexyl 2-amino-2-deoxy-alpha-D-allopyranoside × 1 ZN ZINC ION × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
MICROBATCH；pH 6.5；298 K；17% MPD
|
Resolution 3.30 Å R-free 0.212 |
| 5WNU Crystal Structure of 30S ribosomal subunit from Thermus thermophilus Deposited 2017-08-01 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 20 PDB declaration: 23-meric |
Chain L
2–126（125 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 252 K POTASSIUM ION × 22 B6M (1R,2S,3S,4R,6R)-4,6-diamino-2-{[3-O-(2,6-diamino-2,6-dideoxy-alpha-L-altropyranosyl)-beta-L-arabinofuranosyl]oxy}-3-hydroxycyclohexyl 2-amino-2-deoxy-alpha-D-allopyranoside × 1 ZN ZINC ION × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
MICROBATCH；pH 6.5；298 K；17% MPD
|
Resolution 3.40 Å R-free 0.231 |
| 5WNV Crystal Structure of 30S ribosomal subunit from Thermus thermophilus Deposited 2017-08-01 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 20 PDB declaration: 23-meric |
Chain L
2–126（125 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 251 K POTASSIUM ION × 22 B6M (1R,2S,3S,4R,6R)-4,6-diamino-2-{[3-O-(2,6-diamino-2,6-dideoxy-alpha-L-altropyranosyl)-beta-L-arabinofuranosyl]oxy}-3-hydroxycyclohexyl 2-amino-2-deoxy-alpha-D-allopyranoside × 1 ZN ZINC ION × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
MICROBATCH；pH 6.5；298 K；17% MPD
|
Resolution 3.30 Å R-free 0.203 |
| 5ZLU Ribosome Structure bound to ABC-F protein. Deposited 2018-03-29 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 52 PDB declaration: 57-meric |
Chain Q
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 2 ANP PHOSPHOAMINOPHOSPHONIC ACID-ADENYLATE ESTER × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.60 Å |
| 6BUW Thermus thermophilus 70S complex containing 16S G299A ram mutation and empty A site. Deposited 2017-12-11 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 54-meric |
Chain QL
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 719 SF4 IRON/SULFUR CLUSTER × 1 ZN ZINC ION × 6 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；pH 7；293 K；3.8% PEG 20k, 3.8% PEG 550MME, 100 mM TRIS-ACETATE, 200 mM KSCN, 10 mM MAGNESIUM ACETATE 2.8 mM DOBC
|
Resolution 3.50 Å R-free 0.250 |
| 6BUW Thermus thermophilus 70S complex containing 16S G299A ram mutation and empty A site. Deposited 2017-12-11 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 49 PDB declaration: 54-meric |
Chain XL
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 731 SF4 IRON/SULFUR CLUSTER × 1 ZN ZINC ION × 6 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；pH 7；293 K；3.8% PEG 20k, 3.8% PEG 550MME, 100 mM TRIS-ACETATE, 200 mM KSCN, 10 mM MAGNESIUM ACETATE 2.8 mM DOBC
|
Resolution 3.50 Å R-free 0.250 |
| 6BZ6 Thermus thermophilus 70S complex containing 16S G347U ram mutation and empty A site Deposited 2017-12-22 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 54-meric |
Chain QL
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 641 SF4 IRON/SULFUR CLUSTER × 1 ZN ZINC ION × 6 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；pH 7；293 K；4.8% PEG 20k, 4.8% PEG 550MME, 100 mM TRIS-ACETATE, 200 mM KSCN, 10 mM MAGNESIUM ACETATE 2.8 mM DOBC
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；pH 7；293 K；4.9% PEG 20k, 4.9% PEG 550MME, 100 mM TRIS-ACETATE, 200 mM KSCN, 10 mM MAGNESIUM ACETATE 2.8 mM DOBC
|
Resolution 3.18 Å R-free 0.251 |
| 6BZ6 Thermus thermophilus 70S complex containing 16S G347U ram mutation and empty A site Deposited 2017-12-22 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 49 PDB declaration: 54-meric |
Chain XL
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 703 SF4 IRON/SULFUR CLUSTER × 1 ZN ZINC ION × 6 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；pH 7；293 K；4.8% PEG 20k, 4.8% PEG 550MME, 100 mM TRIS-ACETATE, 200 mM KSCN, 10 mM MAGNESIUM ACETATE 2.8 mM DOBC
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；pH 7；293 K；4.9% PEG 20k, 4.9% PEG 550MME, 100 mM TRIS-ACETATE, 200 mM KSCN, 10 mM MAGNESIUM ACETATE 2.8 mM DOBC
|
Resolution 3.18 Å R-free 0.251 |
| 6BZ7 Thermus thermophilus 70S containing 16S G299A point mutation and near-cognate ASL Leucine in A site. Deposited 2017-12-22 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 56-meric |
Chain QL
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 618 SF4 IRON/SULFUR CLUSTER × 1 ZN ZINC ION × 6 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；pH 7；293 K；3.8% PEG 20k, 3.8% PEG 550MME, 100 mM TRIS-ACETATE, 200 mM KSCN, 10 mM MAGNESIUM ACETATE 2.8 mM DOBC
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；pH 7；293 K；4.1% PEG 20k, 4.1% PEG 550MME, 100 mM TRIS-ACETATE, 200 mM KSCN, 10 mM MAGNESIUM ACETATE 2.8 mM DOBC
|
Resolution 3.68 Å R-free 0.274 |
| 6BZ7 Thermus thermophilus 70S containing 16S G299A point mutation and near-cognate ASL Leucine in A site. Deposited 2017-12-22 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 49 PDB declaration: 56-meric |
Chain XL
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 669 SF4 IRON/SULFUR CLUSTER × 1 ZN ZINC ION × 6 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；pH 7；293 K；3.8% PEG 20k, 3.8% PEG 550MME, 100 mM TRIS-ACETATE, 200 mM KSCN, 10 mM MAGNESIUM ACETATE 2.8 mM DOBC
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；pH 7；293 K；4.1% PEG 20k, 4.1% PEG 550MME, 100 mM TRIS-ACETATE, 200 mM KSCN, 10 mM MAGNESIUM ACETATE 2.8 mM DOBC
|
Resolution 3.68 Å R-free 0.274 |
| 6BZ8 Thermus thermophilus 70S containing 16S G347U point mutation and near-cognate ASL Leucine in A site Deposited 2017-12-22 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 56-meric |
Chain QL
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 624 SF4 IRON/SULFUR CLUSTER × 1 ZN ZINC ION × 6 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；pH 7；293 K；4.7% PEG 20k, 4.7% PEG 550MME, 100 mM TRIS-ACETATE, 200 mM KSCN, 10 mM MAGNESIUM ACETATE 2.8 mM DOBC
|
Resolution 3.74 Å R-free 0.225 |
| 6BZ8 Thermus thermophilus 70S containing 16S G347U point mutation and near-cognate ASL Leucine in A site Deposited 2017-12-22 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 49 PDB declaration: 56-meric |
Chain XL
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 668 SF4 IRON/SULFUR CLUSTER × 1 ZN ZINC ION × 6 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；pH 7；293 K；4.7% PEG 20k, 4.7% PEG 550MME, 100 mM TRIS-ACETATE, 200 mM KSCN, 10 mM MAGNESIUM ACETATE 2.8 mM DOBC
|
Resolution 3.74 Å R-free 0.225 |
| 6CAE Crystal structure of the Thermus thermophilus 70S ribosome in complex with NOSO-95179 antibiotic and bound to mRNA and A-, P- and E-site tRNAs at 2.6A resolution Deposited 2018-01-30 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 51 PDB declaration: 58-meric |
Chain 1l
1–132（132 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 1651 K POTASSIUM ION × 1 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.5% PEG-20K, 7-12% MPD, 0.5 mM BME
|
Resolution 2.60 Å R-free 0.249 |
| 6CAE Crystal structure of the Thermus thermophilus 70S ribosome in complex with NOSO-95179 antibiotic and bound to mRNA and A-, P- and E-site tRNAs at 2.6A resolution Deposited 2018-01-30 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 50 PDB declaration: 57-meric |
Chain 2l
1–132（132 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 1175 K POTASSIUM ION × 1 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.5% PEG-20K, 7-12% MPD, 0.5 mM BME
|
Resolution 2.60 Å R-free 0.249 |
| 6CAO Structure of the ribosomal decoding complex at ambient temperature Deposited 2018-01-31 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 20 PDB declaration: 23-meric |
Chain L
2–126（125 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | PAR PAROMOMYCIN × 6 K POTASSIUM ION × 37 MG MAGNESIUM ION × 303 ZN ZINC ION × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
MICROBATCH；pH 6.5；298 K；17% MPD
|
Resolution 3.45 Å R-free 0.272 |
| 6CAP Crystal Structure of 30S ribosomal subunit from Thermus thermophilus in complex with Sisomicin Deposited 2018-01-31 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 20 PDB declaration: 23-meric |
Chain L
2–125（124 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 252 SIS (1S,2S,3R,4S,6R)-4,6-diamino-3-{[(2S,3R)-3-amino-6-(aminomethyl)-3,4-dihydro-2H-pyran-2-yl]oxy}-2-hydroxycyclohexyl 3-deoxy-4-C-methyl-3-(methylamino)-beta-L-arabinopyranoside × 1 ZN ZINC ION × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
MICROBATCH；pH 6.5；298 K；17% MPD
|
Resolution 3.40 Å R-free 0.230 |
| 6CAQ Crystal Structure of 30S ribosomal subunit from Thermus thermophilus Deposited 2018-01-31 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 20 PDB declaration: 23-meric |
Chain L
2–125（124 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 400 EUS N-[(1R,2S,3S,4R,5S)-5-amino-4-{[(2S,3R)-3-amino-6-(aminomethyl)-3,4-dihydro-2H-pyran-2-yl]oxy}-2-{[3-deoxy-4-C-methyl-3-(methylamino)-beta-L-arabinopyranosyl]oxy}-3-hydroxycyclohexyl]methanesulfonamide × 1 ZN ZINC ION × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
MICROBATCH；pH 6.5；298 K；17% MPD
|
Resolution 3.40 Å R-free 0.220 |
| 6CAR Serial Femtosecond X-ray Crystal Structure of 30S ribosomal subunit from Thermus thermophilus in complex with Sisomicin Deposited 2018-01-31 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 20 PDB declaration: 23-meric |
Chain L
2–132（131 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 283 SIS (1S,2S,3R,4S,6R)-4,6-diamino-3-{[(2S,3R)-3-amino-6-(aminomethyl)-3,4-dihydro-2H-pyran-2-yl]oxy}-2-hydroxycyclohexyl 3-deoxy-4-C-methyl-3-(methylamino)-beta-L-arabinopyranoside × 1 ZN ZINC ION × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
MICROBATCH；pH 6.5；298 K；17% MPD
|
Resolution 3.40 Å R-free 0.266 |
| 6CAS Serial Femtosecond X-ray Crystal Structure of 30S ribosomal subunit from Thermus thermophilus in complex with N1MS Deposited 2018-01-31 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 20 PDB declaration: 23-meric |
Chain L
2–132（131 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 300 EUS N-[(1R,2S,3S,4R,5S)-5-amino-4-{[(2S,3R)-3-amino-6-(aminomethyl)-3,4-dihydro-2H-pyran-2-yl]oxy}-2-{[3-deoxy-4-C-methyl-3-(methylamino)-beta-L-arabinopyranosyl]oxy}-3-hydroxycyclohexyl]methanesulfonamide × 1 ZN ZINC ION × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
MICROBATCH；pH 6.5；298 K；17% MPD
|
Resolution 3.50 Å R-free 0.277 |
| 6CZR The structure of amicetin bound to the 70S ribosome Deposited 2018-04-09 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 52-meric |
Chain 1l
2–123（122 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 1163 ARG ARGININE × 2 MPD (4S)-2-METHYL-2,4-PENTANEDIOL × 4 FSD amicetin × 1 ZN ZINC ION × 4 SF4 IRON/SULFUR CLUSTER × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；pH 7.6；292 K；0.1-0.2 M arginine-HCl, 0.1 M Tris-HCl, pH 7.6, 2.5% PEG20000, 7-12% MPD, 0.5 mM BME
|
Resolution 3.14 Å R-free 0.292 |
| 6CZR The structure of amicetin bound to the 70S ribosome Deposited 2018-04-09 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 49 PDB declaration: 52-meric |
Chain 2l
2–123（122 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 770 MPD (4S)-2-METHYL-2,4-PENTANEDIOL × 3 FSD amicetin × 1 ZN ZINC ION × 5 SF4 IRON/SULFUR CLUSTER × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；pH 7.6；292 K；0.1-0.2 M arginine-HCl, 0.1 M Tris-HCl, pH 7.6, 2.5% PEG20000, 7-12% MPD, 0.5 mM BME
|
Resolution 3.14 Å R-free 0.292 |
| 6DTI Structure of the Thermus thermophilus 30S ribosomal subunit complexed with an unmodifed anticodon stem loop (ASL) of Escherichia coli transfer RNA Arginine 2 (TRNAARG2) bound to an mRNA with an CGU-codon in the A-site and paromomycin Deposited 2018-06-16 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 20 PDB declaration: 23-meric |
Chain L
1–132（132 aa）
|
Not recorded | PAR PAROMOMYCIN × 1 MG MAGNESIUM ION × 94 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, HANGING DROP；pH 6.5；277 K；MPD, NH4Cl, KCl, CaCl2, magnesium acetate, sodium cacodylate, pH 6.5 VAPOR DIFFUSION, HANGING DROP, temperature 277K, temperature 277.0K
|
Resolution 3.54 Å R-free 0.236 |
| 6FKR Crystal structure of the dolphin proline-rich antimicrobial peptide Tur1A bound to the Thermus thermophilus 70S ribosome Deposited 2018-01-24 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 51 PDB declaration: 53-meric |
Chain 1l
2–123（122 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 1347 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；pH 7.6；293 K；Tris-HCl pH 7.6, PEG 20,000, 2-methyl-2,4-pentanediol, L-arginine
|
Resolution 3.20 Å R-free 0.252 |
| 6FKR Crystal structure of the dolphin proline-rich antimicrobial peptide Tur1A bound to the Thermus thermophilus 70S ribosome Deposited 2018-01-24 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 50 PDB declaration: 53-meric |
Chain 2l
2–123（122 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 1347 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；pH 7.6；293 K；Tris-HCl pH 7.6, PEG 20,000, 2-methyl-2,4-pentanediol, L-arginine
|
Resolution 3.20 Å R-free 0.252 |
| 6GSJ Structure of T. thermophilus 70S ribosome complex with mRNA, tRNAfMet and cognate tRNAThr in the A-site Deposited 2018-06-14 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 47 PDB declaration: 54-meric |
Chain 3I
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 874 SF4 IRON/SULFUR CLUSTER × 1 ZN ZINC ION × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；293 K；Tris-OAc, KSCN, PEG-20000, PEG-550mme
|
Resolution 2.96 Å R-free 0.252 |
| 6GSJ Structure of T. thermophilus 70S ribosome complex with mRNA, tRNAfMet and cognate tRNAThr in the A-site Deposited 2018-06-14 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 46 PDB declaration: 53-meric |
Chain 3A
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 620 SF4 IRON/SULFUR CLUSTER × 1 ZN ZINC ION × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；293 K；Tris-OAc, KSCN, PEG-20000, PEG-550mme
|
Resolution 2.96 Å R-free 0.252 |
| 6GSK Structure of T. thermophilus 70S ribosome complex with mRNA, tRNAfMet and near-cognate tRNAThr in the A-site Deposited 2018-06-14 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 47 PDB declaration: 54-meric |
Chain 3I
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 638 SF4 IRON/SULFUR CLUSTER × 1 ZN ZINC ION × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, HANGING DROP；293 K；Tris-OAc, KSCN, PEG-20000, PEG-550mme
|
Resolution 3.36 Å R-free 0.264 |
| 6GSK Structure of T. thermophilus 70S ribosome complex with mRNA, tRNAfMet and near-cognate tRNAThr in the A-site Deposited 2018-06-14 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 46 PDB declaration: 53-meric |
Chain 3A
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 444 SF4 IRON/SULFUR CLUSTER × 1 ZN ZINC ION × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, HANGING DROP；293 K；Tris-OAc, KSCN, PEG-20000, PEG-550mme
|
Resolution 3.36 Å R-free 0.264 |
| 6GSL Structure of T. thermophilus 70S ribosome complex with mRNA, tRNAfMet and cognate tRNAArg in the A-site Deposited 2018-06-14 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 53 PDB declaration: 60-meric |
Chain 3I
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 954 SF4 IRON/SULFUR CLUSTER × 1 ZN ZINC ION × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；293 K；Tris-OAc, KSCN, PEG-20000, PEG-550mme
|
Resolution 3.16 Å |
| 6GSL Structure of T. thermophilus 70S ribosome complex with mRNA, tRNAfMet and cognate tRNAArg in the A-site Deposited 2018-06-14 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 47 PDB declaration: 54-meric |
Chain 3A
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 810 SF4 IRON/SULFUR CLUSTER × 1 ZN ZINC ION × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；293 K；Tris-OAc, KSCN, PEG-20000, PEG-550mme
|
Resolution 3.16 Å |
| 6GZQ T. thermophilus hibernating 70S ribosome Deposited 2018-07-04 | Different construct Different oligomeric state Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 53-meric |
Chain L2
2–126（125 aa）
|
Not recorded | No recorded non-water small molecule |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.28 Å |
| 6GZX T. thermophilus hibernating 100S ribosome (ice) Deposited 2018-07-05 | Different construct Different mutation/modification Different oligomeric state Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 102 PDB declaration: 108-meric |
Chain L3
2–126（125 aa）
Chain L4
2–126（125 aa）
|
Not recorded | No recorded non-water small molecule |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 4.57 Å |
| 6GZZ T. thermophilus hibernating 100S ribosome (amc) Deposited 2018-07-05 | Different construct Different mutation/modification Different oligomeric state Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 102 PDB declaration: 108-meric |
Chain L3
2–126（125 aa）
Chain L4
2–126（125 aa）
|
Not recorded | No recorded non-water small molecule |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 4.13 Å |
| 6MKN Structure of the Thermus thermophilus 30S ribosomal subunit complexed with an inosine (I34) modified anticodon stem loop (ASL) of Escherichia coli transfer RNA Arginine 2 (TRNAARG2) bound to an mRNA with an CGU-codon in the A-site and paromomycin Deposited 2018-09-25 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 20 PDB declaration: 23-meric |
