30S ribosomal protein S8
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 Monomer Protein × 1 RNA 1 PDB declaration: dimeric（2） Consistent with all polymer counts | Chain H； UniProt 1–129 | Not recorded | 47-MER × 1 ZN ZINC ION × 9 | X-RAY DIFFRACTION X-ray crystallization conditions：VAPOR DIFFUSION, HANGING DROP；pH 5.2；296 K；PEG 8000, zinc acetate, sodium acetate buffer, pH 5.2, VAPOR DIFFUSION, HANGING DROP, temperature 296K | Resolution 2.70 Å R-free 0.273 |
| 2 | Protein–RNA Monomer Protein × 1 RNA 1 PDB declaration: dimeric（2） Consistent with all polymer counts | Chain G； UniProt 1–129 | Not recorded | 47-MER × 1 ZN ZINC ION × 8 | X-RAY DIFFRACTION X-ray crystallization conditions：VAPOR DIFFUSION, HANGING DROP；pH 5.2；296 K；PEG 8000, zinc acetate, sodium acetate buffer, pH 5.2, VAPOR DIFFUSION, HANGING DROP, temperature 296K | Resolution 2.70 Å R-free 0.273 |
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 1S03 | Assembly / Oligomeric State | Construct | Mutations and Modifications | Ligands, Ions and Non-polymers | Method and Experimental Conditions | Structure Quality |
|---|---|---|---|---|---|---|---|
| 10FZ 30S ribosomal subunit from E. coli missing the gene encoding for the 16S rRNA 2'-O-methyltransferase RsmI Deposited 2026-01-18 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 20 PDB declaration: 21-meric |
Chain H
2–130（129 aa）
|
Not recorded | MG MAGNESIUM ION × 77 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.6；10 mM HEPES, 10 mM MgCl2, 100 mM NH4Cl, 6 mM Beta-mercaptoethanol
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.91 Å |
| 28UH E. coli 70S ribosome, trapped conformational ground state of SSU-h44 apical loop, with A/P- and P/E-site tRNA Deposited 2026-02-20 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 55-meric |
Chain H
1–130（130 aa）
|
Not recorded | ZN ZINC ION × 2 MG MAGNESIUM ION × 274 K POTASSIUM ION × 65 SCM SPECTINOMYCIN × 1 VAL VALINE × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.6
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.06 Å |
| 28UI E. coli 70S ribosome, trapped conformational excited state of SSU-h44 apical loop, with A- and P-site tRNA Deposited 2026-02-20 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 55-meric |
Chain H
1–130（130 aa）
|
Not recorded | ZN ZINC ION × 2 SCM SPECTINOMYCIN × 1 MG MAGNESIUM ION × 270 VAL VALINE × 1 K POTASSIUM ION × 11 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.6
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.10 Å |
| 28UJ E. coli 70S ribosome, trapped conformational excited state of SSU-h44 apical loop, with A/P- and P/E-site tRNA Deposited 2026-02-20 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 55-meric |
Chain H
1–130（130 aa）
|
Not recorded | ZN ZINC ION × 2 MG MAGNESIUM ION × 251 SCM SPECTINOMYCIN × 1 K POTASSIUM ION × 47 VAL VALINE × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.6
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.16 Å |
| 28UK E. coli 70S ribosome, conformational ground state mutation in SSU-h41, with A- and P-site tRNA Deposited 2026-02-20 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 55-meric |
Chain H
1–130（130 aa）
|
Not recorded | ZN ZINC ION × 2 MG MAGNESIUM ION × 227 K POTASSIUM ION × 74 SCM SPECTINOMYCIN × 1 VAL VALINE × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.6
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.24 Å |
| 28UL E. coli 70S ribosome, conformational ground state mutation in SSU-h41, with A/P- and P/E-site tRNA Deposited 2026-02-20 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 55-meric |
Chain H
1–130（130 aa）
|
Not recorded | ZN ZINC ION × 2 MG MAGNESIUM ION × 212 K POTASSIUM ION × 77 SCM SPECTINOMYCIN × 1 VAL VALINE × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.6
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.50 Å |
| 28UM E. coli 70S ribosome, conformational excited state mutation in SSU-h41, with A- and P-site tRNA Deposited 2026-02-20 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 55-meric |
Chain H
1–130（130 aa）
|
Not recorded | ZN ZINC ION × 2 MG MAGNESIUM ION × 238 K POTASSIUM ION × 109 SCM SPECTINOMYCIN × 1 VAL VALINE × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.6
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.15 Å |
| 28UN E. coli 70S ribosome, conformational excited state mutation in SSU-h41, with A/P- and P/E-site tRNA Deposited 2026-02-20 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 55-meric |
Chain H
1–130（130 aa）
|
Not recorded | ZN ZINC ION × 2 MG MAGNESIUM ION × 183 K POTASSIUM ION × 65 SCM SPECTINOMYCIN × 1 VAL VALINE × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.6
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.48 Å |
| 30RA E. coli 70S ribosome with peptidyl-tRNA, mRNA and Hsp15 Deposited 2026-05-10 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 55-meric |
Chain H
1–130（130 aa）
|
Not recorded | ZN ZINC ION × 2 MG MAGNESIUM ION × 281 ASP ASPARTIC ACID × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5；HEPES-polymix buffer (pH-7.5)
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.78 Å |
| 30RB E. coli 70S ribosome with peptidyl-tRNA and Hsp15 Deposited 2026-05-10 | 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: 53-meric |
Chain H
1–130（130 aa）
|
Not recorded | ZN ZINC ION × 1 MG MAGNESIUM ION × 210 K POTASSIUM ION × 2 ASP ASPARTIC ACID × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5；HEPES-polymix buffer (pH-7.5)
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.92 Å |