Chain L
1–132（132 aa）
|
Not recorded | PAR PAROMOMYCIN × 1 MG MAGNESIUM ION × 78 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, HANGING DROP；pH 6.5；277 K；MPD, NH4Cl, KCl, CaCl2, magnesium acetate, sodium cacodylate, pH 6.5 VAPOR DIFFUSION, HANGING DROP, temperature 277K
|
Resolution 3.46 Å R-free 0.234 |
| 6MPF Structure of the Thermus thermophilus 30S ribosomal subunit complexed with a 2-thiocytidine (s2C32) and inosine (I34) modified anticodon stem loop (ASL) of Escherichia coli transfer RNA Arginine 1 (TRNAARG1) bound to an mRNA with an CGC-codon in the A-site and paromomycin Deposited 2018-10-05 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 20 PDB declaration: 23-meric |
Chain L
2–125（124 aa）
|
Not recorded | PAR PAROMOMYCIN × 1 MG MAGNESIUM ION × 103 ZN ZINC ION × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, HANGING DROP；pH 6.5；277 K；MPD, NH4Cl, KCl, CaCl2, magnesium acetate, sodium cacodylate, pH 6.5 VAPOR DIFFUSION, HANGING DROP, temperature 277K
|
Resolution 3.33 Å R-free 0.219 |
| 6MPI Structure of the Thermus thermophilus 30S ribosomal subunit complexed with a 2-thiocytidine (s2C32) and inosine (I34) modified anticodon stem loop (ASL) of Escherichia coli transfer RNA Arginine 1 (TRNAARG1) bound to an mRNA with an CGU-codon in the A-site and paromomycin Deposited 2018-10-07 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 20 PDB declaration: 23-meric |
Chain L
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 96 PAR PAROMOMYCIN × 1 ZN ZINC ION × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, HANGING DROP；pH 6.5；277 K；MPD, NH4Cl, KCl, CaCl2, magnesium acetate, sodium cacodylate, pH 6.5 VAPOR DIFFUSION, HANGING DROP, temperature 277K
|
Resolution 3.33 Å R-free 0.216 |
| 6ND5 Crystal structure of the Thermus thermophilus 70S ribosome in complex with chloramphenicol and bound to mRNA and A-, P-, and E-site tRNAs at 2.60A resolution Deposited 2018-12-13 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 56-meric |
Chain 1l
1–132（132 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 1576 CLM CHLORAMPHENICOL × 1 K POTASSIUM ION × 1 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.5% PEG-20K, 7-12% MPD, 0.5 mM BME
|
Resolution 2.60 Å R-free 0.276 |
| 6ND5 Crystal structure of the Thermus thermophilus 70S ribosome in complex with chloramphenicol and bound to mRNA and A-, P-, and E-site tRNAs at 2.60A resolution Deposited 2018-12-13 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 49 PDB declaration: 56-meric |
Chain 2l
1–132（132 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 1246 CLM CHLORAMPHENICOL × 1 K POTASSIUM ION × 1 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.5% PEG-20K, 7-12% MPD, 0.5 mM BME
|
Resolution 2.60 Å R-free 0.276 |
| 6ND6 Crystal structure of the Thermus thermophilus 70S ribosome in complex with erythromycin and bound to mRNA and A-, P-, and E-site tRNAs at 2.85A resolution Deposited 2018-12-13 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 56-meric |
Chain 1l
1–132（132 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 1523 ERY ERYTHROMYCIN A × 1 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.5% PEG-20K, 7-12% MPD, 0.5 mM BME
|
Resolution 2.85 Å R-free 0.305 |
| 6ND6 Crystal structure of the Thermus thermophilus 70S ribosome in complex with erythromycin and bound to mRNA and A-, P-, and E-site tRNAs at 2.85A resolution Deposited 2018-12-13 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 49 PDB declaration: 56-meric |
Chain 2l
1–132（132 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 1222 ERY ERYTHROMYCIN A × 1 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.5% PEG-20K, 7-12% MPD, 0.5 mM BME
|
Resolution 2.85 Å R-free 0.305 |
| 6NDK Structure of ASLSufA6 A37.5 bound to the 70S A site Deposited 2018-12-13 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 56-meric |
Chain QL
1–132（132 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 596 SF4 IRON/SULFUR CLUSTER × 1 ZN ZINC ION × 3 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；pH 7；293 K；0.1 M Tris-HOAc, pH 7.0, 0.2 M KSCN, 4.5-5.5% (v/v) PEG 20K, 4.5-5.5% (v/v) PEG 550MME, 10 mM Mg(OAc)2, 0.0028 mM Deoxy BigCHAP
|
Resolution 3.64 Å R-free 0.250 |
| 6NDK Structure of ASLSufA6 A37.5 bound to the 70S A site Deposited 2018-12-13 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 49 PDB declaration: 56-meric |
Chain XL
1–132（132 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 725 SF4 IRON/SULFUR CLUSTER × 1 ZN ZINC ION × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；pH 7；293 K；0.1 M Tris-HOAc, pH 7.0, 0.2 M KSCN, 4.5-5.5% (v/v) PEG 20K, 4.5-5.5% (v/v) PEG 550MME, 10 mM Mg(OAc)2, 0.0028 mM Deoxy BigCHAP
|
Resolution 3.64 Å R-free 0.250 |
| 6NSH Modified ASL proline bound to Thermus thermophilus 70S (near-cognate) Deposited 2019-01-24 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 54-meric |
Chain QL
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 575 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；pH 7.6；293 K；0.1 M Tris-HOAc, pH 7.6, 0.15 M L-arginine HCl, 2.9% (v/v) PEG 20K, 12% (v/v) MPD, 0.0005M BME
|
Resolution 3.40 Å R-free 0.237 |
| 6NSH Modified ASL proline bound to Thermus thermophilus 70S (near-cognate) Deposited 2019-01-24 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 49 PDB declaration: 54-meric |
Chain XL
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 624 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；pH 7.6；293 K；0.1 M Tris-HOAc, pH 7.6, 0.15 M L-arginine HCl, 2.9% (v/v) PEG 20K, 12% (v/v) MPD, 0.0005M BME
|
Resolution 3.40 Å R-free 0.237 |
| 6NTA Modified ASL proline bound to Thermus thermophilus 70S (cognate) Deposited 2019-01-28 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 54-meric |
Chain QL
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 592 SF4 IRON/SULFUR CLUSTER × 1 ZN ZINC ION × 6 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；pH 7.6；293 K；0.1 M Tris-HOAc, pH 7.6, 0.15 M L-arginine HCl, 2.9% (v/v) PEG 20K, 12% (v/v) MPD, 0.0005M BME
|
Resolution 3.10 Å R-free 0.274 |
| 6NTA Modified ASL proline bound to Thermus thermophilus 70S (cognate) Deposited 2019-01-28 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 49 PDB declaration: 54-meric |
Chain XL
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 679 SF4 IRON/SULFUR CLUSTER × 1 ZN ZINC ION × 6 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；pH 7.6；293 K；0.1 M Tris-HOAc, pH 7.6, 0.15 M L-arginine HCl, 2.9% (v/v) PEG 20K, 12% (v/v) MPD, 0.0005M BME
|
Resolution 3.10 Å R-free 0.274 |
| 6NUO Modified tRNA(Pro) bound to Thermus thermophilus 70S (cognate) Deposited 2019-02-01 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 54-meric |
Chain QL
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 531 SF4 IRON/SULFUR CLUSTER × 1 ZN ZINC ION × 6 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；pH 7.6；293 K；0.1 M Tris-HOAc, pH 7.6, 0.15 M L-arginine HCl, 2.9% (v/v) PEG 20K, 12% (v/v) MPD, 0.0005M BME
|
Resolution 3.20 Å R-free 0.256 |
| 6NUO Modified tRNA(Pro) bound to Thermus thermophilus 70S (cognate) Deposited 2019-02-01 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 49 PDB declaration: 54-meric |
Chain XL
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 621 SF4 IRON/SULFUR CLUSTER × 1 ZN ZINC ION × 6 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；pH 7.6；293 K；0.1 M Tris-HOAc, pH 7.6, 0.15 M L-arginine HCl, 2.9% (v/v) PEG 20K, 12% (v/v) MPD, 0.0005M BME
|
Resolution 3.20 Å R-free 0.256 |
| 6NWY Modified tRNA(Pro) bound to Thermus thermophilus 70S (near-cognate) Deposited 2019-02-07 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 54-meric |
Chain QL
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 547 SF4 IRON/SULFUR CLUSTER × 1 ZN ZINC ION × 5 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；pH 7.6；293 K；0.1 M Tris-HOAc, pH 7.6, 0.15 M L-arginine HCl, 2.9% (v/v) PEG 20K, 12% (v/v) MPD, 0.0005M BME
|
Resolution 3.50 Å R-free 0.258 |
| 6NWY Modified tRNA(Pro) bound to Thermus thermophilus 70S (near-cognate) Deposited 2019-02-07 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 49 PDB declaration: 54-meric |
Chain XL
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 551 SF4 IRON/SULFUR CLUSTER × 1 ZN ZINC ION × 5 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；pH 7.6；293 K；0.1 M Tris-HOAc, pH 7.6, 0.15 M L-arginine HCl, 2.9% (v/v) PEG 20K, 12% (v/v) MPD, 0.0005M BME
|
Resolution 3.50 Å R-free 0.258 |
| 6NY6 Structure of dimeric Escherichia coli toxin YoeB bound to the Thermus thermophilus 30S ribosome Deposited 2019-02-11 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 22 PDB declaration: 23-meric |
Chain L
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 184 SF4 IRON/SULFUR CLUSTER × 1 ZN ZINC ION × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；pH 6.5；277 K；MPD, AMMONIUM CHLORIDE, POTASSIUM CHLORIDE, MAGNESIUM ACETATE, SODIUM CACODYLATE, pH 6.5
|
Resolution 3.74 Å R-free 0.224 |
| 6O3M Unmodified tRNA(Pro) bound to Thermus thermophilus 70S (cognate) Deposited 2019-02-26 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 54-meric |
Chain QL
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 466 SF4 IRON/SULFUR CLUSTER × 1 ZN ZINC ION × 6 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；pH 7.6；293 K；12% MPD 0.1M, Arginine-HCl, 0.1M Tris-HCl pH7.6, 2.9% PEG 20K, 0.0006M BME
|
Resolution 3.97 Å R-free 0.255 |
| 6O3M Unmodified tRNA(Pro) bound to Thermus thermophilus 70S (cognate) Deposited 2019-02-26 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 49 PDB declaration: 54-meric |
Chain XL
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 542 SF4 IRON/SULFUR CLUSTER × 1 ZN ZINC ION × 6 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；pH 7.6；293 K；12% MPD 0.1M, Arginine-HCl, 0.1M Tris-HCl pH7.6, 2.9% PEG 20K, 0.0006M BME
|
Resolution 3.97 Å R-free 0.255 |
| 6O97 Crystal structure of the Thermus thermophilus 70S ribosome in complex with propylamycin and bound to mRNA and A-, P-, and E-site tRNAs at 2.75A resolution Deposited 2019-03-13 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 56-meric |
Chain 1l
1–132（132 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 1565 LUJ (1R,2R,3S,4R,6S)-4,6-diamino-2-{[3-O-(2,6-diamino-2,6-dideoxy-beta-L-idopyranosyl)-beta-D-ribofuranosyl]oxy}-3-hydroxyc yclohexyl 2-amino-2,4-dideoxy-4-propyl-alpha-D-glucopyranoside × 3 K POTASSIUM ION × 1 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.5% PEG-20K, 7-12% MPD, 0.5 mM BME
|
Resolution 2.75 Å R-free 0.284 |
| 6O97 Crystal structure of the Thermus thermophilus 70S ribosome in complex with propylamycin and bound to mRNA and A-, P-, and E-site tRNAs at 2.75A resolution Deposited 2019-03-13 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 49 PDB declaration: 56-meric |
Chain 2l
1–132（132 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 1191 LUJ (1R,2R,3S,4R,6S)-4,6-diamino-2-{[3-O-(2,6-diamino-2,6-dideoxy-beta-L-idopyranosyl)-beta-D-ribofuranosyl]oxy}-3-hydroxyc yclohexyl 2-amino-2,4-dideoxy-4-propyl-alpha-D-glucopyranoside × 3 K POTASSIUM ION × 1 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.5% PEG-20K, 7-12% MPD, 0.5 mM BME
|
Resolution 2.75 Å R-free 0.284 |
| 6OF1 Crystal structure of the Thermus thermophilus 70S ribosome in complex with dirithromycin and bound to mRNA and A-, P-, and E-site tRNAs at 2.80A resolution Deposited 2019-03-28 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 56-meric |
Chain 1l
1–132（132 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 1589 DI0 Dirithromycin × 1 K POTASSIUM ION × 1 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.5% PEG-20K, 7-12% MPD, 0.5 mM BME
|
Resolution 2.80 Å R-free 0.263 |
| 6OF1 Crystal structure of the Thermus thermophilus 70S ribosome in complex with dirithromycin and bound to mRNA and A-, P-, and E-site tRNAs at 2.80A resolution Deposited 2019-03-28 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 49 PDB declaration: 56-meric |
Chain 2l
1–132（132 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 1194 DI0 Dirithromycin × 1 K POTASSIUM ION × 1 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.5% PEG-20K, 7-12% MPD, 0.5 mM BME
|
Resolution 2.80 Å R-free 0.263 |
| 6OF6 Crystal structure of tRNA^ Ala(GGC) bound to cognate 70S A-site Deposited 2019-03-28 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 56-meric |
Chain QL
1–131（131 aa）
|
Not recorded | MG MAGNESIUM ION × 546 PAR PAROMOMYCIN × 1 SF4 IRON/SULFUR CLUSTER × 1 ZN ZINC ION × 1 AMP ADENOSINE MONOPHOSPHATE × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；pH 7；293 K；0.1 M Tris-HOAc, pH 7.0, 0.2 M KSCN, 4-4.5% (v/v) PEG 20K, 4.5-5.5% (v/v) PEG 550MME, 10 mM Mg(OAc)2, 0.0028 mM Deoxy BigCHAP
|
Resolution 3.20 Å R-free 0.232 |
| 6OF6 Crystal structure of tRNA^ Ala(GGC) bound to cognate 70S A-site Deposited 2019-03-28 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 49 PDB declaration: 56-meric |
Chain XL
1–131（131 aa）
|
Not recorded | MG MAGNESIUM ION × 669 PAR PAROMOMYCIN × 1 SF4 IRON/SULFUR CLUSTER × 1 ZN ZINC ION × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；pH 7；293 K；0.1 M Tris-HOAc, pH 7.0, 0.2 M KSCN, 4-4.5% (v/v) PEG 20K, 4.5-5.5% (v/v) PEG 550MME, 10 mM Mg(OAc)2, 0.0028 mM Deoxy BigCHAP
|
Resolution 3.20 Å R-free 0.232 |
| 6OJ2 Crystal structure of tRNA^ Ala(GGC) bound to the near-cognate 70S A-site Deposited 2019-04-10 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 56-meric |
Chain QL
1–131（131 aa）
|
Not recorded | MG MAGNESIUM ION × 433 PAR PAROMOMYCIN × 1 SF4 IRON/SULFUR CLUSTER × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；pH 7；293 K；0.1 M Tris-HOAc, pH 7.0, 0.2 M KSCN, 4-4.5% (v/v) PEG 20K, 4.5-5.5% (v/v) PEG 550MME, 10 mM Mg(OAc)2, 0.0028 mM Deoxy BigCHAP
|
Resolution 3.20 Å R-free 0.270 |
| 6OJ2 Crystal structure of tRNA^ Ala(GGC) bound to the near-cognate 70S A-site Deposited 2019-04-10 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 49 PDB declaration: 56-meric |
Chain XL
1–131（131 aa）
|
Not recorded | MG MAGNESIUM ION × 517 PAR PAROMOMYCIN × 1 SF4 IRON/SULFUR CLUSTER × 1 ZN ZINC ION × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；pH 7；293 K；0.1 M Tris-HOAc, pH 7.0, 0.2 M KSCN, 4-4.5% (v/v) PEG 20K, 4.5-5.5% (v/v) PEG 550MME, 10 mM Mg(OAc)2, 0.0028 mM Deoxy BigCHAP
|
Resolution 3.20 Å R-free 0.270 |
| 6OPE Crystal structure of tRNA^ Ala(GGC) U32-A38 bound to near-cognate 70S A site Deposited 2019-04-24 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 55-meric |
Chain QL
1–131（131 aa）
|
Not recorded | MG MAGNESIUM ION × 378 PAR PAROMOMYCIN × 1 SF4 IRON/SULFUR CLUSTER × 1 ZN ZINC ION × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；pH 7.5；293 K；0.1M L-arginine HCl, 0.1M Tris-HCl pH 7.5, 3% PEG 20K, 10-16.5% MPD (2-methyl-2,4-pentanediol), 1mM BME
|
Resolution 3.10 Å R-free 0.266 |
| 6OPE Crystal structure of tRNA^ Ala(GGC) U32-A38 bound to near-cognate 70S A site Deposited 2019-04-24 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 49 PDB declaration: 55-meric |
Chain XL
1–131（131 aa）
|
Not recorded | MG MAGNESIUM ION × 469 PAR PAROMOMYCIN × 1 SF4 IRON/SULFUR CLUSTER × 1 ZN ZINC ION × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；pH 7.5；293 K；0.1M L-arginine HCl, 0.1M Tris-HCl pH 7.5, 3% PEG 20K, 10-16.5% MPD (2-methyl-2,4-pentanediol), 1mM BME
|
Resolution 3.10 Å R-free 0.266 |
| 6ORD Crystal structure of tRNA^ Ala(GGC) U32-A38 bound to cognate 70S A site Deposited 2019-04-30 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 55-meric |
Chain QL
1–132（132 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 1036 PAR PAROMOMYCIN × 1 SF4 IRON/SULFUR CLUSTER × 1 ZN ZINC ION × 6 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；pH 7.5；293 K；0.1M L-arginine HCl, 0.1M Tris-HCl pH 7.5, 3% PEG 20K, 10-16.5% MPD (2-methyl-2,4-pentanediol), 1mM BME
|
Resolution 3.10 Å R-free 0.268 |
| 6ORD Crystal structure of tRNA^ Ala(GGC) U32-A38 bound to cognate 70S A site Deposited 2019-04-30 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 49 PDB declaration: 55-meric |
Chain XL
1–132（132 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 975 PAR PAROMOMYCIN × 1 SF4 IRON/SULFUR CLUSTER × 1 ZN ZINC ION × 6 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；pH 7.5；293 K；0.1M L-arginine HCl, 0.1M Tris-HCl pH 7.5, 3% PEG 20K, 10-16.5% MPD (2-methyl-2,4-pentanediol), 1mM BME
|
Resolution 3.10 Å R-free 0.268 |
| 6OSI Unmodified tRNA(Pro) bound to Thermus thermophilus 70S (near cognate) Deposited 2019-05-01 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 54-meric |
Chain QL
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 522 SF4 IRON/SULFUR CLUSTER × 1 ZN ZINC ION × 5 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；pH 7.6；293 K；4.0% PEG 20k, 8.0% PEG 200, 200 mM TRIS-ACETATE, 200 mM KSCN, 10 mM MAGNESIUM ACETATE 2.8mM DOBC
|
Resolution 4.14 Å R-free 0.294 |
| 6OSI Unmodified tRNA(Pro) bound to Thermus thermophilus 70S (near cognate) Deposited 2019-05-01 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 49 PDB declaration: 54-meric |
Chain XL