| 3IY8 Leishmania tarentolae Mitonchondrial Ribosome small subunit Deposited 2009-04-16 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 10 PDB declaration: undecameric |
Chain H
2–130（129 aa）
|
Not recorded | No recorded non-water small molecule |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5；50 mM Tris-HCl, pH 7.5, 100 mM KCl, 10 mM MgCl2, 3 mM DTT, 0.1 mM EDTA and 0.05% dodecyl maltoside
cryo-EM vitrification conditions
Plunge freeze；Cryogen ETHANE
|
Resolution 14.10 Å |
| 3J9Y Cryo-EM structure of tetracycline resistance protein TetM bound to a translating E.coli ribosome 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 × 53 PDB declaration: 58-meric |
Chain h
1–130（130 aa）
|
Not recorded | No recorded non-water small molecule |
ELECTRON MICROSCOPY
cryo-EM buffer
50 mM HEPES-KOH, 100 mM KOAc, 25 mM Mg(OAc)2, 6 mM b-mercaptoethanol；pH 7.4；50 mM HEPES-KOH, 100 mM KOAc, 25 mM Mg(OAc)2, 6 mM b-mercaptoethanol
cryo-EM vitrification conditions
Cryogen ETHANE；Plunged into liquid ethane (FEI VITROBOT MARK IV)
|
Resolution 3.90 Å |
| 3J9Z Activation of GTP Hydrolysis in mRNA-tRNA Translocation by Elongation Factor G Deposited 2015-03-27 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 53 PDB declaration: 58-meric |
Chain SH
2–130（129 aa）
|
Not recorded | GTP GUANOSINE-5'-TRIPHOSPHATE × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
93 K；Cryogen ETHANE；Plunged into liquid ethane (FEI VITROBOT MARK IV)
|
Resolution 3.60 Å |
| 3JA1 Activation of GTP Hydrolysis in mRNA-tRNA Translocation by Elongation Factor G Deposited 2015-03-30 | 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: 58-meric |
Chain SH
2–130（129 aa）
|
Not recorded | GTP GUANOSINE-5'-TRIPHOSPHATE × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
93 K；Cryogen ETHANE；Plunged into liquid ethane (FEI VITROBOT MARK IV)
|
Resolution 3.60 Å |
| 3JBU Mechanisms of Ribosome Stalling by SecM at Multiple Elongation Steps Deposited 2015-10-16 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 54-meric |
Chain H
1–130（130 aa）
|
Not recorded | No recorded non-water small molecule |
ELECTRON MICROSCOPY
cryo-EM buffer
20mM HEPES, 50mM KOAc, 6mM Mg(OAc)2, 1mM DTT, 500 ug/ml chloramphenicol, 0.05% Nikkol, 0.5% pill/ml Complete EDTA-free Protease inhibitor cocktail, 0.1U/ml RNasin and 125mM sucrose；pH 7；20mM HEPES, 50mM KOAc, 6mM Mg(OAc)2, 1mM DTT, 500 ug/ml chloramphenicol, 0.05% Nikkol, 0.5% pill/ml Complete EDTA-free Protease inhibitor cocktail, 0.1U/ml RNasin and 125mM sucrose
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.64 Å |
| 3JBV Mechanisms of Ribosome Stalling by SecM at Multiple Elongation Steps Deposited 2015-10-16 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 56-meric |
Chain H
1–130（130 aa）
|
Not recorded | CLM CHLORAMPHENICOL × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
20mM HEPES, 50mM KOAc, 6mM Mg(OAc)2, 1mM DTT, 500 ug/ml chloramphenicol,0.05% Nikkol,0.5% pill/ml Complete EDTA-free Protease inhibitor cocktail,0.1 U/ml RNasin and 125mM sucrose；pH 7；20mM HEPES, 50mM KOAc, 6mM Mg(OAc)2, 1mM DTT, 500 ug/ml chloramphenicol,0.05% Nikkol,0.5% pill/ml Complete EDTA-free Protease inhibitor cocktail,0.1 U/ml RNasin and 125mM sucrose
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.32 Å |
| 3JCD Structure of Escherichia coli EF4 in posttranslocational ribosomes (Post EF4) Deposited 2015-12-01 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 51 PDB declaration: 57-meric |
Chain h
1–130（130 aa）
|
Not recorded | No recorded non-water small molecule |
ELECTRON MICROSCOPY
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.70 Å |
| 3JCE Structure of Escherichia coli EF4 in pretranslocational ribosomes (Pre EF4) Deposited 2015-12-01 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 51 PDB declaration: 58-meric |
Chain h
1–130（130 aa）
|
Not recorded | PHE PHENYLALANINE × 1 GNP PHOSPHOAMINOPHOSPHONIC ACID-GUANYLATE ESTER × 1 MG MAGNESIUM ION × 1 |
ELECTRON MICROSCOPY
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.20 Å |
| 3JCJ Structures of ribosome-bound initiation factor 2 reveal the mechanism of subunit association Deposited 2015-12-18 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 51 PDB declaration: 56-meric |
Chain p
1–130（130 aa）
|
Not recorded | MG MAGNESIUM ION × 195 ZN ZINC ION × 1 GNP PHOSPHOAMINOPHOSPHONIC ACID-GUANYLATE ESTER × 1 FME N-FORMYLMETHIONINE × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
20 mM HEPES-KOH, pH 7.5, 15 mM magnesium acetate, 150 mM potassium acetate, 4 mM 2-mercapthoethanol, 2 mM spermidine, 0.05 mM spermine；pH 7.5；20 mM HEPES-KOH, pH 7.5, 15 mM magnesium acetate, 150 mM potassium acetate, 4 mM 2-mercapthoethanol, 2 mM spermidine, 0.05 mM spermine
cryo-EM vitrification conditions
Blot for 2-4 seconds before plunging；Cryogen ETHANE；Blot for 2-4 seconds before plunging into liquid ethane (FEI VITROBOT MARK I).
|
Resolution 3.70 Å |
| 3JCN Structures of ribosome-bound initiation factor 2 reveal the mechanism of subunit association: Initiation Complex I 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 k
1–130（130 aa）
|
Not recorded | GNP PHOSPHOAMINOPHOSPHONIC ACID-GUANYLATE ESTER × 1 FME N-FORMYLMETHIONINE × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
20 mM HEPES-KOH, pH 7.5, 15 mM magnesium acetate, 150 mM potassium acetate, 4 mM 2-mercapthoethanol, 2 mM spermidine, 0.05 mM spermine；pH 7.5；20 mM HEPES-KOH, pH 7.5, 15 mM magnesium acetate, 150 mM potassium acetate, 4 mM 2-mercapthoethanol, 2 mM spermidine, 0.05 mM spermine
cryo-EM vitrification conditions
Blot for 2-4 seconds before plunging；Cryogen ETHANE；Blot for 2-4 seconds before plunging into liquid ethane (FEI VITROBOT MARK I).
|
Resolution 4.60 Å |
| 4A2I Cryo-electron Microscopy Structure of the 30S Subunit in Complex with the YjeQ Biogenesis Factor Deposited 2011-09-27 | 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 H
1–129（129 aa）
|
Not recorded | No recorded non-water small molecule |
ELECTRON MICROSCOPY
cryo-EM buffer
10 MM TRIS-HCL PH 7.5, 10 MM MAGNESIUM ACETATE, 60 MM NH4CL, 3 MM 2- MERCAPTOETHANOL AND 2 MM GMP-PNP；pH 7.5；10 MM TRIS-HCL PH 7.5, 10 MM MAGNESIUM ACETATE, 60 MM NH4CL, 3 MM 2- MERCAPTOETHANOL AND 2 MM GMP-PNP
cryo-EM vitrification conditions
Cryogen ETHANE；BLOT FOR 7 SECONDS IN FEI VITROBOT III
|
Resolution 16.50 Å |
| 4ADV Structure of the E. coli methyltransferase KsgA bound to the E. coli 30S ribosomal subunit Deposited 2012-01-03 | 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 H
1–129（129 aa）
|
Not recorded | No recorded non-water small molecule |
ELECTRON MICROSCOPY
cryo-EM buffer
40 MM KCL, 4MM MGCL2, 20 MM HEPES/KOH PH 7. 6, 6 MM 2- MERCAPTOETHANOL；pH 7.6；40 MM KCL, 4MM MGCL2, 20 MM HEPES/KOH PH 7. 6, 6 MM 2- MERCAPTOETHANOL
cryo-EM vitrification conditions
Cryogen ETHANE；VITRIFICATION 1 -- CRYOGEN- ETHANE, INSTRUMENT- PLUNGER,
|
Resolution 13.50 Å |
| 4U1U Crystal structure of the E. coli ribosome bound to quinupristin. Deposited 2014-07-16 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 51 PDB declaration: 54-meric |
Chain AH
2–130（129 aa）
|
Not recorded | MG MAGNESIUM ION × 271 ZN ZINC ION × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
EVAPORATION；pH 6.5；291 K；PEG8k, MPD
|
Resolution 2.95 Å R-free 0.282 |
| 4U1U Crystal structure of the E. coli ribosome bound to quinupristin. Deposited 2014-07-16 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 50 PDB declaration: 53-meric |
Chain CH
2–130（129 aa）
|
Not recorded | MG MAGNESIUM ION × 227 ZN ZINC ION × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
EVAPORATION；pH 6.5；291 K；PEG8k, MPD
|
Resolution 2.95 Å R-free 0.282 |
| 4U1V Crystal structure of the E. coli ribosome bound to linopristin. Deposited 2014-07-16 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 51 PDB declaration: 54-meric |
Chain AH
2–130（129 aa）
|
Not recorded | MG MAGNESIUM ION × 271 ZN ZINC ION × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
MICROBATCH；pH 6.5；291 K；PEG8k, MPD
|
Resolution 3.00 Å R-free 0.274 |
| 4U1V Crystal structure of the E. coli ribosome bound to linopristin. Deposited 2014-07-16 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 50 PDB declaration: 53-meric |
Chain CH
2–130（129 aa）
|
Not recorded | MG MAGNESIUM ION × 227 ZN ZINC ION × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
MICROBATCH；pH 6.5；291 K；PEG8k, MPD
|
Resolution 3.00 Å R-free 0.274 |
| 4U20 Crystal structure of the E. coli ribosome bound to flopristin. Deposited 2014-07-16 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 53-meric |
Chain AH
2–130（129 aa）
|
Not recorded | MG MAGNESIUM ION × 271 VIF Flopristin × 1 ZN ZINC ION × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
MICROBATCH；pH 6.5；291 K；PEG8k, MPD
|
Resolution 2.90 Å R-free 0.279 |
| 4U20 Crystal structure of the E. coli ribosome bound to flopristin. Deposited 2014-07-16 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 49 PDB declaration: 52-meric |
Chain CH
2–130（129 aa）
|
Not recorded | MG MAGNESIUM ION × 227 VIF Flopristin × 1 ZN ZINC ION × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
MICROBATCH；pH 6.5；291 K；PEG8k, MPD
|
Resolution 2.90 Å R-free 0.279 |
| 4U24 Crystal structure of the E. coli ribosome bound to dalfopristin. Deposited 2014-07-16 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 53-meric |
Chain AH
2–130（129 aa）
|
Not recorded | MG MAGNESIUM ION × 271 DOL 5-(2-DIETHYLAMINO-ETHANESULFONYL)-21-HYDROXY-10-ISOPROPYL-11,19-DIMETHYL-9,26-DIOXA-3,15,28-TRIAZA-TRICYCLO[23.2.1.00,255]OCTACOSA-1(27),12,17,19,25(28)-PENTAENE-2,8,14,23-TETRAONE × 1 ZN ZINC ION × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
MICROBATCH；pH 6.5；291 K；PEG8k, MPD
|
Resolution 2.90 Å R-free 0.264 |
| 4U24 Crystal structure of the E. coli ribosome bound to dalfopristin. Deposited 2014-07-16 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 49 PDB declaration: 52-meric |
Chain CH
2–130（129 aa）
|
Not recorded | MG MAGNESIUM ION × 226 DOL 5-(2-DIETHYLAMINO-ETHANESULFONYL)-21-HYDROXY-10-ISOPROPYL-11,19-DIMETHYL-9,26-DIOXA-3,15,28-TRIAZA-TRICYCLO[23.2.1.00,255]OCTACOSA-1(27),12,17,19,25(28)-PENTAENE-2,8,14,23-TETRAONE × 1 ZN ZINC ION × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
MICROBATCH；pH 6.5；291 K；PEG8k, MPD
|
Resolution 2.90 Å R-free 0.264 |
| 4U25 Crystal structure of the E. coli ribosome bound to virginiamycin M1. Deposited 2014-07-16 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 53-meric |
Chain AH
2–130（129 aa）
|
Not recorded | MG MAGNESIUM ION × 271 VIR VIRGINIAMYCIN M1 × 1 ZN ZINC ION × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
MICROBATCH；pH 6.5；291 K；PEG8k, MPD
|
Resolution 2.90 Å R-free 0.265 |
| 4U25 Crystal structure of the E. coli ribosome bound to virginiamycin M1. Deposited 2014-07-16 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 49 PDB declaration: 52-meric |
Chain CH
2–130（129 aa）
|
Not recorded | MG MAGNESIUM ION × 227 VIR VIRGINIAMYCIN M1 × 1 ZN ZINC ION × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
MICROBATCH；pH 6.5；291 K；PEG8k, MPD
|
Resolution 2.90 Å R-free 0.265 |
| 4U26 Crystal structure of the E. coli ribosome bound to dalfopristin and quinupristin. Deposited 2014-07-16 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 51 PDB declaration: 54-meric |
Chain AH
2–130（129 aa）
|
Not recorded | MG MAGNESIUM ION × 271 DOL 5-(2-DIETHYLAMINO-ETHANESULFONYL)-21-HYDROXY-10-ISOPROPYL-11,19-DIMETHYL-9,26-DIOXA-3,15,28-TRIAZA-TRICYCLO[23.2.1.00,255]OCTACOSA-1(27),12,17,19,25(28)-PENTAENE-2,8,14,23-TETRAONE × 1 ZN ZINC ION × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
MICROBATCH；pH 6.5；291 K；PEG8k, MPD
|
Resolution 2.80 Å R-free 0.271 |
| 4U26 Crystal structure of the E. coli ribosome bound to dalfopristin and quinupristin. Deposited 2014-07-16 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 50 PDB declaration: 53-meric |