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 504 SF4 IRON/SULFUR CLUSTER × 1 ZN ZINC ION × 5 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；pH 7.6；293 K；4.0% PEG 20k, 8.0% PEG 200, 200 mM TRIS-ACETATE, 200 mM KSCN, 10 mM MAGNESIUM ACETATE 2.8mM DOBC
|
Resolution 4.14 Å R-free 0.294 |
| 6OTR Dimeric E.coli YoeB bound to Thermus thermophilus 70S post-cleavage (AAU) Deposited 2019-05-03 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 51 PDB declaration: 58-meric |
Chain QL
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 410 SF4 IRON/SULFUR CLUSTER × 1 ZN ZINC ION × 3 A3P ADENOSINE-3'-5'-DIPHOSPHATE × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；pH 7；293.15 K；0.1M Tris-HAc, 0.2M KSCN, PEG 5.1%, 5.1% PEG550MME
|
Resolution 3.12 Å R-free 0.257 |
| 6OTR Dimeric E.coli YoeB bound to Thermus thermophilus 70S post-cleavage (AAU) Deposited 2019-05-03 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 51 PDB declaration: 58-meric |
Chain XL
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 464 SF4 IRON/SULFUR CLUSTER × 1 ZN ZINC ION × 2 A3P ADENOSINE-3'-5'-DIPHOSPHATE × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；pH 7；293.15 K；0.1M Tris-HAc, 0.2M KSCN, PEG 5.1%, 5.1% PEG550MME
|
Resolution 3.12 Å R-free 0.257 |
| 6OXA Dimeric E.coli YoeB bound to Thermus thermophilus 70S pre-cleavage (AAU) Deposited 2019-05-13 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 51 PDB declaration: 58-meric |
Chain QL
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 420 SF4 IRON/SULFUR CLUSTER × 1 ZN ZINC ION × 5 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；pH 7；293.15 K；0.1 M Tris-HAc, 0.2M KSCN, PEG 5.1%, 5.1% PEG550MME
|
Resolution 3.25 Å R-free 0.256 |
| 6OXA Dimeric E.coli YoeB bound to Thermus thermophilus 70S pre-cleavage (AAU) Deposited 2019-05-13 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 51 PDB declaration: 58-meric |
Chain XL
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 476 SF4 IRON/SULFUR CLUSTER × 1 ZN ZINC ION × 3 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；pH 7；293.15 K；0.1 M Tris-HAc, 0.2M KSCN, PEG 5.1%, 5.1% PEG550MME
|
Resolution 3.25 Å R-free 0.256 |
| 6OXI Dimeric E.coli YoeB bound to Thermus thermophilus 70S post-cleavage (UAA) Deposited 2019-05-13 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 51 PDB declaration: 57-meric |
Chain QL
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 419 SF4 IRON/SULFUR CLUSTER × 1 ZN ZINC ION × 5 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；pH 7；293.15 K；0.1 M Tris-HAc, 0.2 M KSCN PEG 5.2%, 5.2% PEG550MME
|
Resolution 3.50 Å R-free 0.246 |
| 6OXI Dimeric E.coli YoeB bound to Thermus thermophilus 70S post-cleavage (UAA) Deposited 2019-05-13 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 51 PDB declaration: 57-meric |
Chain XL
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 471 SF4 IRON/SULFUR CLUSTER × 1 ZN ZINC ION × 3 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；pH 7；293.15 K；0.1 M Tris-HAc, 0.2 M KSCN PEG 5.2%, 5.2% PEG550MME
|
Resolution 3.50 Å R-free 0.246 |
| 6Q95 Structure of tmRNA SmpB bound in A site of T. thermophilus 70S ribosome Deposited 2018-12-17 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 54 PDB declaration: 61-meric |
Chain q
2–126（125 aa）
|
Not recorded | MG MAGNESIUM ION × 637 ZN ZINC ION × 3 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.70 Å |
| 6QNQ 70S ribosome initiation complex (IC) with experimentally assigned potassium ions Deposited 2019-02-11 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 57-meric |
Chain 3I
1–132（132 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | K POTASSIUM ION × 169 MG MAGNESIUM ION × 543 SF4 IRON/SULFUR CLUSTER × 1 ZN ZINC ION × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；pH 7.5；293 K；Tris-OAc, KSCN, PEG-20K, PEG-550mme
|
Resolution 3.50 Å R-free 0.251 |
| 6QNQ 70S ribosome initiation complex (IC) with experimentally assigned potassium ions Deposited 2019-02-11 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 48 PDB declaration: 54-meric |
Chain 3A
1–132（132 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | K POTASSIUM ION × 127 MG MAGNESIUM ION × 426 SF4 IRON/SULFUR CLUSTER × 1 ZN ZINC ION × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；pH 7.5；293 K；Tris-OAc, KSCN, PEG-20K, PEG-550mme
|
Resolution 3.50 Å R-free 0.251 |
| 6QNR 70S ribosome elongation complex (EC) with experimentally assigned potassium ions Deposited 2019-02-11 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 57-meric |
Chain 3I
1–132（132 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | K POTASSIUM ION × 211 MG MAGNESIUM ION × 585 SF4 IRON/SULFUR CLUSTER × 1 ZN ZINC ION × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, HANGING DROP；pH 7.5；293 K；Tris-OAc, KSCN, PEG-20k, PEG-550mme
|
Resolution 3.10 Å R-free 0.253 |
| 6QNR 70S ribosome elongation complex (EC) with experimentally assigned potassium ions Deposited 2019-02-11 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 49 PDB declaration: 56-meric |
Chain 3A
1–132（132 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | K POTASSIUM ION × 155 MG MAGNESIUM ION × 409 SF4 IRON/SULFUR CLUSTER × 1 ZN ZINC ION × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, HANGING DROP；pH 7.5；293 K；Tris-OAc, KSCN, PEG-20k, PEG-550mme
|
Resolution 3.10 Å R-free 0.253 |
| 6UCQ Crystal structure of the Thermus thermophilus 70S ribosome recycling complex Deposited 2019-09-17 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Insufficient information Heteromer；Protein × 50 PDB declaration: 56-meric |
Chain 1l
1–132（132 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 1523 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 GDP GUANOSINE-5'-DIPHOSPHATE × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.3；292 K；0.15 M L-arginine-HCl, 0.1M Tris-HCl pH 7.3, 2.4-2.7% PEG-20K, 7-9% MPD, 0.5 mM BME
|
Resolution 3.50 Å R-free 0.294 |
| 6UCQ Crystal structure of the Thermus thermophilus 70S ribosome recycling complex Deposited 2019-09-17 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Insufficient information Heteromer；Protein × 50 PDB declaration: 56-meric |
Chain 2l
1–132（132 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 1350 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 GDP GUANOSINE-5'-DIPHOSPHATE × 1 K POTASSIUM ION × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.3；292 K；0.15 M L-arginine-HCl, 0.1M Tris-HCl pH 7.3, 2.4-2.7% PEG-20K, 7-9% MPD, 0.5 mM BME
|
Resolution 3.50 Å R-free 0.294 |
| 6UO1 Crystal structure of the Thermus thermophilus 70S ribosome in complex with mRNA (containing pseudouridine at the first position of the codon) and deacylated A-, P-, and E-site tRNAs at 2.95A resolution Deposited 2019-10-14 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 56-meric |
Chain 1l
1–132（132 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 918 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.5% PEG-20K, 7-12% MPD, 0.5 mM BME
|
Resolution 2.95 Å R-free 0.292 |
| 6UO1 Crystal structure of the Thermus thermophilus 70S ribosome in complex with mRNA (containing pseudouridine at the first position of the codon) and deacylated A-, P-, and E-site tRNAs at 2.95A resolution Deposited 2019-10-14 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 49 PDB declaration: 56-meric |
Chain 2l
1–132（132 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 534 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.5% PEG-20K, 7-12% MPD, 0.5 mM BME
|
Resolution 2.95 Å R-free 0.292 |
| 6XHV Crystal structure of the A2058-dimethylated Thermus thermophilus 70S ribosome in complex with mRNA, aminoacylated A- and P-site tRNAs, and deacylated E-site tRNA at 2.40A resolution Deposited 2020-06-19 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 56-meric |
Chain 1l
1–132（132 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 1568 K POTASSIUM ION × 1 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.5% PEG-20K, 7-12% MPD, 0.5 mM BME
|
Resolution 2.40 Å R-free 0.286 |
| 6XHV Crystal structure of the A2058-dimethylated Thermus thermophilus 70S ribosome in complex with mRNA, aminoacylated A- and P-site tRNAs, and deacylated E-site tRNA at 2.40A resolution Deposited 2020-06-19 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 49 PDB declaration: 56-meric |
Chain 2l
1–132（132 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 1248 K POTASSIUM ION × 1 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.5% PEG-20K, 7-12% MPD, 0.5 mM BME
|
Resolution 2.40 Å R-free 0.286 |
| 6XHW Crystal structure of the A2058-unmethylated Thermus thermophilus 70S ribosome in complex with mRNA, aminoacylated A- and P-site tRNAs, and deacylated E-site tRNA at 2.50A resolution Deposited 2020-06-19 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 56-meric |
Chain 1l
1–132（132 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 1552 K POTASSIUM ION × 1 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.5% PEG-20K, 7-12% MPD, 0.5 mM BME
|
Resolution 2.50 Å R-free 0.281 |
| 6XHW Crystal structure of the A2058-unmethylated Thermus thermophilus 70S ribosome in complex with mRNA, aminoacylated A- and P-site tRNAs, and deacylated E-site tRNA at 2.50A resolution Deposited 2020-06-19 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 49 PDB declaration: 56-meric |
Chain 2l
1–132（132 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 1244 K POTASSIUM ION × 1 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.5% PEG-20K, 7-12% MPD, 0.5 mM BME
|
Resolution 2.50 Å R-free 0.281 |
| 6XHX Crystal structure of the A2058-unmethylated Thermus thermophilus 70S ribosome in complex with erythromycin and protein Y (YfiA) at 2.55A resolution Deposited 2020-06-19 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 53-meric |
Chain 1l
1–132（132 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 1479 ERY ERYTHROMYCIN A × 1 MPD (4S)-2-METHYL-2,4-PENTANEDIOL × 4 ARG ARGININE × 2 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.5% PEG-20K, 7-12% MPD, 0.5 mM BME
|
Resolution 2.55 Å R-free 0.272 |
| 6XHX Crystal structure of the A2058-unmethylated Thermus thermophilus 70S ribosome in complex with erythromycin and protein Y (YfiA) at 2.55A resolution Deposited 2020-06-19 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 50 PDB declaration: 53-meric |
Chain 2l
1–132（132 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 995 ERY ERYTHROMYCIN A × 1 MPD (4S)-2-METHYL-2,4-PENTANEDIOL × 3 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.5% PEG-20K, 7-12% MPD, 0.5 mM BME
|
Resolution 2.55 Å R-free 0.272 |
| 6XHY Crystal structure of the Thermus thermophilus 70S ribosome in complex with telithromycin, mRNA, aminoacylated A- and P-site tRNAs, and deacylated E-site tRNA at 2.60A resolution Deposited 2020-06-19 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 56-meric |
Chain 1l
1–132（132 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 1510 K POTASSIUM ION × 1 TEL TELITHROMYCIN × 1 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.5% PEG-20K, 7-12% MPD, 0.5 mM BME
|
Resolution 2.60 Å R-free 0.266 |
| 6XHY Crystal structure of the Thermus thermophilus 70S ribosome in complex with telithromycin, mRNA, aminoacylated A- and P-site tRNAs, and deacylated E-site tRNA at 2.60A resolution Deposited 2020-06-19 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 49 PDB declaration: 56-meric |
Chain 2l
1–132（132 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 1165 K POTASSIUM ION × 1 TEL TELITHROMYCIN × 1 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.5% PEG-20K, 7-12% MPD, 0.5 mM BME
|
Resolution 2.60 Å R-free 0.266 |
| 6XQD Crystal structure of the Thermus thermophilus 70S ribosome in complex with sarecycline, UUC-mRNA, and deacylated P-site tRNA at 2.80A resolution Deposited 2020-07-09 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 54-meric |
Chain 1l
1–132（132 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 1535 ZN ZINC ION × 6 V7A Sarecycline × 1 SF4 IRON/SULFUR CLUSTER × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.5% PEG-20K, 7-12% MPD, 0.5 mM BME
|
Resolution 2.80 Å R-free 0.276 |
| 6XQD Crystal structure of the Thermus thermophilus 70S ribosome in complex with sarecycline, UUC-mRNA, and deacylated P-site tRNA at 2.80A resolution Deposited 2020-07-09 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 49 PDB declaration: 54-meric |
Chain 2l
1–132（132 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 1164 ZN ZINC ION × 6 V7A Sarecycline × 1 SF4 IRON/SULFUR CLUSTER × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.5% PEG-20K, 7-12% MPD, 0.5 mM BME
|
Resolution 2.80 Å R-free 0.276 |
| 6XQE Crystal structure of the Thermus thermophilus 70S ribosome in complex with sarecycline, UAA-mRNA, and deacylated P-site tRNA at 3.00A resolution Deposited 2020-07-09 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 54-meric |
Chain 1l
1–132（132 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 1465 K POTASSIUM ION × 1 ZN ZINC ION × 6 V7A Sarecycline × 1 SF4 IRON/SULFUR CLUSTER × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.5% PEG-20K, 7-12% MPD, 0.5 mM BME
|
Resolution 3.00 Å R-free 0.311 |
| 6XQE Crystal structure of the Thermus thermophilus 70S ribosome in complex with sarecycline, UAA-mRNA, and deacylated P-site tRNA at 3.00A resolution Deposited 2020-07-09 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 49 PDB declaration: 54-meric |
Chain 2l
1–132（132 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 1173 K POTASSIUM ION × 1 ZN ZINC ION × 6 V7A Sarecycline × 1 SF4 IRON/SULFUR CLUSTER × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.5% PEG-20K, 7-12% MPD, 0.5 mM BME
|
Resolution 3.00 Å R-free 0.311 |
| 7AZO 70S thermus thermophilus ribosome with bound antibiotic lead SEQ-977 Deposited 2020-11-17 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 48 PDB declaration: 56-meric |
Chain S12A
1–132（132 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 448 OHX osmium (III) hexammine × 318 K POTASSIUM ION × 159 SJE (2R,3S,4R,5R,7S,9S,10S,11R,12S,13R)-12-(((2R,4R,5S,6S)-4,5-dihydroxy-4,6-dimethyltetrahydro-2H-pyran-2-yl)oxy)-2-((S)-1-(((2R,3R,4R,5R,6R)-5-hydroxy-3,4-dimethoxy-6-methyltetrahydro-2H-pyran-2-yl)oxy)propan-2-yl)-10-(((2S,3R,4R,6R)-3-hydroxy-4-(methoxyamino)-6-methyltetrahydro-2H-pyran-2-yl)oxy)-3,5,7,9,11,13-hexamethyl-7-(((2-((2-nitrophenyl)sulfonamido)ethyl)carbamoyl)oxy)-6,14-dioxooxacyclotetradecan-4-yl 3-methylbutanoate × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, HANGING DROP；293 K；PEG2000MMES, KSCN
|
Resolution 3.30 Å R-free 0.238 |
| 7AZO 70S thermus thermophilus ribosome with bound antibiotic lead SEQ-977 Deposited 2020-11-17 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 48 PDB declaration: 55-meric |
Chain S12B
1–132（132 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 340 OHX osmium (III) hexammine × 301 K POTASSIUM ION × 128 SJE (2R,3S,4R,5R,7S,9S,10S,11R,12S,13R)-12-(((2R,4R,5S,6S)-4,5-dihydroxy-4,6-dimethyltetrahydro-2H-pyran-2-yl)oxy)-2-((S)-1-(((2R,3R,4R,5R,6R)-5-hydroxy-3,4-dimethoxy-6-methyltetrahydro-2H-pyran-2-yl)oxy)propan-2-yl)-10-(((2S,3R,4R,6R)-3-hydroxy-4-(methoxyamino)-6-methyltetrahydro-2H-pyran-2-yl)oxy)-3,5,7,9,11,13-hexamethyl-7-(((2-((2-nitrophenyl)sulfonamido)ethyl)carbamoyl)oxy)-6,14-dioxooxacyclotetradecan-4-yl 3-methylbutanoate × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, HANGING DROP；293 K；PEG2000MMES, KSCN
|
Resolution 3.30 Å R-free 0.238 |
| 7AZS 70S thermus thermophilus ribosome with bound antibiotic lead SEQ-569 Deposited 2020-11-17 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 48 PDB declaration: 56-meric |
Chain S12A
1–132（132 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 450 K POTASSIUM ION × 159 OHX osmium (III) hexammine × 304 SJH (2R,3S,4R,5R,7S,9S,10S,11R,12S,13R)-12-(((2R,4R,5S,6S)-4,5-dihydroxy-4,6-dimethyltetrahydro-2H-pyran-2-yl)oxy)-2-((S)-1-(((2R,3R,4R,5R,6R)-5-hydroxy-3,4-dimethoxy-6-methyltetrahydro-2H-pyran-2-yl)oxy)propan-2-yl)-10-(((2S,3R,6R,E)-3-hydroxy-4-(methoxyimino)-6-methyltetrahydro-2H-pyran-2-yl)oxy)-3,5,7,9,11,13-hexamethyl-7-(((2-(2-methyl-5-nitro-1H-imidazol-1-yl)ethyl)carbamoyl)oxy)-6,14-dioxooxacyclotetradecan-4-yl 3-methylbutanoate × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, HANGING DROP；293 K；PEGMMES 2000, KSCN, Tris-HAc
|
Resolution 3.10 Å R-free 0.275 |
| 7AZS 70S thermus thermophilus ribosome with bound antibiotic lead SEQ-569 Deposited 2020-11-17 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 48 PDB declaration: 55-meric |
Chain S12B
1–132（132 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 340 K POTASSIUM ION × 129 OHX osmium (III) hexammine × 294 SJH (2R,3S,4R,5R,7S,9S,10S,11R,12S,13R)-12-(((2R,4R,5S,6S)-4,5-dihydroxy-4,6-dimethyltetrahydro-2H-pyran-2-yl)oxy)-2-((S)-1-(((2R,3R,4R,5R,6R)-5-hydroxy-3,4-dimethoxy-6-methyltetrahydro-2H-pyran-2-yl)oxy)propan-2-yl)-10-(((2S,3R,6R,E)-3-hydroxy-4-(methoxyimino)-6-methyltetrahydro-2H-pyran-2-yl)oxy)-3,5,7,9,11,13-hexamethyl-7-(((2-(2-methyl-5-nitro-1H-imidazol-1-yl)ethyl)carbamoyl)oxy)-6,14-dioxooxacyclotetradecan-4-yl 3-methylbutanoate × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, HANGING DROP；293 K；PEGMMES 2000, KSCN, Tris-HAc
|
Resolution 3.10 Å R-free 0.275 |