Chain CH
2–130（129 aa）
|
Not recorded | MG MAGNESIUM ION × 227 DOL 5-(2-DIETHYLAMINO-ETHANESULFONYL)-21-HYDROXY-10-ISOPROPYL-11,19-DIMETHYL-9,26-DIOXA-3,15,28-TRIAZA-TRICYCLO[23.2.1.00,255]OCTACOSA-1(27),12,17,19,25(28)-PENTAENE-2,8,14,23-TETRAONE × 1 ZN ZINC ION × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
MICROBATCH；pH 6.5；291 K；PEG8k, MPD
|
Resolution 2.80 Å R-free 0.271 |
| 4U27 Crystal structure of the E. coli ribosome bound to flopristin and linopristin. Deposited 2014-07-16 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 51 PDB declaration: 54-meric |
Chain AH
2–130（129 aa）
|
Not recorded | MG MAGNESIUM ION × 271 VIF Flopristin × 1 ZN ZINC ION × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
MICROBATCH；pH 6.5；291 K；PEG8k, MPD
|
Resolution 2.80 Å R-free 0.260 |
| 4U27 Crystal structure of the E. coli ribosome bound to flopristin and linopristin. Deposited 2014-07-16 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 50 PDB declaration: 53-meric |
Chain CH
2–130（129 aa）
|
Not recorded | MG MAGNESIUM ION × 227 VIF Flopristin × 1 ZN ZINC ION × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
MICROBATCH；pH 6.5；291 K；PEG8k, MPD
|
Resolution 2.80 Å R-free 0.260 |
| 4V47 Real space refined coordinates of the 30S and 50S subunits fitted into the low resolution cryo-EM map of the EF-G.GTP state of E. coli 70S ribosome Deposited 2003-05-06 | Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 43 PDB declaration: 46-meric |
Chain BH
1–129（129 aa）
|
Not recorded | No recorded non-water small molecule |
ELECTRON MICROSCOPY
cryo-EM buffer
Tris；pH 7.5；Tris
cryo-EM vitrification conditions
Rapid-freezing in liquid ethane
|
Resolution 12.30 Å |
| 4V4H Crystal structure of the bacterial ribosome from Escherichia coli in complex with the antibiotic kasugamyin at 3.5A resolution. Deposited 2006-08-04 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 52-meric |
Chain AH
1–130（130 aa）
|
Not recorded | KSG (1S,2R,3S,4R,5S,6S)-2,3,4,5,6-PENTAHYDROXYCYCLOHEXYL 2-AMINO-4-{[CARBOXY(IMINO)METHYL]AMINO}-2,3,4,6-TETRADEOXY-ALPHA-D-ARABINO-HEXOPYRANOSIDE × 1 MG MAGNESIUM ION × 170 |
X-RAY DIFFRACTION
X-ray crystallization conditions
pH 7.5；MPD, PEG 8000, MGCL2, NH4CL, SPERMINE, SPERMIDINE, TRIS-HCL, EDTA, PH 7.5, BATCH, TEMPERATURE 277K, pH 7.50
|
Resolution 3.46 Å R-free 0.331 |
| 4V4H Crystal structure of the bacterial ribosome from Escherichia coli in complex with the antibiotic kasugamyin at 3.5A resolution. Deposited 2006-08-04 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 49 PDB declaration: 52-meric |
Chain CH
0–129（130 aa）
|
Not recorded | KSG (1S,2R,3S,4R,5S,6S)-2,3,4,5,6-PENTAHYDROXYCYCLOHEXYL 2-AMINO-4-{[CARBOXY(IMINO)METHYL]AMINO}-2,3,4,6-TETRADEOXY-ALPHA-D-ARABINO-HEXOPYRANOSIDE × 1 MG MAGNESIUM ION × 173 |
X-RAY DIFFRACTION
X-ray crystallization conditions
pH 7.5；MPD, PEG 8000, MGCL2, NH4CL, SPERMINE, SPERMIDINE, TRIS-HCL, EDTA, PH 7.5, BATCH, TEMPERATURE 277K, pH 7.50
|
Resolution 3.46 Å R-free 0.331 |
| 4V4Q Crystal structure of the bacterial ribosome from Escherichia coli at 3.5 A resolution. Deposited 2005-08-30 | Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 52-meric |
Chain AH
1–129（129 aa）
|
Not recorded | MG MAGNESIUM ION × 170 |
X-RAY DIFFRACTION
X-ray crystallization conditions
batch；pH 7.5；277 K；MPD, PEG 8000, MgCl2, NH4Cl, spermine, spermidine, TRIS, EDTA, pH 7.5, batch, temperature 277K
|
Resolution 3.46 Å R-free 0.331 |
| 4V4Q Crystal structure of the bacterial ribosome from Escherichia coli at 3.5 A resolution. Deposited 2005-08-30 | Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 49 PDB declaration: 52-meric |
Chain CH
1–129（129 aa）
|
Not recorded | MG MAGNESIUM ION × 173 |
X-RAY DIFFRACTION
X-ray crystallization conditions
batch；pH 7.5；277 K；MPD, PEG 8000, MgCl2, NH4Cl, spermine, spermidine, TRIS, EDTA, pH 7.5, batch, temperature 277K
|
Resolution 3.46 Å R-free 0.331 |
| 4V4V Structure of a pre-translocational E. coli ribosome obtained by fitting atomic models for RNA and protein components into cryo-EM map EMD-1056 Deposited 2006-05-09 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 46 PDB declaration: 52-meric |
Chain AH
2–128（127 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 15.00 Å |
| 4V4W Structure of a SecM-stalled E. coli ribosome complex obtained by fitting atomic models for RNA and protein components into cryo-EM map EMD-1143 Deposited 2006-05-09 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 46 PDB declaration: 52-meric |
Chain AH
2–128（127 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 15.00 Å |
| 4V50 Crystal Structure of Ribosome with messenger RNA and the Anticodon stem-loop of P-site tRNA. Deposited 2006-08-16 | Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 54-meric |
Chain AH
1–129（129 aa）
|
Not recorded | MG MAGNESIUM ION × 181 ZN ZINC ION × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
batch；pH 7.5；277 K；MPD, PEG 8000, MGCL2, NH4CL, SPERMINE, SPERMIDINE, TRIS, EDTA, pH 7.5, batch, temperature 277K
|
Resolution 3.22 Å R-free 0.320 |
| 4V50 Crystal Structure of Ribosome with messenger RNA and the Anticodon stem-loop of P-site tRNA. Deposited 2006-08-16 | Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 49 PDB declaration: 54-meric |
Chain CH
1–129（129 aa）
|
Not recorded | MG MAGNESIUM ION × 177 ZN ZINC ION × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
batch；pH 7.5；277 K；MPD, PEG 8000, MGCL2, NH4CL, SPERMINE, SPERMIDINE, TRIS, EDTA, pH 7.5, batch, temperature 277K
|
Resolution 3.22 Å R-free 0.320 |
| 4V52 Crystal structure of the bacterial ribosome from Escherichia coli in complex with neomycin. Deposited 2007-06-15 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 52-meric |
Chain AH
2–130（129 aa）
|
Not recorded | NMY NEOMYCIN × 2 MG MAGNESIUM ION × 170 ZN ZINC ION × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
batch；pH 7.5；277 K；MPD, PEG 8000, MgCl2, NH4Cl, spermine, spermidine, TRIS, EDTA, pH 7.5, batch, temperature 277K
|
Resolution 3.21 Å R-free 0.309 |
| 4V52 Crystal structure of the bacterial ribosome from Escherichia coli in complex with neomycin. Deposited 2007-06-15 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 49 PDB declaration: 52-meric |
Chain CH
2–130（129 aa）
|
Not recorded | NMY NEOMYCIN × 2 MG MAGNESIUM ION × 173 ZN ZINC ION × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
batch；pH 7.5；277 K；MPD, PEG 8000, MgCl2, NH4Cl, spermine, spermidine, TRIS, EDTA, pH 7.5, batch, temperature 277K
|
Resolution 3.21 Å R-free 0.309 |
| 4V53 Crystal structure of the bacterial ribosome from Escherichia coli in complex with gentamicin. Deposited 2007-06-16 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 52-meric |
Chain AH
2–130（129 aa）
|
Not recorded | MG MAGNESIUM ION × 170 LLL (2R,3R,4R,5R)-2-((1S,2S,3R,4S,6R)-4,6-DIAMINO-3-((2R,3R,6S)-3-AMINO-6-(AMINOMETHYL)-TETRAHYDRO-2H-PYRAN-2-YLOXY)-2-HYDR OXYCYCLOHEXYLOXY)-5-METHYL-4-(METHYLAMINO)-TETRAHYDRO-2H-PYRAN-3,5-DIOL × 4 ZN ZINC ION × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
batch；pH 7.5；277 K；MPD, PEG 8000, MgCl2, NH4Cl, spermine, spermidine, TRIS, EDTA, pH 7.5, batch, temperature 277K
|
Resolution 3.54 Å R-free 0.320 |
| 4V53 Crystal structure of the bacterial ribosome from Escherichia coli in complex with gentamicin. Deposited 2007-06-16 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 49 PDB declaration: 52-meric |
Chain CH
2–130（129 aa）
|
Not recorded | MG MAGNESIUM ION × 173 LLL (2R,3R,4R,5R)-2-((1S,2S,3R,4S,6R)-4,6-DIAMINO-3-((2R,3R,6S)-3-AMINO-6-(AMINOMETHYL)-TETRAHYDRO-2H-PYRAN-2-YLOXY)-2-HYDR OXYCYCLOHEXYLOXY)-5-METHYL-4-(METHYLAMINO)-TETRAHYDRO-2H-PYRAN-3,5-DIOL × 4 ZN ZINC ION × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
batch；pH 7.5；277 K；MPD, PEG 8000, MgCl2, NH4Cl, spermine, spermidine, TRIS, EDTA, pH 7.5, batch, temperature 277K
|
Resolution 3.54 Å R-free 0.320 |
| 4V54 Crystal structure of the bacterial ribosome from Escherichia coli in complex with ribosome recycling factor (RRF). Deposited 2007-06-16 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 53-meric |
Chain AH
2–130（129 aa）
|
Not recorded | MG MAGNESIUM ION × 170 ZN ZINC ION × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
batch；pH 7.5；277 K；MPD, PEG 8000, MgCl2, NH4Cl, spermine, spermidine, TRIS, EDTA, pH 7.5, batch, temperature 277K
|
Resolution 3.30 Å R-free 0.304 |
| 4V54 Crystal structure of the bacterial ribosome from Escherichia coli in complex with ribosome recycling factor (RRF). Deposited 2007-06-16 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 50 PDB declaration: 53-meric |
Chain CH
2–130（129 aa）
|
Not recorded | MG MAGNESIUM ION × 173 ZN ZINC ION × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
batch；pH 7.5；277 K；MPD, PEG 8000, MgCl2, NH4Cl, spermine, spermidine, TRIS, EDTA, pH 7.5, batch, temperature 277K
|
Resolution 3.30 Å R-free 0.304 |
| 4V55 Crystal structure of the bacterial ribosome from Escherichia coli in complex with gentamicin and ribosome recycling factor (RRF). Deposited 2007-06-17 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 53-meric |
Chain AH
2–130（129 aa）
|
Not recorded | MG MAGNESIUM ION × 170 LLL (2R,3R,4R,5R)-2-((1S,2S,3R,4S,6R)-4,6-DIAMINO-3-((2R,3R,6S)-3-AMINO-6-(AMINOMETHYL)-TETRAHYDRO-2H-PYRAN-2-YLOXY)-2-HYDR OXYCYCLOHEXYLOXY)-5-METHYL-4-(METHYLAMINO)-TETRAHYDRO-2H-PYRAN-3,5-DIOL × 2 ZN ZINC ION × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
batch；pH 7.5；277 K；MPD, PEG 8000, MgCl2, NH4Cl, spermine, spermidine, TRIS, EDTA, pH 7.5, batch, temperature 277K
|
Resolution 4.00 Å R-free 0.305 |
| 4V55 Crystal structure of the bacterial ribosome from Escherichia coli in complex with gentamicin and ribosome recycling factor (RRF). Deposited 2007-06-17 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 50 PDB declaration: 53-meric |
Chain CH
2–130（129 aa）
|
Not recorded | MG MAGNESIUM ION × 173 LLL (2R,3R,4R,5R)-2-((1S,2S,3R,4S,6R)-4,6-DIAMINO-3-((2R,3R,6S)-3-AMINO-6-(AMINOMETHYL)-TETRAHYDRO-2H-PYRAN-2-YLOXY)-2-HYDR OXYCYCLOHEXYLOXY)-5-METHYL-4-(METHYLAMINO)-TETRAHYDRO-2H-PYRAN-3,5-DIOL × 2 ZN ZINC ION × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
batch；pH 7.5；277 K；MPD, PEG 8000, MgCl2, NH4Cl, spermine, spermidine, TRIS, EDTA, pH 7.5, batch, temperature 277K
|
Resolution 4.00 Å R-free 0.305 |
| 4V56 Crystal structure of the bacterial ribosome from Escherichia coli in complex with spectinomycin. Deposited 2007-07-21 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 52-meric |
Chain AH
2–130（129 aa）
|
Not recorded | MG MAGNESIUM ION × 170 SCM SPECTINOMYCIN × 1 ZN ZINC ION × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
batch；pH 7.5；277 K；MPD, PEG 8000, MgCl2, NH4Cl, spermine, spermidine, TRIS, EDTA, pH 7.5, batch, temperature 277K
|
Resolution 3.93 Å R-free 0.311 |
| 4V56 Crystal structure of the bacterial ribosome from Escherichia coli in complex with spectinomycin. Deposited 2007-07-21 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 49 PDB declaration: 52-meric |
Chain CH
2–130（129 aa）
|
Not recorded | MG MAGNESIUM ION × 170 SCM SPECTINOMYCIN × 1 ZN ZINC ION × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
batch；pH 7.5；277 K；MPD, PEG 8000, MgCl2, NH4Cl, spermine, spermidine, TRIS, EDTA, pH 7.5, batch, temperature 277K
|
Resolution 3.93 Å R-free 0.311 |
| 4V57 Crystal structure of the bacterial ribosome from Escherichia coli in complex with spectinomycin and neomycin. Deposited 2007-07-21 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 52-meric |
Chain AH
2–130（129 aa）
|
Not recorded | NMY NEOMYCIN × 2 MG MAGNESIUM ION × 170 SCM SPECTINOMYCIN × 1 ZN ZINC ION × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
batch；pH 7.5；277 K；MPD, PEG 8000, MgCl2, NH4Cl, spermine, spermidine, TRIS, EDTA, pH 7.5, batch, temperature 277K
|
Resolution 3.50 Å R-free 0.306 |
| 4V57 Crystal structure of the bacterial ribosome from Escherichia coli in complex with spectinomycin and neomycin. Deposited 2007-07-21 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 49 PDB declaration: 52-meric |
Chain CH
2–130（129 aa）
|
Not recorded | NMY NEOMYCIN × 2 MG MAGNESIUM ION × 170 SCM SPECTINOMYCIN × 1 ZN ZINC ION × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