| 7JQL Crystal structure of the Thermus thermophilus 70S ribosome in complex with Bac7-001, mRNA, and deacylated P-site tRNA at 3.00A resolution Deposited 2020-08-11 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 55-meric |
Chain 1l
1–132（132 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 1440 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.5% PEG-20K, 7-12% MPD, 0.5 mM BME
|
Resolution 3.00 Å R-free 0.285 |
| 7JQL Crystal structure of the Thermus thermophilus 70S ribosome in complex with Bac7-001, mRNA, and deacylated P-site tRNA at 3.00A resolution Deposited 2020-08-11 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 50 PDB declaration: 55-meric |
Chain 2l
1–132（132 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 1108 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 K POTASSIUM ION × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.5% PEG-20K, 7-12% MPD, 0.5 mM BME
|
Resolution 3.00 Å R-free 0.285 |
| 7JQM Crystal structure of the Thermus thermophilus 70S ribosome in complex with Bac7-002, mRNA, and deacylated P-site tRNA at 3.05A resolution Deposited 2020-08-11 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 55-meric |
Chain 1l
1–132（132 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 1174 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.5% PEG-20K, 7-12% MPD, 0.5 mM BME
|
Resolution 3.05 Å R-free 0.283 |
| 7JQM Crystal structure of the Thermus thermophilus 70S ribosome in complex with Bac7-002, mRNA, and deacylated P-site tRNA at 3.05A resolution Deposited 2020-08-11 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 50 PDB declaration: 55-meric |
Chain 2l
1–132（132 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 835 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 K POTASSIUM ION × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.5% PEG-20K, 7-12% MPD, 0.5 mM BME
|
Resolution 3.05 Å R-free 0.283 |
| 7LH5 Crystal structure of the Thermus thermophilus 70S ribosome in complex with plazomicin, mRNA and tRNAs Deposited 2021-01-21 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 52 PDB declaration: 59-meric |
Chain AL
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 743 EDS (2S)-4-amino-N-[(1R,2S,3S,4R,5S)-5-amino-4-{[(2S,3R)-3-amino-6-{[(2-hydroxyethyl)amino]methyl}-3,4-dihydro-2H-pyran-2-y l]oxy}-2-{[3-deoxy-4-C-methyl-3-(methylamino)-beta-L-arabinopyranosyl]oxy}-3-hydroxycyclohexyl]-2-hydroxybutanamide × 1 ZN ZINC ION × 3 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；294.15 K；100 mM TRIS-HCl, pH 7.6,
3-3.2% (w/v) PEG 20K,
7-12% (v/v) MPD,
100-200 mM arginine,
0.5 mM Beta-mercaptoethanol
|
Resolution 3.27 Å R-free 0.277 |
| 7LH5 Crystal structure of the Thermus thermophilus 70S ribosome in complex with plazomicin, mRNA and tRNAs Deposited 2021-01-21 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 52 PDB declaration: 59-meric |
Chain CL
1–132（132 aa）
|
Not recorded | MG MAGNESIUM ION × 633 EDS (2S)-4-amino-N-[(1R,2S,3S,4R,5S)-5-amino-4-{[(2S,3R)-3-amino-6-{[(2-hydroxyethyl)amino]methyl}-3,4-dihydro-2H-pyran-2-y l]oxy}-2-{[3-deoxy-4-C-methyl-3-(methylamino)-beta-L-arabinopyranosyl]oxy}-3-hydroxycyclohexyl]-2-hydroxybutanamide × 1 ZN ZINC ION × 3 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；294.15 K；100 mM TRIS-HCl, pH 7.6,
3-3.2% (w/v) PEG 20K,
7-12% (v/v) MPD,
100-200 mM arginine,
0.5 mM Beta-mercaptoethanol
|
Resolution 3.27 Å R-free 0.277 |
| 7MD7 Crystal structure of the Thermus thermophilus 70S ribosome in complex with triphenylphosphonium analog of chloramphenicol CAM-C4-TPP and protein Y (YfiA) at 2.80A resolution Deposited 2021-04-03 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 53-meric |
Chain 1l
1–132（132 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 1514 YXM N-[(1R,2R)-1,3-dihydroxy-1-(4-nitrophenyl)propan-2-yl]-5-(triphenyl-lambda~5~-phosphanyl)pentanamide × 1 MPD (4S)-2-METHYL-2,4-PENTANEDIOL × 4 ARG ARGININE × 2 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.5% PEG-20K, 7-12% MPD, 0.5 mM BME
|
Resolution 2.80 Å R-free 0.268 |
| 7MD7 Crystal structure of the Thermus thermophilus 70S ribosome in complex with triphenylphosphonium analog of chloramphenicol CAM-C4-TPP and protein Y (YfiA) at 2.80A resolution Deposited 2021-04-03 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 50 PDB declaration: 53-meric |
Chain 2l
1–132（132 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 1040 YXM N-[(1R,2R)-1,3-dihydroxy-1-(4-nitrophenyl)propan-2-yl]-5-(triphenyl-lambda~5~-phosphanyl)pentanamide × 1 MPD (4S)-2-METHYL-2,4-PENTANEDIOL × 3 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.5% PEG-20K, 7-12% MPD, 0.5 mM BME
|
Resolution 2.80 Å R-free 0.268 |
| 7RQ8 Crystal structure of the wild-type Thermus thermophilus 70S ribosome in complex with iboxamycin, mRNA, deacylated A- and E-site tRNAs, and aminoacylated P-site tRNA at 2.50A resolution Deposited 2021-08-06 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 56-meric |
Chain 1l
1–132（132 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 1567 6IF methyl 7-chloro-6,7,8-trideoxy-6-{[(4S,5aS,8S,8aR)-4-(2-methylpropyl)octahydro-2H-oxepino[2,3-c]pyrrole-8-carbonyl]amino}-1-thio-L-threo-alpha-D-galacto-octopyranoside × 1 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.5% PEG-20K, 7-12% MPD, 0.5 mM BME
|
Resolution 2.50 Å R-free 0.268 |
| 7RQ8 Crystal structure of the wild-type Thermus thermophilus 70S ribosome in complex with iboxamycin, mRNA, deacylated A- and E-site tRNAs, and aminoacylated P-site tRNA at 2.50A resolution Deposited 2021-08-06 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 49 PDB declaration: 56-meric |
Chain 2l
1–132（132 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 1002 6IF methyl 7-chloro-6,7,8-trideoxy-6-{[(4S,5aS,8S,8aR)-4-(2-methylpropyl)octahydro-2H-oxepino[2,3-c]pyrrole-8-carbonyl]amino}-1-thio-L-threo-alpha-D-galacto-octopyranoside × 1 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 K POTASSIUM ION × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.5% PEG-20K, 7-12% MPD, 0.5 mM BME
|
Resolution 2.50 Å R-free 0.268 |
| 7RQ9 Crystal structure of the A2058-dimethylated Thermus thermophilus 70S ribosome in complex with iboxamycin, mRNA, deacylated A- and E-site tRNAs, and aminoacylated P-site tRNA at 2.60A resolution Deposited 2021-08-06 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 56-meric |
Chain 1l
1–132（132 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 1544 K POTASSIUM ION × 1 6IF methyl 7-chloro-6,7,8-trideoxy-6-{[(4S,5aS,8S,8aR)-4-(2-methylpropyl)octahydro-2H-oxepino[2,3-c]pyrrole-8-carbonyl]amino}-1-thio-L-threo-alpha-D-galacto-octopyranoside × 1 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.5% PEG-20K, 7-12% MPD, 0.5 mM BME
|
Resolution 2.60 Å R-free 0.298 |
| 7RQ9 Crystal structure of the A2058-dimethylated Thermus thermophilus 70S ribosome in complex with iboxamycin, mRNA, deacylated A- and E-site tRNAs, and aminoacylated P-site tRNA at 2.60A resolution Deposited 2021-08-06 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 49 PDB declaration: 56-meric |
Chain 2l
1–132（132 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 1203 K POTASSIUM ION × 1 6IF methyl 7-chloro-6,7,8-trideoxy-6-{[(4S,5aS,8S,8aR)-4-(2-methylpropyl)octahydro-2H-oxepino[2,3-c]pyrrole-8-carbonyl]amino}-1-thio-L-threo-alpha-D-galacto-octopyranoside × 1 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.5% PEG-20K, 7-12% MPD, 0.5 mM BME
|
Resolution 2.60 Å R-free 0.298 |
| 7RQA Crystal structure of the Thermus thermophilus 70S ribosome in complex with protein Y, A-site aminoacyl-tRNA analog ACC-PMN, and P-site MTI-tripeptidyl-tRNA analog ACCA-ITM at 2.40A resolution Deposited 2021-08-06 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 51 PDB declaration: 56-meric |
Chain 1l
1–132（132 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 1495 MPD (4S)-2-METHYL-2,4-PENTANEDIOL × 4 ARG ARGININE × 2 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.5% PEG-20K, 7-12% MPD, 0.5 mM BME
|
Resolution 2.40 Å R-free 0.289 |
| 7RQA Crystal structure of the Thermus thermophilus 70S ribosome in complex with protein Y, A-site aminoacyl-tRNA analog ACC-PMN, and P-site MTI-tripeptidyl-tRNA analog ACCA-ITM at 2.40A resolution Deposited 2021-08-06 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 51 PDB declaration: 56-meric |
Chain 2l
1–132（132 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 1016 MPD (4S)-2-METHYL-2,4-PENTANEDIOL × 2 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 MRD (4R)-2-METHYLPENTANE-2,4-DIOL × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.5% PEG-20K, 7-12% MPD, 0.5 mM BME
|
Resolution 2.40 Å R-free 0.289 |
| 7RQB Crystal structure of the Thermus thermophilus 70S ribosome in complex with protein Y, A-site aminoacyl-tRNA analog ACC-PMN, and P-site MAI-tripeptidyl-tRNA analog ACCA-IAM at 2.45A resolution Deposited 2021-08-06 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 51 PDB declaration: 56-meric |
Chain 1l
1–132（132 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 1468 MPD (4S)-2-METHYL-2,4-PENTANEDIOL × 4 ARG ARGININE × 2 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.5% PEG-20K, 7-12% MPD, 0.5 mM BME
|
Resolution 2.45 Å R-free 0.244 |
| 7RQB Crystal structure of the Thermus thermophilus 70S ribosome in complex with protein Y, A-site aminoacyl-tRNA analog ACC-PMN, and P-site MAI-tripeptidyl-tRNA analog ACCA-IAM at 2.45A resolution Deposited 2021-08-06 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 51 PDB declaration: 56-meric |
Chain 2l
1–132（132 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 1000 MPD (4S)-2-METHYL-2,4-PENTANEDIOL × 2 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.5% PEG-20K, 7-12% MPD, 0.5 mM BME
|
Resolution 2.45 Å R-free 0.244 |
| 7RQC Crystal structure of the Thermus thermophilus 70S ribosome in complex with protein Y, A-site aminoacyl-tRNA analog ACC-PMN, and P-site MFI-tripeptidyl-tRNA analog ACCA-IFM at 2.50A resolution Deposited 2021-08-06 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 51 PDB declaration: 56-meric |
Chain 1l
1–132（132 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 1490 MPD (4S)-2-METHYL-2,4-PENTANEDIOL × 4 ARG ARGININE × 2 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.5% PEG-20K, 7-12% MPD, 0.5 mM BME
|
Resolution 2.50 Å R-free 0.278 |
| 7RQC Crystal structure of the Thermus thermophilus 70S ribosome in complex with protein Y, A-site aminoacyl-tRNA analog ACC-PMN, and P-site MFI-tripeptidyl-tRNA analog ACCA-IFM at 2.50A resolution Deposited 2021-08-06 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 51 PDB declaration: 56-meric |
Chain 2l
1–132（132 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 1008 MPD (4S)-2-METHYL-2,4-PENTANEDIOL × 3 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.5% PEG-20K, 7-12% MPD, 0.5 mM BME
|
Resolution 2.50 Å R-free 0.278 |
| 7RQD Crystal structure of the Thermus thermophilus 70S ribosome in complex with protein Y, A-site deacylated tRNA analog CACCA, P-site MTI-tripeptidyl-tRNA analog ACCA-ITM, and chloramphenicol at 2.50A resolution Deposited 2021-08-06 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 51 PDB declaration: 56-meric |
Chain 1l
1–132（132 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 1482 CLM CHLORAMPHENICOL × 1 ARG ARGININE × 2 MPD (4S)-2-METHYL-2,4-PENTANEDIOL × 4 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCl, 0.1 M Tris-HCl, pH 7.6, 2.5% PEG20000, 7-12% MPD, 0.5 mM BME
|
Resolution 2.50 Å R-free 0.280 |
| 7RQD Crystal structure of the Thermus thermophilus 70S ribosome in complex with protein Y, A-site deacylated tRNA analog CACCA, P-site MTI-tripeptidyl-tRNA analog ACCA-ITM, and chloramphenicol at 2.50A resolution Deposited 2021-08-06 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 51 PDB declaration: 56-meric |
Chain 2l
1–132（132 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 1004 CLM CHLORAMPHENICOL × 1 MPD (4S)-2-METHYL-2,4-PENTANEDIOL × 2 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCl, 0.1 M Tris-HCl, pH 7.6, 2.5% PEG20000, 7-12% MPD, 0.5 mM BME
|
Resolution 2.50 Å R-free 0.280 |
| 7RQE Crystal structure of the Thermus thermophilus 70S ribosome in complex with protein Y, A-site deacylated tRNA analog CACCA, P-site MAI-tripeptidyl-tRNA analog ACCA-IAM, and chloramphenicol at 2.40A resolution Deposited 2021-08-06 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 51 PDB declaration: 56-meric |
Chain 1l
1–132（132 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 1474 CLM CHLORAMPHENICOL × 1 ARG ARGININE × 2 MPD (4S)-2-METHYL-2,4-PENTANEDIOL × 4 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.5% PEG-20K, 7-12% MPD, 0.5 mM BME
|
Resolution 2.40 Å R-free 0.269 |
| 7RQE Crystal structure of the Thermus thermophilus 70S ribosome in complex with protein Y, A-site deacylated tRNA analog CACCA, P-site MAI-tripeptidyl-tRNA analog ACCA-IAM, and chloramphenicol at 2.40A resolution Deposited 2021-08-06 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 51 PDB declaration: 56-meric |
Chain 2l
1–132（132 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 1019 CLM CHLORAMPHENICOL × 1 MPD (4S)-2-METHYL-2,4-PENTANEDIOL × 2 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.5% PEG-20K, 7-12% MPD, 0.5 mM BME
|
Resolution 2.40 Å R-free 0.269 |
| 7U2H Crystal structure of the Thermus thermophilus 70S ribosome in complex with mRNA, aminoacylated A-site Gly-NH-tRNAgly, aminoacylated P-site fMet-NH-tRNAmet, and deacylated E-site tRNAgly at 2.55A resolution Deposited 2022-02-24 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 56-meric |
Chain 1l
1–132（132 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 1547 K POTASSIUM ION × 1 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M arginine-HCl, 0.1 M Tris-HCl, pH 7.6, 2.5% PEG20000, 7-12% MPD, 0.5 mM BME
|
Resolution 2.55 Å R-free 0.263 |
| 7U2H Crystal structure of the Thermus thermophilus 70S ribosome in complex with mRNA, aminoacylated A-site Gly-NH-tRNAgly, aminoacylated P-site fMet-NH-tRNAmet, and deacylated E-site tRNAgly at 2.55A resolution Deposited 2022-02-24 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 49 PDB declaration: 56-meric |
Chain 2l
1–132（132 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 1199 K POTASSIUM ION × 1 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M arginine-HCl, 0.1 M Tris-HCl, pH 7.6, 2.5% PEG20000, 7-12% MPD, 0.5 mM BME
|
Resolution 2.55 Å R-free 0.263 |
| 7U2I Crystal structure of the Thermus thermophilus 70S ribosome in complex with mRNA, aminoacylated A-site Gly-NH-tRNAgly, aminoacylated P-site fMet-NH-tRNAmet, deacylated E-site tRNAgly, and chloramphenicol at 2.55A resolution Deposited 2022-02-24 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 56-meric |
Chain 1l
1–132（132 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 1547 K POTASSIUM ION × 1 CLM CHLORAMPHENICOL × 1 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M arginine-HCl, 0.1 M Tris-HCl, pH 7.6, 2.5% PEG20000, 7-12% MPD, 0.5 mM BME
|
Resolution 2.55 Å R-free 0.268 |
| 7U2I Crystal structure of the Thermus thermophilus 70S ribosome in complex with mRNA, aminoacylated A-site Gly-NH-tRNAgly, aminoacylated P-site fMet-NH-tRNAmet, deacylated E-site tRNAgly, and chloramphenicol at 2.55A resolution Deposited 2022-02-24 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 49 PDB declaration: 56-meric |
Chain 2l
1–132（132 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 1196 K POTASSIUM ION × 1 CLM CHLORAMPHENICOL × 1 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M arginine-HCl, 0.1 M Tris-HCl, pH 7.6, 2.5% PEG20000, 7-12% MPD, 0.5 mM BME
|
Resolution 2.55 Å R-free 0.268 |
| 7U2J Crystal structure of the Thermus thermophilus 70S ribosome in complex with mRNA, aminoacylated A-site Gly-NH-tRNAgly, peptidyl P-site fMAC-NH-tRNAmet, deacylated E-site tRNAgly, and chloramphenicol at 2.55A resolution Deposited 2022-02-24 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 57-meric |
Chain 1l
1–132（132 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 1530 K POTASSIUM ION × 1 CLM CHLORAMPHENICOL × 1 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M arginine-HCl, 0.1 M Tris-HCl, pH 7.6, 2.5% PEG20000, 7-12% MPD, 0.5 mM BME
|
Resolution 2.55 Å R-free 0.256 |
| 7U2J Crystal structure of the Thermus thermophilus 70S ribosome in complex with mRNA, aminoacylated A-site Gly-NH-tRNAgly, peptidyl P-site fMAC-NH-tRNAmet, deacylated E-site tRNAgly, and chloramphenicol at 2.55A resolution Deposited 2022-02-24 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 50 PDB declaration: 57-meric |
Chain 2l
1–132（132 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 1121 K POTASSIUM ION × 1 CLM CHLORAMPHENICOL × 1 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M arginine-HCl, 0.1 M Tris-HCl, pH 7.6, 2.5% PEG20000, 7-12% MPD, 0.5 mM BME
|
Resolution 2.55 Å R-free 0.256 |
| 7V2L T.thermophilus 30S ribosome with KsgA, class K1k2 Deposited 2021-08-09 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 21 PDB declaration: 22-meric |
Chain L
1–132（132 aa）
|
Not recorded | ZN ZINC ION × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE；After application of the complex, 15 seconds wait time was given before blotting.
|
Resolution 3.30 Å |
| 7V2M T.thermophilus 30S ribosome with KsgA, class K1k4 Deposited 2021-08-09 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 22 PDB declaration: 23-meric |
Chain L
1–132（132 aa）
|
Not recorded | ZN ZINC ION × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE；After application of the complex, 15 seconds wait time was given before blotting.
|
Resolution 3.40 Å |
| 7V2N T.thermophilus 30S ribosome with KsgA, class K2 Deposited 2021-08-09 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 21 PDB declaration: 22-meric |
Chain L
1–132（132 aa）
|
Not recorded | ZN ZINC ION × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE；After application of the complex, 15 seconds wait time was given before blotting.
|
Resolution 3.60 Å |
| 7V2O T.thermophilus 30S ribosome with KsgA, class K4 Deposited 2021-08-09 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 21 PDB declaration: 22-meric |
Chain L
1–132（132 aa）
|
Not recorded | ZN ZINC ION × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE；After application of the complex, 15 seconds wait time was given before blotting.
|
Resolution 3.50 Å |
| 7V2P T.thermophilus 30S ribosome with KsgA, class K5 Deposited 2021-08-09 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 21 PDB declaration: 22-meric |
Chain L
1–132（132 aa）
|
Not recorded | ZN ZINC ION × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE；After application of the complex, 15 seconds wait time was given before blotting.
|
Resolution 3.30 Å |
| 7V2Q T.thermophilus 30S ribosome with KsgA, class K6 Deposited 2021-08-09 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 22 PDB declaration: 23-meric |
Chain L
1–132（132 aa）
|
Not recorded | ZN ZINC ION × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE；After application of the complex, 15 seconds wait time was given before blotting.
|
Resolution 3.24 Å |
| 8CVJ Crystal structure of the Thermus thermophilus 70S ribosome in complex with mRNA, aminoacylated A-site Phe-NH-tRNAphe, peptidyl P-site fMSEAC-NH-tRNAmet, and deacylated E-site tRNAphe at 2.40A resolution Deposited 2022-05-18 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 57-meric |
Chain 1l
1–132（132 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 1545 K POTASSIUM ION × 1 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.5% PEG-20K, 7-12% MPD, 0.5 mM BME
|
Resolution 2.40 Å R-free 0.295 |
| 8CVJ Crystal structure of the Thermus thermophilus 70S ribosome in complex with mRNA, aminoacylated A-site Phe-NH-tRNAphe, peptidyl P-site fMSEAC-NH-tRNAmet, and deacylated E-site tRNAphe at 2.40A resolution Deposited 2022-05-18 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 50 PDB declaration: 57-meric |
Chain 2l
1–132（132 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 1217 K POTASSIUM ION × 1 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.5% PEG-20K, 7-12% MPD, 0.5 mM BME
|
Resolution 2.40 Å R-free 0.295 |
| 8CVK Crystal structure of the Thermus thermophilus 70S ribosome in complex with mRNA, aminoacylated A-site Phe-NH-tRNAphe, peptidyl P-site fMRC-NH-tRNAmet, and deacylated E-site tRNAphe at 2.50A resolution Deposited 2022-05-18 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 57-meric |
Chain 1l
1–132（132 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 1542 K POTASSIUM ION × 1 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.5% PEG-20K, 7-12% MPD, 0.5 mM BME
|
Resolution 2.50 Å R-free 0.284 |
| 8CVK Crystal structure of the Thermus thermophilus 70S ribosome in complex with mRNA, aminoacylated A-site Phe-NH-tRNAphe, peptidyl P-site fMRC-NH-tRNAmet, and deacylated E-site tRNAphe at 2.50A resolution Deposited 2022-05-18 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 50 PDB declaration: 57-meric |
Chain 2l
1–132（132 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 1226 K POTASSIUM ION × 1 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.5% PEG-20K, 7-12% MPD, 0.5 mM BME
|
Resolution 2.50 Å R-free 0.284 |
| 8CVL Crystal structure of the Thermus thermophilus 70S ribosome in complex with mRNA, aminoacylated A-site Phe-NH-tRNAphe, peptidyl P-site fMTHSMRC-NH-tRNAmet, and deacylated E-site tRNAphe at 2.30A resolution Deposited 2022-05-18 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 57-meric |
Chain 1l
1–132（132 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 1534 K POTASSIUM ION × 1 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.5% PEG-20K, 7-12% MPD, 0.5 mM BME
|
Resolution 2.30 Å R-free 0.281 |
| 8CVL Crystal structure of the Thermus thermophilus 70S ribosome in complex with mRNA, aminoacylated A-site Phe-NH-tRNAphe, peptidyl P-site fMTHSMRC-NH-tRNAmet, and deacylated E-site tRNAphe at 2.30A resolution Deposited 2022-05-18 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 50 PDB declaration: 57-meric |
Chain 2l
1–132（132 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 1189 K POTASSIUM ION × 1 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.5% PEG-20K, 7-12% MPD, 0.5 mM BME
|
Resolution 2.30 Å R-free 0.281 |
| 8EKB Crystal structure of the Thermus thermophilus 70S ribosome in complex with mRNA, deacylated P-site tRNAmet, and thermorubin at 2.70A resolution Deposited 2022-09-20 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 54-meric |
Chain 1l
1–132（132 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 1469 K POTASSIUM ION × 1 T8B Thermorubin × 1 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.5% PEG-20K, 7-12% MPD, 0.5 mM BME
|
Resolution 2.70 Å R-free 0.257 |
| 8EKB Crystal structure of the Thermus thermophilus 70S ribosome in complex with mRNA, deacylated P-site tRNAmet, and thermorubin at 2.70A resolution Deposited 2022-09-20 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 49 PDB declaration: 54-meric |
Chain 2l
1–132（132 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 994 K POTASSIUM ION × 1 T8B Thermorubin × 1 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.5% PEG-20K, 7-12% MPD, 0.5 mM BME
|
Resolution 2.70 Å R-free 0.257 |
| 8EV6 Crystal structure of the Thermus thermophilus 70S ribosome in complex with amikacin, mRNA, and A-, P-, and E-site tRNAs Deposited 2022-10-19 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 56-meric |
Chain 1l
1–132（132 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 1382 AKN (2S)-N-[(1R,2S,3S,4R,5S)-4-[(2R,3R,4S,5S,6R)-6-(aminomethyl)-3,4,5-tris(oxidanyl)oxan-2-yl]oxy-5-azanyl-2-[(2S,3R,4S,5S ,6R)-4-azanyl-6-(hydroxymethyl)-3,5-bis(oxidanyl)oxan-2-yl]oxy-3-oxidanyl-cyclohexyl]-4-azanyl-2-oxidanyl-butanamide × 5 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.15 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.9% PEG-20K, 9-10.5% MPD, 0.5 mM BME
|
Resolution 2.95 Å R-free 0.272 |
| 8EV6 Crystal structure of the Thermus thermophilus 70S ribosome in complex with amikacin, mRNA, and A-, P-, and E-site tRNAs Deposited 2022-10-19 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 49 PDB declaration: 56-meric |
Chain 2l
1–132（132 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 951 AKN (2S)-N-[(1R,2S,3S,4R,5S)-4-[(2R,3R,4S,5S,6R)-6-(aminomethyl)-3,4,5-tris(oxidanyl)oxan-2-yl]oxy-5-azanyl-2-[(2S,3R,4S,5S ,6R)-4-azanyl-6-(hydroxymethyl)-3,5-bis(oxidanyl)oxan-2-yl]oxy-3-oxidanyl-cyclohexyl]-4-azanyl-2-oxidanyl-butanamide × 3 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.15 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.9% PEG-20K, 9-10.5% MPD, 0.5 mM BME
|
Resolution 2.95 Å R-free 0.272 |
| 8EV7 Crystal structure of the Thermus thermophilus 70S ribosome in complex with kanamycin, mRNA, and A-, P-, and E-site tRNAs Deposited 2022-10-19 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 56-meric |
Chain 1l
1–132（132 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 1416 KAN KANAMYCIN A × 4 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.15 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.9% PEG-20K, 9-10.5% MPD, 0.5 mM BME
|
Resolution 2.89 Å R-free 0.263 |
| 8EV7 Crystal structure of the Thermus thermophilus 70S ribosome in complex with kanamycin, mRNA, and A-, P-, and E-site tRNAs Deposited 2022-10-19 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 49 PDB declaration: 56-meric |
Chain 2l
1–132（132 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 843 KAN KANAMYCIN A × 3 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.15 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.9% PEG-20K, 9-10.5% MPD, 0.5 mM BME
|
Resolution 2.89 Å R-free 0.263 |
| 8FC1 Crystal structure of the Thermus thermophilus 70S ribosome in complex with protein Y, hygromycin A, and erythromycin at 2.50A resolution Deposited 2022-12-01 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 53-meric |
Chain 1l
1–132（132 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 1505 HGR Hygromycin A × 1 ERY ERYTHROMYCIN A × 1 MPD (4S)-2-METHYL-2,4-PENTANEDIOL × 4 ARG ARGININE × 2 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.5% PEG-20K, 7-12% MPD, 0.5 mM BME
|
Resolution 2.50 Å R-free 0.246 |
| 8FC1 Crystal structure of the Thermus thermophilus 70S ribosome in complex with protein Y, hygromycin A, and erythromycin at 2.50A resolution Deposited 2022-12-01 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 50 PDB declaration: 53-meric |
Chain 2l
1–132（132 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 1002 HGR Hygromycin A × 1 ERY ERYTHROMYCIN A × 1 MPD (4S)-2-METHYL-2,4-PENTANEDIOL × 3 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.5% PEG-20K, 7-12% MPD, 0.5 mM BME
|
Resolution 2.50 Å R-free 0.246 |
| 8FC2 Crystal structure of the Thermus thermophilus 70S ribosome in complex with protein Y, hygromycin A, and azithromycin at 2.50A resolution Deposited 2022-12-01 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 53-meric |
Chain 1l
1–132（132 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 1491 HGR Hygromycin A × 1 ZIT AZITHROMYCIN × 1 MPD (4S)-2-METHYL-2,4-PENTANEDIOL × 4 ARG ARGININE × 2 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.5% PEG-20K, 7-12% MPD, 0.5 mM BME
|
Resolution 2.50 Å R-free 0.250 |
| 8FC2 Crystal structure of the Thermus thermophilus 70S ribosome in complex with protein Y, hygromycin A, and azithromycin at 2.50A resolution Deposited 2022-12-01 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 50 PDB declaration: 53-meric |
Chain 2l
1–132（132 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 1007 HGR Hygromycin A × 1 ZIT AZITHROMYCIN × 1 MPD (4S)-2-METHYL-2,4-PENTANEDIOL × 3 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.5% PEG-20K, 7-12% MPD, 0.5 mM BME
|
Resolution 2.50 Å R-free 0.250 |
| 8FC3 Crystal structure of the Thermus thermophilus 70S ribosome in complex with protein Y, hygromycin A, and telithromycin at 2.60A resolution Deposited 2022-12-01 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 53-meric |
Chain 1l
1–132（132 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 1486 HGR Hygromycin A × 1 TEL TELITHROMYCIN × 1 MPD (4S)-2-METHYL-2,4-PENTANEDIOL × 4 ARG ARGININE × 2 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.5% PEG-20K, 7-12% MPD, 0.5 mM BME
|
Resolution 2.60 Å R-free 0.245 |
| 8FC3 Crystal structure of the Thermus thermophilus 70S ribosome in complex with protein Y, hygromycin A, and telithromycin at 2.60A resolution Deposited 2022-12-01 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 50 PDB declaration: 53-meric |
Chain 2l
1–132（132 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 1011 HGR Hygromycin A × 1 TEL TELITHROMYCIN × 1 MPD (4S)-2-METHYL-2,4-PENTANEDIOL × 3 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.5% PEG-20K, 7-12% MPD, 0.5 mM BME
|
Resolution 2.60 Å R-free 0.245 |
| 8FC4 Crystal structure of the A2058-N6-dimethylated Thermus thermophilus 70S ribosome in complex with protein Y, hygromycin A, and erythromycin at 2.45A resolution Deposited 2022-12-01 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 53-meric |
Chain 1l
1–132（132 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 1487 HGR Hygromycin A × 1 ERY ERYTHROMYCIN A × 1 MPD (4S)-2-METHYL-2,4-PENTANEDIOL × 4 ARG ARGININE × 2 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.5% PEG-20K, 7-12% MPD, 0.5 mM BME
|
Resolution 2.45 Å R-free 0.264 |
| 8FC4 Crystal structure of the A2058-N6-dimethylated Thermus thermophilus 70S ribosome in complex with protein Y, hygromycin A, and erythromycin at 2.45A resolution Deposited 2022-12-01 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 50 PDB declaration: 53-meric |
Chain 2l
1–132（132 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 928 HGR Hygromycin A × 1 ERY ERYTHROMYCIN A × 1 MPD (4S)-2-METHYL-2,4-PENTANEDIOL × 3 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.5% PEG-20K, 7-12% MPD, 0.5 mM BME
|
Resolution 2.45 Å R-free 0.264 |
| 8FC5 Crystal structure of the A2058-N6-dimethylated Thermus thermophilus 70S ribosome in complex with protein Y, hygromycin A, and azithromycin at 2.65A resolution Deposited 2022-12-01 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 53-meric |
Chain 1l
1–132（132 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 1500 HGR Hygromycin A × 1 ZIT AZITHROMYCIN × 1 MPD (4S)-2-METHYL-2,4-PENTANEDIOL × 4 ARG ARGININE × 2 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.5% PEG-20K, 7-12% MPD, 0.5 mM BME
|
Resolution 2.65 Å R-free 0.236 |
| 8FC5 Crystal structure of the A2058-N6-dimethylated Thermus thermophilus 70S ribosome in complex with protein Y, hygromycin A, and azithromycin at 2.65A resolution Deposited 2022-12-01 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 50 PDB declaration: 53-meric |
Chain 2l
1–132（132 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 966 HGR Hygromycin A × 1 ZIT AZITHROMYCIN × 1 MPD (4S)-2-METHYL-2,4-PENTANEDIOL × 3 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.5% PEG-20K, 7-12% MPD, 0.5 mM BME
|
Resolution 2.65 Å R-free 0.236 |
| 8FC6 Crystal structure of the A2058-N6-dimethylated Thermus thermophilus 70S ribosome in complex with protein Y, hygromycin A, and telithromycin at 2.35A resolution Deposited 2022-12-01 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 53-meric |
Chain 1l
1–132（132 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 1487 HGR Hygromycin A × 1 TEL TELITHROMYCIN × 1 MPD (4S)-2-METHYL-2,4-PENTANEDIOL × 4 ARG ARGININE × 2 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.5% PEG-20K, 7-12% MPD, 0.5 mM BME
|
Resolution 2.35 Å R-free 0.248 |
| 8FC6 Crystal structure of the A2058-N6-dimethylated Thermus thermophilus 70S ribosome in complex with protein Y, hygromycin A, and telithromycin at 2.35A resolution Deposited 2022-12-01 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 50 PDB declaration: 53-meric |
Chain 2l
1–132（132 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 1009 HGR Hygromycin A × 1 TEL TELITHROMYCIN × 1 MPD (4S)-2-METHYL-2,4-PENTANEDIOL × 3 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.5% PEG-20K, 7-12% MPD, 0.5 mM BME
|
Resolution 2.35 Å R-free 0.248 |
| 8FOM Crystal structure of tRNA^Lys(SUU) bound to UAA codon in the ribosomal P site Deposited 2023-01-02 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 55-meric |
Chain QL
1–131（131 aa）
|
Not recorded | MG MAGNESIUM ION × 401 SF4 IRON/SULFUR CLUSTER × 1 ZN ZINC ION × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；pH 7；293 K；0.1 M Tris-HOAc, pH 7.0, 0.2 M KSCN, 4-4.5% (v/v) PEG 20K, 4.5-5.5% (v/v) PEG 550MME, 10 mM Mg(OAc)2, 0.0028 mM Deoxy BigCHAP
|
Resolution 3.58 Å R-free 0.255 |
| 8FOM Crystal structure of tRNA^Lys(SUU) bound to UAA codon in the ribosomal P site Deposited 2023-01-02 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 49 PDB declaration: 56-meric |
Chain XL
1–131（131 aa）
|
Not recorded | MG MAGNESIUM ION × 441 SF4 IRON/SULFUR CLUSTER × 1 ZN ZINC ION × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；pH 7；293 K；0.1 M Tris-HOAc, pH 7.0, 0.2 M KSCN, 4-4.5% (v/v) PEG 20K, 4.5-5.5% (v/v) PEG 550MME, 10 mM Mg(OAc)2, 0.0028 mM Deoxy BigCHAP
|
Resolution 3.58 Å R-free 0.255 |
| 8FON Crystal structure of tRNA^Lys(SUU) bound to AUA codon in the ribosomal P site Deposited 2023-01-02 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 55-meric |
Chain QL
1–131（131 aa）
|
Not recorded | MG MAGNESIUM ION × 586 SF4 IRON/SULFUR CLUSTER × 1 ZN ZINC ION × 6 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；pH 7；293 K；0.1 M Tris-HOAc, pH 7.0, 0.2 M KSCN, 4-4.5% (v/v) PEG 20K, 4.5-5.5% (v/v) PEG 550MME, 10 mM Mg(OAc)2, 0.0028 mM Deoxy BigCHAP
|
Resolution 3.64 Å R-free 0.278 |