batch；pH 7.5；277 K；MPD, PEG 8000, MgCl2, NH4Cl, spermine, spermidine, TRIS, EDTA, pH 7.5, batch, temperature 277K
|
Resolution 3.50 Å R-free 0.306 |
| 4V5B Structure of PDF binding helix in complex with the ribosome. Deposited 2007-11-22 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Insufficient information Heteromer；Protein × 50 PDB declaration: 53-meric |
Chain not uniquely mapped
Reference range not declared
Fragment：RESIDUES 2-130
|
Not recorded | MG MAGNESIUM ION × 170 |
X-RAY DIFFRACTION
X-ray crystallization conditions
pH 7.5；pH 7.5
|
Resolution 3.74 Å R-free 0.323 |
| 4V5B Structure of PDF binding helix in complex with the ribosome. Deposited 2007-11-22 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 2 Insufficient information Heteromer；Protein × 49 PDB declaration: 52-meric |
Chain DH
2–130（129 aa）
Fragment：RESIDUES 2-130
|
Not recorded | MG MAGNESIUM ION × 173 |
X-RAY DIFFRACTION
X-ray crystallization conditions
pH 7.5；pH 7.5
|
Resolution 3.74 Å R-free 0.323 |
| 4V5H E.Coli 70s Ribosome Stalled During Translation Of Tnac Leader Peptide. Deposited 2009-10-26 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 51 PDB declaration: 56-meric |
Chain AH
2–130（129 aa）
|
Not recorded | No recorded non-water small molecule |
ELECTRON MICROSCOPY
cryo-EM buffer
50 MM TRIS-HCL PH 8.0, 10MM MG-ACETATE, 50MM KCL, 10MM NH4CL, 2MM EGTA, 2MM L-TRYPTOPHAN, 10 MM DTT；pH 8；50 MM TRIS-HCL PH 8.0, 10MM MG-ACETATE, 50MM KCL, 10MM NH4CL, 2MM EGTA, 2MM L-TRYPTOPHAN, 10 MM DTT
cryo-EM vitrification conditions
Cryogen ETHANE；CRYOGEN- ETHANE,
|
Resolution 5.80 Å |
| 4V5Y Crystal structure of the bacterial ribosome from Escherichia coli in complex with paromomycin and ribosome recycling factor (RRF). Deposited 2007-06-19 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 53-meric |
Chain AH
2–130（129 aa）
|
Not recorded | MG MAGNESIUM ION × 170 PAR PAROMOMYCIN × 2 ZN ZINC ION × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
batch；pH 7.5；277 K；MPD, PEG 8000, MgCl2, NH4Cl, spermine, spermidine, TRIS, EDTA, pH 7.5, batch, temperature 277K
|
Resolution 4.45 Å R-free 0.309 |
| 4V5Y Crystal structure of the bacterial ribosome from Escherichia coli in complex with paromomycin and ribosome recycling factor (RRF). Deposited 2007-06-19 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 50 PDB declaration: 53-meric |
Chain CH
2–130（129 aa）
|
Not recorded | MG MAGNESIUM ION × 173 PAR PAROMOMYCIN × 2 ZN ZINC ION × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
batch；pH 7.5；277 K；MPD, PEG 8000, MgCl2, NH4Cl, spermine, spermidine, TRIS, EDTA, pH 7.5, batch, temperature 277K
|
Resolution 4.45 Å R-free 0.309 |
| 4V64 Crystal structure of the bacterial ribosome from Escherichia coli in complex with hygromycin B. Deposited 2008-06-11 | Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 52-meric |
Chain AH
1–129（129 aa）
|
Not recorded | MG MAGNESIUM ION × 170 HYG HYGROMYCIN B × 1 ZN ZINC ION × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
batch；pH 7.5；277 K；MPD, PEG 8000, MgCl2, NH4Cl, spermine, spermidine, TRIS, EDTA, pH 7.5, batch, temperature 277K
|
Resolution 3.50 Å R-free 0.318 |
| 4V64 Crystal structure of the bacterial ribosome from Escherichia coli in complex with hygromycin B. Deposited 2008-06-11 | Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 49 PDB declaration: 52-meric |
Chain CH
1–129（129 aa）
|
Not recorded | MG MAGNESIUM ION × 173 HYG HYGROMYCIN B × 1 ZN ZINC ION × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
batch；pH 7.5；277 K；MPD, PEG 8000, MgCl2, NH4Cl, spermine, spermidine, TRIS, EDTA, pH 7.5, batch, temperature 277K
|
Resolution 3.50 Å R-free 0.318 |
| 4V69 Ternary complex-bound E.coli 70S ribosome. Deposited 2008-12-11 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 51 PDB declaration: 58-meric |
Chain AH
2–130（129 aa）
|
Not recorded | GDP GUANOSINE-5'-DIPHOSPHATE × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE；Vitrification using FEI Vitrobot; blot 3 seconds before plunging with an offset of -1mm
|
Resolution 6.70 Å |
| 4V6C Crystal structure of the E. coli 70S ribosome in an intermediate state of ratcheting Deposited 2009-06-27 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 52-meric |
Chain AH
1–130（130 aa）
|
Not recorded | MG MAGNESIUM ION × 184 ZN ZINC ION × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
MICROBATCH；291 K；4% PEG 8000, 4% MPD, 3.8 mM MgCl2, 380 mM NH4Cl, 5.5 mM putrescine, 5 mM spermidine, microbatch, temperature 291K
|
Resolution 3.19 Å R-free 0.252 |
| 4V6C Crystal structure of the E. coli 70S ribosome in an intermediate state of ratcheting Deposited 2009-06-27 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 49 PDB declaration: 52-meric |
Chain CH
1–130（130 aa）
|
Not recorded | MG MAGNESIUM ION × 179 ZN ZINC ION × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
MICROBATCH；291 K；4% PEG 8000, 4% MPD, 3.8 mM MgCl2, 380 mM NH4Cl, 5.5 mM putrescine, 5 mM spermidine, microbatch, temperature 291K
|
Resolution 3.19 Å R-free 0.252 |
| 4V6D Crystal structure of the E. coli 70S ribosome in an intermediate state of ratcheting Deposited 2009-06-27 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 54-meric |
Chain AH
1–130（130 aa）
|
Not recorded | MG MAGNESIUM ION × 184 ZN ZINC ION × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
MICROBATCH；pH 7；291 K；4% PEG 8000, 4% MPD, 3.8 mM MgCl2, 380 mM NH4Cl, 5.5 mM putrescine, 5 mM spermidine, pH 7.0, microbatch, temperature 291K
|
Resolution 3.81 Å R-free 0.253 |
| 4V6D Crystal structure of the E. coli 70S ribosome in an intermediate state of ratcheting Deposited 2009-06-27 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 49 PDB declaration: 54-meric |
Chain CH
1–130（130 aa）
|
Not recorded | MG MAGNESIUM ION × 179 ZN ZINC ION × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
MICROBATCH；pH 7；291 K；4% PEG 8000, 4% MPD, 3.8 mM MgCl2, 380 mM NH4Cl, 5.5 mM putrescine, 5 mM spermidine, pH 7.0, microbatch, temperature 291K
|
Resolution 3.81 Å R-free 0.253 |