| 8FON Crystal structure of tRNA^Lys(SUU) bound to AUA codon in the ribosomal P site Deposited 2023-01-02 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 49 PDB declaration: 56-meric |
Chain XL
1–131（131 aa）
|
Not recorded | MG MAGNESIUM ION × 653 SF4 IRON/SULFUR CLUSTER × 1 ZN ZINC ION × 6 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；pH 7；293 K；0.1 M Tris-HOAc, pH 7.0, 0.2 M KSCN, 4-4.5% (v/v) PEG 20K, 4.5-5.5% (v/v) PEG 550MME, 10 mM Mg(OAc)2, 0.0028 mM Deoxy BigCHAP
|
Resolution 3.64 Å R-free 0.278 |
| 8G29 Crystal structure of the A2503-C2,C8-dimethylated Thermus thermophilus 70S ribosome in complex with mRNA, aminoacylated A-site Phe-tRNAphe, aminoacylated P-site fMet-tRNAmet, and deacylated E-site tRNAphe at 2.55A resolution Deposited 2023-02-03 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 56-meric |
Chain 1l
1–132（132 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 1559 K POTASSIUM ION × 1 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.5% PEG-20K, 7-12% MPD, 0.5 mM BME
|
Resolution 2.55 Å R-free 0.252 |
| 8G29 Crystal structure of the A2503-C2,C8-dimethylated Thermus thermophilus 70S ribosome in complex with mRNA, aminoacylated A-site Phe-tRNAphe, aminoacylated P-site fMet-tRNAmet, and deacylated E-site tRNAphe at 2.55A resolution Deposited 2023-02-03 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 49 PDB declaration: 56-meric |
Chain 2l
1–132（132 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 897 K POTASSIUM ION × 1 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.5% PEG-20K, 7-12% MPD, 0.5 mM BME
|
Resolution 2.55 Å R-free 0.252 |
| 8G2A Crystal structure of the A2503-C2,C8-dimethylated Thermus thermophilus 70S ribosome in complex with mRNA, aminoacylated A-site Phe-tRNAphe, peptidyl P-site fMTHSMRC-tRNAmet, and deacylated E-site tRNAphe at 2.45A resolution Deposited 2023-02-03 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 57-meric |
Chain 1l
1–132（132 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 1573 K POTASSIUM ION × 1 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.5% PEG-20K, 7-12% MPD, 0.5 mM BME
|
Resolution 2.45 Å R-free 0.249 |
| 8G2A Crystal structure of the A2503-C2,C8-dimethylated Thermus thermophilus 70S ribosome in complex with mRNA, aminoacylated A-site Phe-tRNAphe, peptidyl P-site fMTHSMRC-tRNAmet, and deacylated E-site tRNAphe at 2.45A resolution Deposited 2023-02-03 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 50 PDB declaration: 57-meric |
Chain 2l
1–132（132 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 1176 K POTASSIUM ION × 1 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.5% PEG-20K, 7-12% MPD, 0.5 mM BME
|
Resolution 2.45 Å R-free 0.249 |
| 8G2B Crystal structure of the A2503-C2,C8-dimethylated Thermus thermophilus 70S ribosome in complex with iboxamycin, mRNA, deacylated A- and E-site tRNAphe, and aminoacylated P-site fMet-tRNAmet at 2.55A resolution Deposited 2023-02-03 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 56-meric |
Chain 1l
1–132（132 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 1532 6IF methyl 7-chloro-6,7,8-trideoxy-6-{[(4S,5aS,8S,8aR)-4-(2-methylpropyl)octahydro-2H-oxepino[2,3-c]pyrrole-8-carbonyl]amino}-1-thio-L-threo-alpha-D-galacto-octopyranoside × 1 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 K POTASSIUM ION × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.5% PEG-20K, 7-12% MPD, 0.5 mM BME
|
Resolution 2.55 Å R-free 0.262 |
| 8G2B Crystal structure of the A2503-C2,C8-dimethylated Thermus thermophilus 70S ribosome in complex with iboxamycin, mRNA, deacylated A- and E-site tRNAphe, and aminoacylated P-site fMet-tRNAmet at 2.55A resolution Deposited 2023-02-03 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 49 PDB declaration: 56-meric |
Chain 2l
1–132（132 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 1164 6IF methyl 7-chloro-6,7,8-trideoxy-6-{[(4S,5aS,8S,8aR)-4-(2-methylpropyl)octahydro-2H-oxepino[2,3-c]pyrrole-8-carbonyl]amino}-1-thio-L-threo-alpha-D-galacto-octopyranoside × 1 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 K POTASSIUM ION × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.5% PEG-20K, 7-12% MPD, 0.5 mM BME
|
Resolution 2.55 Å R-free 0.262 |
| 8G2C Crystal structure of the A2503-C2,C8-dimethylated Thermus thermophilus 70S ribosome in complex with tylosin, mRNA, aminoacylated A-site Phe-tRNAphe, aminoacylated P-site fMet-tRNAmet, and deacylated E-site tRNAphe at 2.65A resolution Deposited 2023-02-03 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 56-meric |
Chain 1l
1–132（132 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 1533 K POTASSIUM ION × 1 TYK TYLOSIN × 1 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.5% PEG-20K, 7-12% MPD, 0.5 mM BME
|
Resolution 2.65 Å R-free 0.249 |
| 8G2C Crystal structure of the A2503-C2,C8-dimethylated Thermus thermophilus 70S ribosome in complex with tylosin, mRNA, aminoacylated A-site Phe-tRNAphe, aminoacylated P-site fMet-tRNAmet, and deacylated E-site tRNAphe at 2.65A resolution Deposited 2023-02-03 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 49 PDB declaration: 56-meric |
Chain 2l
1–132（132 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 1135 TYK TYLOSIN × 1 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.5% PEG-20K, 7-12% MPD, 0.5 mM BME
|
Resolution 2.65 Å R-free 0.249 |
| 8G2D Crystal structure of the wild-type Thermus thermophilus 70S ribosome in complex with tylosin, mRNA, deacylated A- and E-site tRNAphe, and deacylated P-site tRNAmet at 2.70A resolution Deposited 2023-02-03 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 56-meric |
Chain 1l
1–132（132 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 1554 TYK TYLOSIN × 1 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 K POTASSIUM ION × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.5% PEG-20K, 7-12% MPD, 0.5 mM BME
|
Resolution 2.70 Å R-free 0.277 |
| 8G2D Crystal structure of the wild-type Thermus thermophilus 70S ribosome in complex with tylosin, mRNA, deacylated A- and E-site tRNAphe, and deacylated P-site tRNAmet at 2.70A resolution Deposited 2023-02-03 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 49 PDB declaration: 56-meric |
Chain 2l
1–132（132 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 1235 TYK TYLOSIN × 1 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 K POTASSIUM ION × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.5% PEG-20K, 7-12% MPD, 0.5 mM BME
|
Resolution 2.70 Å R-free 0.277 |
| 8T8B Crystal structure of the Thermus thermophilus 70S ribosome in complex with protein Y, A-site aminoacyl-tRNA analog ACC-PMN, and P-site formyl-MAI-tripeptidyl-tRNA analog ACCA-IAMf at 2.65A resolution Deposited 2023-06-22 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 102 PDB declaration: 112-meric |
Chain 1l
1–132（132 aa）
Chain 2l
1–132（132 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 2428 MPD (4S)-2-METHYL-2,4-PENTANEDIOL × 6 ARG ARGININE × 2 ZN ZINC ION × 12 SF4 IRON/SULFUR CLUSTER × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.5% PEG-20K, 7-12% MPD, 0.5 mM BME
|
Resolution 2.65 Å R-free 0.257 |
| 8T8C Crystal structure of the Thermus thermophilus 70S ribosome in complex with protein Y, A-site aminoacyl-tRNA analog ACC-PMN, and P-site formyl-MFI-tripeptidyl-tRNA analog ACCA-IFMf at 2.60A resolution Deposited 2023-06-22 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 102 PDB declaration: 112-meric |
Chain 1l
1–132（132 aa）
Chain 2l
1–132（132 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 2490 ARG ARGININE × 2 MPD (4S)-2-METHYL-2,4-PENTANEDIOL × 7 ZN ZINC ION × 12 SF4 IRON/SULFUR CLUSTER × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.5% PEG-20K, 7-12% MPD, 0.5 mM BME
|
Resolution 2.60 Å R-free 0.269 |
| 8UD6 Crystal structure of the wild-type Thermus thermophilus 70S ribosome in complex with cresomycin, mRNA, deacylated A-site tRNAphe, aminoacylated P-site fMet-tRNAmet, and deacylated E-site tRNAphe at 2.70A resolution Deposited 2023-09-28 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 56-meric |
Chain 1l
1–132（132 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 1487 K POTASSIUM ION × 1 WC9 (4S,5aS,8S,8aR)-4-(2-methylpropyl)-N-[(1R,5Z,7R,8R,9R,10R,11S,12R)-10,11,12-trihydroxy-7-methyl-13-oxa-2-thiabicyclo[7.3.1]tridec-5-en-8-yl]octahydro-2H-oxepino[2,3-c]pyrrole-8-carboxamide (non-preferred name) × 1 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.5% PEG-20K, 7-12% MPD, 0.5 mM BME
|
Resolution 2.70 Å R-free 0.241 |
| 8UD6 Crystal structure of the wild-type Thermus thermophilus 70S ribosome in complex with cresomycin, mRNA, deacylated A-site tRNAphe, aminoacylated P-site fMet-tRNAmet, and deacylated E-site tRNAphe at 2.70A resolution Deposited 2023-09-28 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 49 PDB declaration: 56-meric |
Chain 2l
1–132（132 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 1084 K POTASSIUM ION × 1 WC9 (4S,5aS,8S,8aR)-4-(2-methylpropyl)-N-[(1R,5Z,7R,8R,9R,10R,11S,12R)-10,11,12-trihydroxy-7-methyl-13-oxa-2-thiabicyclo[7.3.1]tridec-5-en-8-yl]octahydro-2H-oxepino[2,3-c]pyrrole-8-carboxamide (non-preferred name) × 1 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.5% PEG-20K, 7-12% MPD, 0.5 mM BME
|
Resolution 2.70 Å R-free 0.241 |
| 8UD7 Crystal structure of the A2058-N6-dimethylated Thermus thermophilus 70S ribosome in complex with cresomycin, mRNA, deacylated A-site tRNAphe, aminoacylated P-site fMet-tRNAmet, and deacylated E-site tRNAphe at 2.70A resolution Deposited 2023-09-28 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 56-meric |
Chain 1l
1–132（132 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 1521 WC9 (4S,5aS,8S,8aR)-4-(2-methylpropyl)-N-[(1R,5Z,7R,8R,9R,10R,11S,12R)-10,11,12-trihydroxy-7-methyl-13-oxa-2-thiabicyclo[7.3.1]tridec-5-en-8-yl]octahydro-2H-oxepino[2,3-c]pyrrole-8-carboxamide (non-preferred name) × 1 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 K POTASSIUM ION × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.5% PEG-20K, 7-12% MPD, 0.5 mM BME
|
Resolution 2.55 Å R-free 0.242 |
| 8UD7 Crystal structure of the A2058-N6-dimethylated Thermus thermophilus 70S ribosome in complex with cresomycin, mRNA, deacylated A-site tRNAphe, aminoacylated P-site fMet-tRNAmet, and deacylated E-site tRNAphe at 2.70A resolution Deposited 2023-09-28 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 49 PDB declaration: 56-meric |
Chain 2l
1–132（132 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 1143 WC9 (4S,5aS,8S,8aR)-4-(2-methylpropyl)-N-[(1R,5Z,7R,8R,9R,10R,11S,12R)-10,11,12-trihydroxy-7-methyl-13-oxa-2-thiabicyclo[7.3.1]tridec-5-en-8-yl]octahydro-2H-oxepino[2,3-c]pyrrole-8-carboxamide (non-preferred name) × 1 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 K POTASSIUM ION × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.5% PEG-20K, 7-12% MPD, 0.5 mM BME
|
Resolution 2.55 Å R-free 0.242 |
| 8UD8 Crystal structure of the A2503-C2,C8-dimethylated Thermus thermophilus 70S ribosome in complex with cresomycin, mRNA, deacylated A-site tRNAphe, aminoacylated P-site fMet-tRNAmet, and deacylated E-site tRNAphe at 2.70A resolution Deposited 2023-09-28 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 56-meric |
Chain 1l
1–132（132 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 1546 K POTASSIUM ION × 1 WC9 (4S,5aS,8S,8aR)-4-(2-methylpropyl)-N-[(1R,5Z,7R,8R,9R,10R,11S,12R)-10,11,12-trihydroxy-7-methyl-13-oxa-2-thiabicyclo[7.3.1]tridec-5-en-8-yl]octahydro-2H-oxepino[2,3-c]pyrrole-8-carboxamide (non-preferred name) × 1 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.5% PEG-20K, 7-12% MPD, 0.5 mM BME
|
Resolution 2.60 Å R-free 0.261 |
| 8UD8 Crystal structure of the A2503-C2,C8-dimethylated Thermus thermophilus 70S ribosome in complex with cresomycin, mRNA, deacylated A-site tRNAphe, aminoacylated P-site fMet-tRNAmet, and deacylated E-site tRNAphe at 2.70A resolution Deposited 2023-09-28 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 49 PDB declaration: 56-meric |
Chain 2l
1–132（132 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 1199 K POTASSIUM ION × 1 WC9 (4S,5aS,8S,8aR)-4-(2-methylpropyl)-N-[(1R,5Z,7R,8R,9R,10R,11S,12R)-10,11,12-trihydroxy-7-methyl-13-oxa-2-thiabicyclo[7.3.1]tridec-5-en-8-yl]octahydro-2H-oxepino[2,3-c]pyrrole-8-carboxamide (non-preferred name) × 1 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.5% PEG-20K, 7-12% MPD, 0.5 mM BME
|
Resolution 2.60 Å R-free 0.261 |
| 8UVR Crystal structure of the wild-type Thermus thermophilus 70S ribosome in complex with spectinomycin, mRNA, deacylated A- and E-site tRNAphe, and deacylated P-site tRNAmet at 2.60A resolution Deposited 2023-11-03 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 56-meric |
Chain 1l
1–132（132 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 1576 K POTASSIUM ION × 1 ZN ZINC ION × 6 SCM SPECTINOMYCIN × 1 SF4 IRON/SULFUR CLUSTER × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.5% PEG-20K, 7-12% MPD, 0.5 mM BME
|
Resolution 2.60 Å R-free 0.265 |
| 8UVR Crystal structure of the wild-type Thermus thermophilus 70S ribosome in complex with spectinomycin, mRNA, deacylated A- and E-site tRNAphe, and deacylated P-site tRNAmet at 2.60A resolution Deposited 2023-11-03 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 49 PDB declaration: 56-meric |
Chain 2l
1–132（132 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 1250 K POTASSIUM ION × 1 ZN ZINC ION × 6 SCM SPECTINOMYCIN × 1 SF4 IRON/SULFUR CLUSTER × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.5% PEG-20K, 7-12% MPD, 0.5 mM BME
|
Resolution 2.60 Å R-free 0.265 |
| 8UVS Crystal structure of the wild-type Thermus thermophilus 70S ribosome in complex with spectinomycin derivative 2694, mRNA, deacylated A- and E-site tRNAphe, and deacylated P-site tRNAmet at 2.75A resolution Deposited 2023-11-03 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 56-meric |
Chain 1l
1–132（132 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 1611 ZN ZINC ION × 6 Y7K (2R,4R,4aS,5aR,6S,7S,8R,9S,9aR,10aS)-2-methyl-6,8-bis(methylamino)-4-({[2-(oxan-4-yl)ethyl]amino}methyl)octahydro-2H-pyrano[2,3-b][1,4]benzodioxine-4,4a,7,9(10aH)-tetrol × 1 SF4 IRON/SULFUR CLUSTER × 1 K POTASSIUM ION × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.5% PEG-20K, 7-12% MPD, 0.5 mM BME
|
Resolution 2.75 Å R-free 0.261 |
| 8UVS Crystal structure of the wild-type Thermus thermophilus 70S ribosome in complex with spectinomycin derivative 2694, mRNA, deacylated A- and E-site tRNAphe, and deacylated P-site tRNAmet at 2.75A resolution Deposited 2023-11-03 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 49 PDB declaration: 56-meric |
Chain 2l
1–132（132 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 1250 ZN ZINC ION × 6 Y7K (2R,4R,4aS,5aR,6S,7S,8R,9S,9aR,10aS)-2-methyl-6,8-bis(methylamino)-4-({[2-(oxan-4-yl)ethyl]amino}methyl)octahydro-2H-pyrano[2,3-b][1,4]benzodioxine-4,4a,7,9(10aH)-tetrol × 1 SF4 IRON/SULFUR CLUSTER × 1 K POTASSIUM ION × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.5% PEG-20K, 7-12% MPD, 0.5 mM BME
|
Resolution 2.75 Å R-free 0.261 |
| 8VTU Crystal structure of the wild-type Thermus thermophilus 70S ribosome in complex with macrolone MCX-66, mRNA, aminoacylated A-site Phe-tRNAphe, aminoacylated P-site fMet-tRNAmet, and deacylated E-site tRNAphe at 2.40A resolution Deposited 2024-01-27 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 56-meric |
Chain 1l
1–132（132 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 1568 K POTASSIUM ION × 1 A1AEZ 1-cyclopropyl-7-[(4-{[3-({(3aR,4R,7R,8S,9S,10R,11R,13R,14E,15S,15aR)-10-{[(2S,3R,4S,6R)-4-(dimethylamino)-3-hydroxy-6-methyloxan-2-yl]oxy}-4-ethyl-11-methoxy-3a,7,9,11,13,15-hexamethyl-14-[({3-[5-(methylcarbamoyl)pyridin-3-yl]prop-2-yn-1-yl}oxy)imino]-2,6-dioxododecahydro-2H,4H-[1,3]dioxolo[4,5-c]oxacyclotetradecin-8-yl}oxy)-3-oxopropyl]amino}butyl)amino]-6-fluoro-4-oxo-1,4-dihydroquinoline-3-carboxylic acid (non-preferred name) × 1 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 PHE PHENYLALANINE × 1 FME N-FORMYLMETHIONINE × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.5% PEG-20K, 7-12% MPD, 0.5 mM BME
|
Resolution 2.40 Å R-free 0.260 |
| 8VTU Crystal structure of the wild-type Thermus thermophilus 70S ribosome in complex with macrolone MCX-66, mRNA, aminoacylated A-site Phe-tRNAphe, aminoacylated P-site fMet-tRNAmet, and deacylated E-site tRNAphe at 2.40A resolution Deposited 2024-01-27 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 49 PDB declaration: 56-meric |
Chain 2l