| 4V6E Crystal structure of the E. coli 70S ribosome in an intermediate state of ratcheting Deposited 2009-06-28 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 55-meric |
Chain AH
1–130（130 aa）
|
Not recorded | MG MAGNESIUM ION × 184 ZN ZINC ION × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
MICROBATCH；pH 7；291 K；4% PEG 8000, 4% MPD, 3.8 mM MgCl2, 380 mM NH4Cl, 5.5 mM putrescine, 5 mM spermidine, pH 7.0, microbatch, temperature 291K
|
Resolution 3.71 Å R-free 0.268 |
| 4V6E Crystal structure of the E. coli 70S ribosome in an intermediate state of ratcheting Deposited 2009-06-28 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 49 PDB declaration: 55-meric |
Chain CH
1–130（130 aa）
|
Not recorded | MG MAGNESIUM ION × 179 ZN ZINC ION × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
MICROBATCH；pH 7；291 K；4% PEG 8000, 4% MPD, 3.8 mM MgCl2, 380 mM NH4Cl, 5.5 mM putrescine, 5 mM spermidine, pH 7.0, microbatch, temperature 291K
|
Resolution 3.71 Å R-free 0.268 |
| 4V6K Structural insights into cognate vs. near-cognate discrimination during decoding. Deposited 2011-01-07 | 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: 58-meric |
Chain BL
1–130（130 aa）
|
Not recorded | No recorded non-water small molecule |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen NITROGEN
|
Resolution 8.25 Å |
| 4V6L Structural insights into cognate vs. near-cognate discrimination during decoding. Deposited 2011-01-07 | 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: 58-meric |
Chain AL
1–130（130 aa）
|
Not recorded | No recorded non-water small molecule |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen NITROGEN
|
Resolution 13.20 Å |
| 4V6M Structure of the ribosome-SecYE complex in the membrane environment Deposited 2011-02-08 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 55 PDB declaration: 60-meric |
Chain AH
2–130（129 aa）
|
Not recorded | PEV (1S)-2-{[(2-AMINOETHOXY)(HYDROXY)PHOSPHORYL]OXY}-1-[(PALMITOYLOXY)METHYL]ETHYL STEARATE × 101 PGV (1R)-2-{[{[(2S)-2,3-DIHYDROXYPROPYL]OXY}(HYDROXY)PHOSPHORYL]OXY}-1-[(PALMITOYLOXY)METHYL]ETHYL (11E)-OCTADEC-11-ENOATE × 32 |
ELECTRON MICROSCOPY
cryo-EM buffer
20 mM Hepes (pH 7.2), 100 mM KOAc, 10 mM Mg(OAc)2, 1 mM DTT, 250 microg/ml chloramphenicol；pH 7.2；20 mM Hepes (pH 7.2), 100 mM KOAc, 10 mM Mg(OAc)2, 1 mM DTT, 250 microg/ml chloramphenicol
cryo-EM vitrification conditions
Cryogen ETHANE；liquid ethane was used as a cryogen
|
Resolution 7.10 Å |
| 4V6N Structural characterization of mRNA-tRNA translocation intermediates (50S ribosome of class2 of the six classes) Deposited 2011-12-07 | 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 BK
1–129（129 aa）
|
Not recorded | FME N-FORMYLMETHIONINE × 1 TRP TRYPTOPHAN × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
HiFi buffer (50 mM Tris-HCl, pH 7.5, 70mM NH4Cl, 30 mM KCl, 3.5 mM MgCl2, 0.5 mM spermidine, 8mM putrescine, 2 mM DTT, 3.5 mM MgCl2)；pH 7.5；HiFi buffer (50 mM Tris-HCl, pH 7.5, 70mM NH4Cl, 30 mM KCl, 3.5 mM MgCl2, 0.5 mM spermidine, 8mM putrescine, 2 mM DTT, 3.5 mM MgCl2)
cryo-EM vitrification conditions
blot for 3 seconds；80 K；Cryogen NITROGEN；Blot for 3 seconds, plunge into liquid nitrogen (Vitrobot)
|
Resolution 12.10 Å |
| 4V6O Structural characterization of mRNA-tRNA translocation intermediates (class 4a of the six classes) Deposited 2011-12-07 | 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 AK
1–129（129 aa）
|
Not recorded | TRP TRYPTOPHAN × 1 FME N-FORMYLMETHIONINE × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
HiFi buffer (50 mM Tris-HCl, pH 7.5, 70mM NH4Cl, 30 mM KCl, 3.5 mM MgCl2, 0.5 mM spermidine, 8mM putrescine, 2 mM DTT, 3.5 mM MgCl2)；pH 7.5；HiFi buffer (50 mM Tris-HCl, pH 7.5, 70mM NH4Cl, 30 mM KCl, 3.5 mM MgCl2, 0.5 mM spermidine, 8mM putrescine, 2 mM DTT, 3.5 mM MgCl2)
cryo-EM vitrification conditions
blot for 3 seconds；80 K；Cryogen NITROGEN；Blot for 3 seconds, plunge into liquid nitrogen (Vitrobot)
|
Resolution 14.70 Å |
| 4V6P Structural characterization of mRNA-tRNA translocation intermediates (class 4b of the six classes) Deposited 2011-12-08 | 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 AK
1–129（129 aa）
|
Not recorded | TRP TRYPTOPHAN × 1 FME N-FORMYLMETHIONINE × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
HiFi buffer (50 mM Tris-HCl, pH 7.5, 70mM NH4Cl, 30 mM KCl, 3.5 mM MgCl2, 0.5 mM spermidine, 8mM putrescine, 2 mM DTT, 3.5 mM MgCl2)；pH 7.5；HiFi buffer (50 mM Tris-HCl, pH 7.5, 70mM NH4Cl, 30 mM KCl, 3.5 mM MgCl2, 0.5 mM spermidine, 8mM putrescine, 2 mM DTT, 3.5 mM MgCl2)
cryo-EM vitrification conditions
blot for 6 seconds；80 K；Cryogen NITROGEN；Blot for 6 seconds, plunge into liquid nitrogen (Vitrobot)
|
Resolution 13.50 Å |
| 4V6Q Structural characterization of mRNA-tRNA translocation intermediates (class 5 of the six classes) Deposited 2011-12-08 | 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 AK
1–129（129 aa）
|
Not recorded | TRP TRYPTOPHAN × 1 FME N-FORMYLMETHIONINE × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
HiFi buffer (50 mM Tris-HCl, pH 7.5, 70mM NH4Cl, 30 mM KCl, 3.5 mM MgCl2, 0.5 mM spermidine, 8mM putrescine, 2 mM DTT, 3.5 mM MgCl2)；pH 7.5；HiFi buffer (50 mM Tris-HCl, pH 7.5, 70mM NH4Cl, 30 mM KCl, 3.5 mM MgCl2, 0.5 mM spermidine, 8mM putrescine, 2 mM DTT, 3.5 mM MgCl2)
cryo-EM vitrification conditions
blot for 3 seconds；80 K；Cryogen NITROGEN；Blot for 3 seconds, plunge into liquid nitrogen (Vitrobot)
|
Resolution 11.50 Å |
| 4V6R Structural characterization of mRNA-tRNA translocation intermediates (class 6 of the six classes) Deposited 2011-12-08 | 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 AK
1–129（129 aa）
|
Not recorded | TRP TRYPTOPHAN × 1 FME N-FORMYLMETHIONINE × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
HiFi buffer (50 mM Tris-HCl, pH 7.5, 70mM NH4Cl, 30 mM KCl, 3.5 mM MgCl2, 0.5 mM spermidine, 8mM putrescine, 2 mM DTT, 3.5 mM MgCl2)；pH 7.5；HiFi buffer (50 mM Tris-HCl, pH 7.5, 70mM NH4Cl, 30 mM KCl, 3.5 mM MgCl2, 0.5 mM spermidine, 8mM putrescine, 2 mM DTT, 3.5 mM MgCl2)
cryo-EM vitrification conditions
blot for 3 seconds；80 K；Cryogen NITROGEN；Blot for 3 seconds, plunge into liquid nitrogen (Vitrobot)