1–132（132 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 1187 K POTASSIUM ION × 1 A1AEZ 1-cyclopropyl-7-[(4-{[3-({(3aR,4R,7R,8S,9S,10R,11R,13R,14E,15S,15aR)-10-{[(2S,3R,4S,6R)-4-(dimethylamino)-3-hydroxy-6-methyloxan-2-yl]oxy}-4-ethyl-11-methoxy-3a,7,9,11,13,15-hexamethyl-14-[({3-[5-(methylcarbamoyl)pyridin-3-yl]prop-2-yn-1-yl}oxy)imino]-2,6-dioxododecahydro-2H,4H-[1,3]dioxolo[4,5-c]oxacyclotetradecin-8-yl}oxy)-3-oxopropyl]amino}butyl)amino]-6-fluoro-4-oxo-1,4-dihydroquinoline-3-carboxylic acid (non-preferred name) × 1 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 PHE PHENYLALANINE × 1 FME N-FORMYLMETHIONINE × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.5% PEG-20K, 7-12% MPD, 0.5 mM BME
|
Resolution 2.40 Å R-free 0.260 |
| 8VTV Crystal structure of the wild-type Thermus thermophilus 70S ribosome in complex with macrolone MCX-91, mRNA, aminoacylated A-site Phe-tRNAphe, aminoacylated P-site fMet-tRNAmet, and deacylated E-site tRNAphe at 2.55A resolution Deposited 2024-01-27 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 56-meric |
Chain 1l
1–132（132 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 1554 K POTASSIUM ION × 1 A1AE0 1-cyclopropyl-7-{7-[({[(3aR,4R,7R,8S,9S,10R,11R,13R,14E,15S,15aR)-10-{[(2S,3R,4S,6R)-4-(dimethylamino)-3-hydroxy-6-methyloxan-2-yl]oxy}-4-ethyl-11-methoxy-14-(methoxyimino)-3a,7,9,11,13,15-hexamethyl-2,6-dioxododecahydro-2H,4H-[1,3]dioxolo[4,5-c]oxacyclotetradecin-8-yl]oxy}carbonyl)amino]hept-1-yn-1-yl}-4-oxo-1,4-dihydroquinoline-3-carboxylic acid (non-preferred name) × 1 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 PHE PHENYLALANINE × 1 FME N-FORMYLMETHIONINE × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.5% PEG-20K, 7-12% MPD, 0.5 mM BME
|
Resolution 2.55 Å R-free 0.262 |
| 8VTV Crystal structure of the wild-type Thermus thermophilus 70S ribosome in complex with macrolone MCX-91, mRNA, aminoacylated A-site Phe-tRNAphe, aminoacylated P-site fMet-tRNAmet, and deacylated E-site tRNAphe at 2.55A resolution Deposited 2024-01-27 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 49 PDB declaration: 56-meric |
Chain 2l
1–132（132 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 1218 K POTASSIUM ION × 1 A1AE0 1-cyclopropyl-7-{7-[({[(3aR,4R,7R,8S,9S,10R,11R,13R,14E,15S,15aR)-10-{[(2S,3R,4S,6R)-4-(dimethylamino)-3-hydroxy-6-methyloxan-2-yl]oxy}-4-ethyl-11-methoxy-14-(methoxyimino)-3a,7,9,11,13,15-hexamethyl-2,6-dioxododecahydro-2H,4H-[1,3]dioxolo[4,5-c]oxacyclotetradecin-8-yl]oxy}carbonyl)amino]hept-1-yn-1-yl}-4-oxo-1,4-dihydroquinoline-3-carboxylic acid (non-preferred name) × 1 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 PHE PHENYLALANINE × 1 FME N-FORMYLMETHIONINE × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.5% PEG-20K, 7-12% MPD, 0.5 mM BME
|
Resolution 2.55 Å R-free 0.262 |
| 8VTW Crystal structure of the wild-type Thermus thermophilus 70S ribosome in complex with macrolone MCX-128 and protein Y at 2.35A resolution Deposited 2024-01-27 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 53-meric |
Chain 1l
1–132（132 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 1450 A1AE1 1-cyclopropyl-7-(4-{4-[({[(3aR,4R,7R,8S,9S,10R,11R,13R,14E,15S,15aR)-10-{[(2S,3R,4S,6R)-4-(dimethylamino)-3-hydroxy-6-methyloxan-2-yl]oxy}-4-ethyl-11-methoxy-14-(methoxyimino)-3a,7,9,11,13,15-hexamethyl-2,6-dioxododecahydro-2H,4H-[1,3]dioxolo[4,5-c]oxacyclotetradecin-8-yl]oxy}carbonyl)amino]butyl}piperazin-1-yl)-6-fluoro-4-oxo-1,4-dihydroquinoline-3-carboxylic acid (non-preferred name) × 1 ARG ARGININE × 2 MPD (4S)-2-METHYL-2,4-PENTANEDIOL × 4 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.5% PEG-20K, 7-12% MPD, 0.5 mM BME
|
Resolution 2.35 Å R-free 0.243 |
| 8VTW Crystal structure of the wild-type Thermus thermophilus 70S ribosome in complex with macrolone MCX-128 and protein Y at 2.35A resolution Deposited 2024-01-27 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 50 PDB declaration: 53-meric |
Chain 2l
1–132（132 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 984 A1AE1 1-cyclopropyl-7-(4-{4-[({[(3aR,4R,7R,8S,9S,10R,11R,13R,14E,15S,15aR)-10-{[(2S,3R,4S,6R)-4-(dimethylamino)-3-hydroxy-6-methyloxan-2-yl]oxy}-4-ethyl-11-methoxy-14-(methoxyimino)-3a,7,9,11,13,15-hexamethyl-2,6-dioxododecahydro-2H,4H-[1,3]dioxolo[4,5-c]oxacyclotetradecin-8-yl]oxy}carbonyl)amino]butyl}piperazin-1-yl)-6-fluoro-4-oxo-1,4-dihydroquinoline-3-carboxylic acid (non-preferred name) × 1 MPD (4S)-2-METHYL-2,4-PENTANEDIOL × 2 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.5% PEG-20K, 7-12% MPD, 0.5 mM BME
|
Resolution 2.35 Å R-free 0.243 |
| 8VTX Crystal structure of the A2058-N6-dimethylated Thermus thermophilus 70S ribosome in complex with macrolone MCX-128, mRNA, aminoacylated A-site Phe-tRNAphe, aminoacylated P-site fMet-tRNAmet, and deacylated E-site tRNAphe at 2.40A resolution Deposited 2024-01-27 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 56-meric |
Chain 1l
1–132（132 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 1548 K POTASSIUM ION × 1 A1AE1 1-cyclopropyl-7-(4-{4-[({[(3aR,4R,7R,8S,9S,10R,11R,13R,14E,15S,15aR)-10-{[(2S,3R,4S,6R)-4-(dimethylamino)-3-hydroxy-6-methyloxan-2-yl]oxy}-4-ethyl-11-methoxy-14-(methoxyimino)-3a,7,9,11,13,15-hexamethyl-2,6-dioxododecahydro-2H,4H-[1,3]dioxolo[4,5-c]oxacyclotetradecin-8-yl]oxy}carbonyl)amino]butyl}piperazin-1-yl)-6-fluoro-4-oxo-1,4-dihydroquinoline-3-carboxylic acid (non-preferred name) × 1 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 PHE PHENYLALANINE × 1 FME N-FORMYLMETHIONINE × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.5% PEG-20K, 7-12% MPD, 0.5 mM BME
|
Resolution 2.40 Å R-free 0.260 |
| 8VTX Crystal structure of the A2058-N6-dimethylated Thermus thermophilus 70S ribosome in complex with macrolone MCX-128, mRNA, aminoacylated A-site Phe-tRNAphe, aminoacylated P-site fMet-tRNAmet, and deacylated E-site tRNAphe at 2.40A resolution Deposited 2024-01-27 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 49 PDB declaration: 56-meric |
Chain 2l
1–132（132 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 1185 K POTASSIUM ION × 1 A1AE1 1-cyclopropyl-7-(4-{4-[({[(3aR,4R,7R,8S,9S,10R,11R,13R,14E,15S,15aR)-10-{[(2S,3R,4S,6R)-4-(dimethylamino)-3-hydroxy-6-methyloxan-2-yl]oxy}-4-ethyl-11-methoxy-14-(methoxyimino)-3a,7,9,11,13,15-hexamethyl-2,6-dioxododecahydro-2H,4H-[1,3]dioxolo[4,5-c]oxacyclotetradecin-8-yl]oxy}carbonyl)amino]butyl}piperazin-1-yl)-6-fluoro-4-oxo-1,4-dihydroquinoline-3-carboxylic acid (non-preferred name) × 1 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 PHE PHENYLALANINE × 1 FME N-FORMYLMETHIONINE × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.5% PEG-20K, 7-12% MPD, 0.5 mM BME
|
Resolution 2.40 Å R-free 0.260 |
| 8VTY Crystal structure of the wild-type Thermus thermophilus 70S ribosome in complex with ciprofloxacin and protein Y at 2.60A resolution Deposited 2024-01-27 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 53-meric |
Chain 1l
1–132（132 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 1526 CPF 1-CYCLOPROPYL-6-FLUORO-4-OXO-7-PIPERAZIN-1-YL-1,4-DIHYDROQUINOLINE-3-CARBOXYLIC ACID × 1 MPD (4S)-2-METHYL-2,4-PENTANEDIOL × 4 ARG ARGININE × 2 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.5% PEG-20K, 7-12% MPD, 0.5 mM BME
|
Resolution 2.60 Å R-free 0.241 |
| 8VTY Crystal structure of the wild-type Thermus thermophilus 70S ribosome in complex with ciprofloxacin and protein Y at 2.60A resolution Deposited 2024-01-27 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 50 PDB declaration: 53-meric |
Chain 2l
1–132（132 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 1021 CPF 1-CYCLOPROPYL-6-FLUORO-4-OXO-7-PIPERAZIN-1-YL-1,4-DIHYDROQUINOLINE-3-CARBOXYLIC ACID × 1 MPD (4S)-2-METHYL-2,4-PENTANEDIOL × 3 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.5% PEG-20K, 7-12% MPD, 0.5 mM BME
|
Resolution 2.60 Å R-free 0.241 |
| 8WRC Time-Resolved Ambient Temperature Kineto-Crystallographic Structure of Initiation Factor in Complex with Ribosome Deposited 2023-10-13 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Insufficient information Heteromer；Protein × 21 PDB declaration: 22-meric |
Chain L
89–132（44 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 254 ZN ZINC ION × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, HANGING DROP；pH 6.5；277 K；MPD
|
Resolution 3.59 Å R-free 0.282 |
| 9B00 Crystal structure of the wild-type Thermus thermophilus 70S ribosome in complex with berberine analog of chloramphenicol CAM-BER, mRNA, deacylated A- and E-site tRNAphe, and deacylated P-site tRNAmet at 2.80A resolution Deposited 2024-03-11 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 56-meric |
Chain 1l
1–132（132 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 1524 K POTASSIUM ION × 1 A1AIX 13-(2-{[(1R,2R)-1,3-dihydroxy-1-(4-nitrophenyl)propan-2-yl]amino}-2-oxoethyl)-9,10-dimethoxy-5,6-dihydro-2H-[1,3]dioxolo[4,5-g]isoquinolino[3,2-a]isoquinolin-7-ium × 1 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.5% PEG-20K, 7-12% MPD, 0.5 mM BME
|
Resolution 2.80 Å R-free 0.284 |
| 9B00 Crystal structure of the wild-type Thermus thermophilus 70S ribosome in complex with berberine analog of chloramphenicol CAM-BER, mRNA, deacylated A- and E-site tRNAphe, and deacylated P-site tRNAmet at 2.80A resolution Deposited 2024-03-11 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 49 PDB declaration: 56-meric |
Chain 2l
1–132（132 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 1199 K POTASSIUM ION × 1 A1AIX 13-(2-{[(1R,2R)-1,3-dihydroxy-1-(4-nitrophenyl)propan-2-yl]amino}-2-oxoethyl)-9,10-dimethoxy-5,6-dihydro-2H-[1,3]dioxolo[4,5-g]isoquinolino[3,2-a]isoquinolin-7-ium × 1 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.5% PEG-20K, 7-12% MPD, 0.5 mM BME
|
Resolution 2.80 Å R-free 0.284 |
| 9D0G Crystal structure of the wild-type Thermus thermophilus 70S ribosome in complex with O-cresomycin, mRNA, deacylated A-site tRNAphe, aminoacylated P-site fMet-tRNAmet, and deacylated E-site tRNAphe at 2.50A resolution Deposited 2024-08-07 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 56-meric |
Chain 1l
1–132（132 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 1553 K POTASSIUM ION × 1 A1A1F (4S,5aS,8S,8aR)-4-(2-methylpropyl)-N-[(1S,5Z,7R,8R,9R,10R,11S,12R)-10,11,12-trihydroxy-7-methyl-2,13-dioxabicyclo[7.3.1]tridec-5-en-8-yl]octahydro-2H-oxepino[2,3-c]pyrrole-8-carboxamide (non-preferred name) × 1 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.5% PEG-20K, 7-12% MPD, 0.5 mM BME
|
Resolution 2.50 Å R-free 0.265 |
| 9D0G Crystal structure of the wild-type Thermus thermophilus 70S ribosome in complex with O-cresomycin, mRNA, deacylated A-site tRNAphe, aminoacylated P-site fMet-tRNAmet, and deacylated E-site tRNAphe at 2.50A resolution Deposited 2024-08-07 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 49 PDB declaration: 56-meric |
Chain 2l
1–132（132 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 1239 K POTASSIUM ION × 1 A1A1F (4S,5aS,8S,8aR)-4-(2-methylpropyl)-N-[(1S,5Z,7R,8R,9R,10R,11S,12R)-10,11,12-trihydroxy-7-methyl-2,13-dioxabicyclo[7.3.1]tridec-5-en-8-yl]octahydro-2H-oxepino[2,3-c]pyrrole-8-carboxamide (non-preferred name) × 1 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.5% PEG-20K, 7-12% MPD, 0.5 mM BME
|
Resolution 2.50 Å R-free 0.265 |
| 9D0H Crystal structure of the wild-type Thermus thermophilus 70S ribosome in complex with C-cresomycin, mRNA, deacylated A-site tRNAphe, aminoacylated P-site fMet-tRNAmet, and deacylated E-site tRNAphe at 2.50A resolution Deposited 2024-08-07 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 56-meric |
Chain 1l
1–132（132 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 1549 K POTASSIUM ION × 1 A1A1J (4S,5aS,8S,8aR)-4-(2-methylpropyl)-N-[(1R,2R,3R,4Z,9R,10R,11R,12R)-10,11,12-trihydroxy-3-methyl-13-oxabicyclo[7.3.1]tridec-4-en-2-yl]octahydro-2H-oxepino[2,3-c]pyrrole-8-carboxamide × 1 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.5% PEG-20K, 7-12% MPD, 0.5 mM BME
|
Resolution 2.50 Å R-free 0.266 |
| 9D0H Crystal structure of the wild-type Thermus thermophilus 70S ribosome in complex with C-cresomycin, mRNA, deacylated A-site tRNAphe, aminoacylated P-site fMet-tRNAmet, and deacylated E-site tRNAphe at 2.50A resolution Deposited 2024-08-07 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 49 PDB declaration: 56-meric |
Chain 2l
1–132（132 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 1241 K POTASSIUM ION × 1 A1A1J (4S,5aS,8S,8aR)-4-(2-methylpropyl)-N-[(1R,2R,3R,4Z,9R,10R,11R,12R)-10,11,12-trihydroxy-3-methyl-13-oxabicyclo[7.3.1]tridec-4-en-2-yl]octahydro-2H-oxepino[2,3-c]pyrrole-8-carboxamide × 1 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.5% PEG-20K, 7-12% MPD, 0.5 mM BME
|
Resolution 2.50 Å R-free 0.266 |
| 9D0I Crystal structure of the wild-type Thermus thermophilus 70S ribosome in complex with Se-cresomycin, mRNA, deacylated A-site tRNAphe, aminoacylated P-site fMet-tRNAmet, and deacylated E-site tRNAphe at 2.45A resolution Deposited 2024-08-07 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 56-meric |
Chain 1l
1–132（132 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 1551 K POTASSIUM ION × 1 A1A1K (4S,5aS,8S,8aR)-4-(2-methylpropyl)-N-[(1R,5Z,7R,8R,9R,10R,11S,12R)-10,11,12-trihydroxy-7-methyl-13-oxa-2-selenabicyclo[7.3.1]tridec-5-en-8-yl]octahydro-2H-oxepino[2,3-c]pyrrole-8-carboxamide (non-preferred name) × 1 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.5% PEG-20K, 7-12% MPD, 0.5 mM BME
|
Resolution 2.45 Å R-free 0.265 |
| 9D0I Crystal structure of the wild-type Thermus thermophilus 70S ribosome in complex with Se-cresomycin, mRNA, deacylated A-site tRNAphe, aminoacylated P-site fMet-tRNAmet, and deacylated E-site tRNAphe at 2.45A resolution Deposited 2024-08-07 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 49 PDB declaration: 56-meric |
Chain 2l
1–132（132 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 1244 K POTASSIUM ION × 1 A1A1K (4S,5aS,8S,8aR)-4-(2-methylpropyl)-N-[(1R,5Z,7R,8R,9R,10R,11S,12R)-10,11,12-trihydroxy-7-methyl-13-oxa-2-selenabicyclo[7.3.1]tridec-5-en-8-yl]octahydro-2H-oxepino[2,3-c]pyrrole-8-carboxamide (non-preferred name) × 1 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.5% PEG-20K, 7-12% MPD, 0.5 mM BME
|
Resolution 2.45 Å R-free 0.265 |
| 9D0J Crystal structure of the wild-type Thermus thermophilus 70S ribosome in complex with BT-33, mRNA, deacylated A-site tRNAphe, aminoacylated P-site fMet-tRNAmet, and deacylated E-site tRNAphe at 2.50A resolution Deposited 2024-08-07 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 56-meric |
Chain 1l
1–132（132 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 1475 A1A1L (4S,5aS,8S,8aR)-N-[(1R,4R,6Z,8R,9R,10R,11R,12S,13R)-4-fluoro-11,12,13-trihydroxy-8-methyl-14-oxa-2-thiabicyclo[8.3.1]tetradec-6-en-9-yl]-4-(2-methylpropyl)octahydro-2H-oxepino[2,3-c]pyrrole-8-carboxamide (non-preferred name) × 1 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.5% PEG-20K, 7-12% MPD, 0.5 mM BME
|
Resolution 2.50 Å R-free 0.260 |
| 9D0J Crystal structure of the wild-type Thermus thermophilus 70S ribosome in complex with BT-33, mRNA, deacylated A-site tRNAphe, aminoacylated P-site fMet-tRNAmet, and deacylated E-site tRNAphe at 2.50A resolution Deposited 2024-08-07 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 49 PDB declaration: 56-meric |
Chain 2l
1–132（132 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 1089 A1A1L (4S,5aS,8S,8aR)-N-[(1R,4R,6Z,8R,9R,10R,11R,12S,13R)-4-fluoro-11,12,13-trihydroxy-8-methyl-14-oxa-2-thiabicyclo[8.3.1]tetradec-6-en-9-yl]-4-(2-methylpropyl)octahydro-2H-oxepino[2,3-c]pyrrole-8-carboxamide (non-preferred name) × 1 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 K POTASSIUM ION × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.5% PEG-20K, 7-12% MPD, 0.5 mM BME
|
Resolution 2.50 Å R-free 0.260 |
| 9D7R Crystal structure of the wild-type Thermus thermophilus 70S ribosome in complex with Fva1 antimicrobial peptide, mRNA, A-site release factor 1, and deacylated P-site and E-site tRNAphe at 2.70A resolution Deposited 2024-08-17 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 51 PDB declaration: 57-meric |
Chain 1l
1–132（132 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 1123 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.5% PEG-20K, 7-12% MPD, 0.5 mM BME
|
Resolution 2.70 Å R-free 0.275 |
| 9D7R Crystal structure of the wild-type Thermus thermophilus 70S ribosome in complex with Fva1 antimicrobial peptide, mRNA, A-site release factor 1, and deacylated P-site and E-site tRNAphe at 2.70A resolution Deposited 2024-08-17 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 51 PDB declaration: 57-meric |
Chain 2l
1–132（132 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 885 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.5% PEG-20K, 7-12% MPD, 0.5 mM BME
|
Resolution 2.70 Å R-free 0.275 |
| 9D7S Crystal structure of the wild-type Thermus thermophilus 70S ribosome in complex with Api antimicrobial peptide, mRNA, A-site release factor 1, and deacylated P-site and E-site tRNAphe at 2.85A resolution Deposited 2024-08-17 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 51 PDB declaration: 57-meric |
Chain 1l
1–132（132 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 1101 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.5% PEG-20K, 7-12% MPD, 0.5 mM BME
|
Resolution 2.85 Å R-free 0.268 |
| 9D7S Crystal structure of the wild-type Thermus thermophilus 70S ribosome in complex with Api antimicrobial peptide, mRNA, A-site release factor 1, and deacylated P-site and E-site tRNAphe at 2.85A resolution Deposited 2024-08-17 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 51 PDB declaration: 57-meric |
Chain 2l
1–132（132 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 891 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.5% PEG-20K, 7-12% MPD, 0.5 mM BME
|
Resolution 2.85 Å R-free 0.268 |
| 9D7T Crystal structure of the wild-type Thermus thermophilus 70S ribosome in complex with Api137 antimicrobial peptide, mRNA, A-site release factor 1, and deacylated P-site and E-site tRNAphe at 2.70A resolution Deposited 2024-08-17 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 51 PDB declaration: 57-meric |
Chain 1l
1–132（132 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 1127 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.5% PEG-20K, 7-12% MPD, 0.5 mM BME
|
Resolution 2.70 Å R-free 0.278 |
| 9D7T Crystal structure of the wild-type Thermus thermophilus 70S ribosome in complex with Api137 antimicrobial peptide, mRNA, A-site release factor 1, and deacylated P-site and E-site tRNAphe at 2.70A resolution Deposited 2024-08-17 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 51 PDB declaration: 57-meric |
Chain 2l
1–132（132 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 915 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.5% PEG-20K, 7-12% MPD, 0.5 mM BME
|
Resolution 2.70 Å R-free 0.278 |
| 9DFC Crystal structure of the wild-type Thermus thermophilus 70S ribosome in complex with lasso peptide lariocidin, mRNA, aminoacylated A-site Phe-tRNAphe, aminoacylated P-site fMet-tRNAmet, and deacylated E-site tRNAphe at 2.50A resolution Deposited 2024-08-29 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 57-meric |
Chain 1l
1–132（132 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 1554 K POTASSIUM ION × 1 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.5% PEG-20K, 7-12% MPD, 0.5 mM BME
|
Resolution 2.50 Å R-free 0.265 |
| 9DFC Crystal structure of the wild-type Thermus thermophilus 70S ribosome in complex with lasso peptide lariocidin, mRNA, aminoacylated A-site Phe-tRNAphe, aminoacylated P-site fMet-tRNAmet, and deacylated E-site tRNAphe at 2.50A resolution Deposited 2024-08-29 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 50 PDB declaration: 57-meric |
Chain 2l
1–132（132 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 1250 K POTASSIUM ION × 1 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.5% PEG-20K, 7-12% MPD, 0.5 mM BME
|
Resolution 2.50 Å R-free 0.265 |
| 9DFD Crystal structure of the wild-type Thermus thermophilus 70S ribosome in complex with lasso peptide lariocidin B, mRNA, aminoacylated A-site Phe-tRNAphe, aminoacylated P-site fMet-tRNAmet, and deacylated E-site tRNAphe at 2.60A resolution Deposited 2024-08-29 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 57-meric |
Chain 1l
1–132（132 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 1554 K POTASSIUM ION × 1 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.5% PEG-20K, 7-12% MPD, 0.5 mM BME
|
Resolution 2.60 Å R-free 0.266 |
| 9DFD Crystal structure of the wild-type Thermus thermophilus 70S ribosome in complex with lasso peptide lariocidin B, mRNA, aminoacylated A-site Phe-tRNAphe, aminoacylated P-site fMet-tRNAmet, and deacylated E-site tRNAphe at 2.60A resolution Deposited 2024-08-29 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 50 PDB declaration: 57-meric |
Chain 2l
1–132（132 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 1250 K POTASSIUM ION × 1 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.5% PEG-20K, 7-12% MPD, 0.5 mM BME
|
Resolution 2.60 Å R-free 0.266 |
| 9DFE Crystal structure of the wild-type Thermus thermophilus 70S ribosome in complex with lasso peptide lariocidin and protein Y at 2.60A resolution Deposited 2024-08-29 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 51 PDB declaration: 54-meric |
Chain 1l
1–132（132 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 1496 ARG ARGININE × 1 MPD (4S)-2-METHYL-2,4-PENTANEDIOL × 2 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.5% PEG-20K, 7-12% MPD, 0.5 mM BME
|
Resolution 2.60 Å R-free 0.252 |
| 9DFE Crystal structure of the wild-type Thermus thermophilus 70S ribosome in complex with lasso peptide lariocidin and protein Y at 2.60A resolution Deposited 2024-08-29 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 51 PDB declaration: 54-meric |
Chain 2l
1–132（132 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 1024 MPD (4S)-2-METHYL-2,4-PENTANEDIOL × 1 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.5% PEG-20K, 7-12% MPD, 0.5 mM BME
|
Resolution 2.60 Å R-free 0.252 |
| 9MTP Crystal structure of the wild-type Thermus thermophilus 70S ribosome in complex with mRNA, A-site Q230-N5-methylated Release Factor 1, and P-site fMEAAAKC-peptidyl-tRNAcys at 2.40A resolution Deposited 2025-01-12 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 51 PDB declaration: 56-meric |
Chain 1l
1–132（132 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 1538 K POTASSIUM ION × 1 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.5% PEG-20K, 7-12% MPD, 0.5 mM BME
|
Resolution 2.40 Å R-free 0.263 |
| 9MTP Crystal structure of the wild-type Thermus thermophilus 70S ribosome in complex with mRNA, A-site Q230-N5-methylated Release Factor 1, and P-site fMEAAAKC-peptidyl-tRNAcys at 2.40A resolution Deposited 2025-01-12 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 51 PDB declaration: 56-meric |
Chain 2l
1–132（132 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 1138 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.5% PEG-20K, 7-12% MPD, 0.5 mM BME
|
Resolution 2.40 Å R-free 0.263 |
| 9MTQ Crystal structure of the wild-type Thermus thermophilus 70S ribosome in complex with mRNA, A-site GGD-mutant Release Factor 1, and P-site fMEAAAKC-peptidyl-tRNAcys at 2.55A resolution Deposited 2025-01-12 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 51 PDB declaration: 56-meric |
Chain 1l
1–132（132 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 1527 K POTASSIUM ION × 1 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.5% PEG-20K, 7-12% MPD, 0.5 mM BME
|
Resolution 2.55 Å R-free 0.257 |
| 9MTQ Crystal structure of the wild-type Thermus thermophilus 70S ribosome in complex with mRNA, A-site GGD-mutant Release Factor 1, and P-site fMEAAAKC-peptidyl-tRNAcys at 2.55A resolution Deposited 2025-01-12 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 51 PDB declaration: 56-meric |
Chain 2l
1–132（132 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 1151 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.5% PEG-20K, 7-12% MPD, 0.5 mM BME
|
Resolution 2.55 Å R-free 0.257 |
| 9MTR Crystal structure of the wild-type Thermus thermophilus 70S ribosome in complex with mRNA, A-site GGS-mutant Release Factor 1, and P-site fMEAAAKC-peptidyl-tRNAcys at 2.80A resolution Deposited 2025-01-12 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 51 PDB declaration: 56-meric |
Chain 1l
1–132（132 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 1531 K POTASSIUM ION × 1 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.5% PEG-20K, 7-12% MPD, 0.5 mM BME
|
Resolution 2.80 Å R-free 0.264 |
| 9MTR Crystal structure of the wild-type Thermus thermophilus 70S ribosome in complex with mRNA, A-site GGS-mutant Release Factor 1, and P-site fMEAAAKC-peptidyl-tRNAcys at 2.80A resolution Deposited 2025-01-12 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 51 PDB declaration: 56-meric |
Chain 2l
1–132（132 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 1118 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.5% PEG-20K, 7-12% MPD, 0.5 mM BME
|
Resolution 2.80 Å R-free 0.264 |
| 9MTS Crystal structure of the wild-type Thermus thermophilus 70S ribosome in complex with mRNA, A-site Q230-unmodified Release Factor 1, and P-site fMEAAAKC-peptidyl-tRNAcys at 2.70A resolution Deposited 2025-01-12 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 51 PDB declaration: 56-meric |
Chain 1l
1–132（132 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 1465 K POTASSIUM ION × 1 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.5% PEG-20K, 7-12% MPD, 0.5 mM BME
|
Resolution 2.70 Å R-free 0.262 |
| 9MTS Crystal structure of the wild-type Thermus thermophilus 70S ribosome in complex with mRNA, A-site Q230-unmodified Release Factor 1, and P-site fMEAAAKC-peptidyl-tRNAcys at 2.70A resolution Deposited 2025-01-12 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 51 PDB declaration: 56-meric |
Chain 2l
1–132（132 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 1124 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.5% PEG-20K, 7-12% MPD, 0.5 mM BME
|
Resolution 2.70 Å R-free 0.262 |
| 9MTT Crystal structure of the wild-type Thermus thermophilus 70S ribosome in complex with mRNA, A-site Q230-N5-methylated Release Factor 1, and P-site deacylated-tRNAcys at 2.60A resolution Deposited 2025-01-12 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 55-meric |
Chain 1l
1–132（132 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 1539 K POTASSIUM ION × 1 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.5% PEG-20K, 7-12% MPD, 0.5 mM BME
|
Resolution 2.60 Å R-free 0.271 |
| 9MTT Crystal structure of the wild-type Thermus thermophilus 70S ribosome in complex with mRNA, A-site Q230-N5-methylated Release Factor 1, and P-site deacylated-tRNAcys at 2.60A resolution Deposited 2025-01-12 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 50 PDB declaration: 55-meric |
Chain 2l
1–132（132 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 1148 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.5% PEG-20K, 7-12% MPD, 0.5 mM BME
|
Resolution 2.60 Å R-free 0.271 |
| 9NO7 Cryo-EM structure of the wild-type Thermus thermophilus 70S ribosome in complex with mRNA, A-site Q230-N5-methylated Release Factor 1, and P-site 2'-deoxy-A76-fMEAAAKC-peptidyl-tRNAcys at 2.13A resolution Deposited 2025-03-08 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 51 PDB declaration: 56-meric |
Chain l
1–132（132 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 1685 K POTASSIUM ION × 52 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.6；5 mM HEPES-KOH, 50 mM KCl, 10 mM NH4Cl, 10 mM Mg(CH3COO)2
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.13 Å |
| 9O3H Crystal structure of the wild-type Thermus thermophilus 70S ribosome in complex with macrolide erythromycin, mRNA, aminoacylated A-site Lys-tRNAlys, P-site fMRC-peptidyl-tRNAmet, and deacylated E-site tRNAlys at 2.65A resolution Deposited 2025-04-07 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 57-meric |
Chain 1l
1–132（132 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 1542 K POTASSIUM ION × 1 ERY ERYTHROMYCIN A × 1 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.5% PEG-20K, 7-12% MPD, 0.5 mM BME
|
Resolution 2.65 Å R-free 0.276 |
| 9O3H Crystal structure of the wild-type Thermus thermophilus 70S ribosome in complex with macrolide erythromycin, mRNA, aminoacylated A-site Lys-tRNAlys, P-site fMRC-peptidyl-tRNAmet, and deacylated E-site tRNAlys at 2.65A resolution Deposited 2025-04-07 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 50 PDB declaration: 57-meric |
Chain 2l
1–132（132 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 1207 K POTASSIUM ION × 1 ERY ERYTHROMYCIN A × 1 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.5% PEG-20K, 7-12% MPD, 0.5 mM BME
|
Resolution 2.65 Å R-free 0.276 |
| 9O3I Crystal structure of the wild-type Thermus thermophilus 70S ribosome in complex with ketolide telithromycin, mRNA, aminoacylated A-site Lys-tRNAlys, P-site fMRC-peptidyl-tRNAmet, and deacylated E-site tRNAlys at 2.80A resolution Deposited 2025-04-07 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 57-meric |
Chain 1l
1–132（132 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 1518 K POTASSIUM ION × 1 TEL TELITHROMYCIN × 1 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.5% PEG-20K, 7-12% MPD, 0.5 mM BME
|
Resolution 2.80 Å R-free 0.281 |
| 9O3I Crystal structure of the wild-type Thermus thermophilus 70S ribosome in complex with ketolide telithromycin, mRNA, aminoacylated A-site Lys-tRNAlys, P-site fMRC-peptidyl-tRNAmet, and deacylated E-site tRNAlys at 2.80A resolution Deposited 2025-04-07 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 50 PDB declaration: 57-meric |
Chain 2l
1–132（132 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 1141 K POTASSIUM ION × 1 TEL TELITHROMYCIN × 1 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.5% PEG-20K, 7-12% MPD, 0.5 mM BME
|
Resolution 2.80 Å R-free 0.281 |
| 9O3J Crystal structure of the wild-type drug-free Thermus thermophilus 70S ribosome in complex with mRNA, aminoacylated A-site Lys-tRNAlys, P-site fMRC-peptidyl-tRNAmet, and deacylated E-site tRNAlys at 2.60A resolution Deposited 2025-04-07 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 100 PDB declaration: 114-meric |
Chain 1l
1–132（132 aa）
Chain 2l
1–132（132 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 2734 K POTASSIUM ION × 2 ZN ZINC ION × 12 SF4 IRON/SULFUR CLUSTER × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.5% PEG-20K, 7-12% MPD, 0.5 mM BME
|
Resolution 2.60 Å R-free 0.278 |
| 9O3K Crystal structure of the wild-type Thermus thermophilus 70S ribosome in complex with macrolide erythromycin, mRNA, aminoacylated A-site Lys-tRNAlys, P-site fMAC-peptidyl-tRNAmet, and deacylated E-site tRNAlys at 2.70A resolution Deposited 2025-04-07 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 57-meric |
Chain 1l
1–132（132 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 1529 K POTASSIUM ION × 1 ERY ERYTHROMYCIN A × 1 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.5% PEG-20K, 7-12% MPD, 0.5 mM BME
|
Resolution 2.70 Å R-free 0.262 |
| 9O3K Crystal structure of the wild-type Thermus thermophilus 70S ribosome in complex with macrolide erythromycin, mRNA, aminoacylated A-site Lys-tRNAlys, P-site fMAC-peptidyl-tRNAmet, and deacylated E-site tRNAlys at 2.70A resolution Deposited 2025-04-07 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 50 PDB declaration: 57-meric |
Chain 2l
1–132（132 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 993 K POTASSIUM ION × 1 ERY ERYTHROMYCIN A × 1 ZN ZINC ION × 6 SF4 IRON/SULFUR CLUSTER × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.5% PEG-20K, 7-12% MPD, 0.5 mM BME
|
Resolution 2.70 Å R-free 0.262 |
| 9O3L Crystal structure of the wild-type Thermus thermophilus 70S ribosome in complex with macrolide erythromycin, mRNA, deacylated A-site tRNAphe, P-site fMRC-peptidyl-tRNAmet, and deacylated E-site tRNAphe at 2.75A resolution Deposited 2025-04-07 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 100 PDB declaration: 114-meric |
Chain 1l
1–132（132 aa）
Chain 2l
1–132（132 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) Non-standard monomer：Yes (specific site not provided by mmCIF) | MG MAGNESIUM ION × 2713 K POTASSIUM ION × 2 ERY ERYTHROMYCIN A × 2 ZN ZINC ION × 12 SF4 IRON/SULFUR CLUSTER × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 7.6；292 K；0.1-0.2 M Arginine-HCl, 0.1M Tris-HCl pH 7.6, 2.5% PEG-20K, 7-12% MPD, 0.5 mM BME
|
Resolution 2.75 Å R-free 0.282 |
323 other PDB entries and 543 assemblies. Open the comparison page and filter oligomeric states
View Construct and Data Evidence
| UniProt name | RS12_THET8 |
| Isoform | — |
| PDB entities | 2 |
| Chains and sequence ranges | Author chain O； PDBConstruct 1–124； UniProt 1–124 |