|
Resolution 11.50 Å |
| 4V6S Structural characterization of mRNA-tRNA translocation intermediates (class 3 of the six classes) Deposited 2011-12-09 | 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 BJ
1–129（129 aa）
|
Not recorded | No recorded non-water small molecule |
ELECTRON MICROSCOPY
cryo-EM buffer
HiFi buffer (50 mM Tris-HCl, pH 7.5, 70mM NH4Cl, 30 mM KCl, 3.5 mM MgCl2, 0.5 mM spermidine, 8mM putrescine, 2 mM DTT, 3.5 mM MgCl2)；pH 7.5；HiFi buffer (50 mM Tris-HCl, pH 7.5, 70mM NH4Cl, 30 mM KCl, 3.5 mM MgCl2, 0.5 mM spermidine, 8mM putrescine, 2 mM DTT, 3.5 mM MgCl2)
cryo-EM vitrification conditions
blot for 3 seconds；80 K；Cryogen NITROGEN；Blot for 3 seconds, plunge into liquid nitrogen (Vitrobot)
|
Resolution 13.10 Å |
| 4V6T Structure of the bacterial ribosome complexed by tmRNA-SmpB and EF-G during translocation and MLD-loading 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 × 51 PDB declaration: 56-meric |
Chain AH
2–130（129 aa）
|
Not recorded | No recorded non-water small molecule |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.6
cryo-EM vitrification conditions
blot for 5-10 seconds before plunging；96.15 K；Cryogen ETHANE；blot for 5-10 seconds before plunging into liquid ethane (FEI Vitrobot)
|
Resolution 8.30 Å |
| 4V6Y E. coli 70S-fMetVal-tRNAVal-tRNAfMet complex in classic pre-translocation state (pre1a) Deposited 2013-10-14 | 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 AH
1–130（130 aa）
|
Not recorded | VAL VALINE × 1 FME N-FORMYLMETHIONINE × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
50 mM Tris-HCl, 70 mM NH4Cl, 30 mM KCl, 7 mM MgCl2, 0.6 mM spermine, 0.4 mM spermidine；pH 7.5；50 mM Tris-HCl, 70 mM NH4Cl, 30 mM KCl, 7 mM MgCl2, 0.6 mM spermine, 0.4 mM spermidine
cryo-EM vitrification conditions
Manual blotting for about 2 seconds；Cryogen ETHANE；Manual blotting for about 2 seconds prior to plunging into liquid ethane (custom-built CEVS vitrification instrument with dew point temperature adjusted to 18 degrees C)
|
Resolution 12.00 Å |
| 4V6Z E. coli 70S-fMetVal-tRNAVal-tRNAfMet complex in classic pre-translocation state (pre1b) Deposited 2013-10-14 | 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 AH
1–130（130 aa）
|
Not recorded | VAL VALINE × 1 FME N-FORMYLMETHIONINE × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 12.00 Å |
| 4V70 E. coli 70S-fMetVal-tRNAVal-tRNAfMet complex in intermediate pre-translocation state (pre3) Deposited 2013-10-14 | 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 AH
1–130（130 aa）
|
Not recorded | VAL VALINE × 1 FME N-FORMYLMETHIONINE × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
50 mM Tris-HCl, 70 mM NH4Cl, 30 mM KCl, 7 mM MgCl2, 0.6 mM spermine, 0.4 mM spermidine；pH 7.5；50 mM Tris-HCl, 70 mM NH4Cl, 30 mM KCl, 7 mM MgCl2, 0.6 mM spermine, 0.4 mM spermidine
cryo-EM vitrification conditions
Manual blotting for about 2 seconds；Cryogen ETHANE；Manual blotting for about 2 seconds prior to plunging into liquid ethane (custom-built CEVS vitrification instrument with dew point temperature adjusted to 18 degrees C)
|
Resolution 17.00 Å |
| 4V71 E. coli 70S-fMetVal-tRNAVal-tRNAfMet complex in intermediate pre-translocation state (pre2) Deposited 2013-10-14 | 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 AH
1–130（130 aa）
|
Not recorded | VAL VALINE × 1 FME N-FORMYLMETHIONINE × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
50 mM Tris-HCl, 70 mM NH4Cl, 30 mM KCl, 7 mM MgCl2, 0.6 mM spermine, 0.4 mM spermidine；pH 7.5；50 mM Tris-HCl, 70 mM NH4Cl, 30 mM KCl, 7 mM MgCl2, 0.6 mM spermine, 0.4 mM spermidine
cryo-EM vitrification conditions
Manual blotting for about 2 seconds；Cryogen ETHANE；Manual blotting for about 2 seconds prior to plunging into liquid ethane (custom-built CEVS vitrification instrument with dew point temperature adjusted to 18 degrees C)
|
Resolution 20.00 Å |
| 4V72 E. coli 70S-fMetVal-tRNAVal-tRNAfMet complex in hybrid pre-translocation state (pre4) Deposited 2013-10-14 | 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 AH
1–130（130 aa）
|
Not recorded | VAL VALINE × 1 FME N-FORMYLMETHIONINE × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
50 mM Tris-HCl, 70 mM NH4Cl, 30 mM KCl, 7 mM MgCl2, 0.6 mM spermine, 0.4 mM spermidine；pH 7.5；50 mM Tris-HCl, 70 mM NH4Cl, 30 mM KCl, 7 mM MgCl2, 0.6 mM spermine, 0.4 mM spermidine
cryo-EM vitrification conditions
Manual blotting for about 2 seconds；Cryogen ETHANE；Manual blotting for about 2 seconds prior to plunging into liquid ethane (custom-built CEVS vitrification instrument with dew point temperature adjusted to 18 degrees C)
|
Resolution 13.00 Å |
| 4V73 E. coli 70S-fMetVal-tRNAVal-tRNAfMet complex in hybrid pre-translocation state (pre5a) Deposited 2013-10-14 | 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 AH
1–130（130 aa）
|
Not recorded | VAL VALINE × 1 FME N-FORMYLMETHIONINE × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 15.00 Å |
| 4V74 70S-fMetVal-tRNAVal-tRNAfMet complex in hybrid pre-translocation state (pre5b) Deposited 2013-10-14 | 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 AH
1–130（130 aa）
|
Not recorded | VAL VALINE × 1 FME N-FORMYLMETHIONINE × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
50 mM Tris-HCl, 70 mM NH4Cl, 30 mM KCl, 7 mM MgCl2, 0.6 mM spermine, 0.4 mM spermidine；pH 7.5；50 mM Tris-HCl, 70 mM NH4Cl, 30 mM KCl, 7 mM MgCl2, 0.6 mM spermine, 0.4 mM spermidine
cryo-EM vitrification conditions
Manual blotting for about 2 seconds；Cryogen ETHANE；Manual blotting for about 2 seconds prior to plunging into liquid ethane (custom-built CEVS vitrification instrument with dew point temperature adjusted to 18 degrees C)
|
Resolution 17.00 Å |
| 4V75 E. coli 70S-fMetVal-tRNAVal-tRNAfMet complex in classic post-translocation state (post1) Deposited 2013-10-14 | 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 AH
1–130（130 aa）
|
Not recorded | VAL VALINE × 1 FME N-FORMYLMETHIONINE × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
50 mM Tris-HCl, 70 mM NH4Cl, 30 mM KCl, 7 mM MgCl2, 0.6 mM spermine, 0.4 mM spermidine；pH 7.5；50 mM Tris-HCl, 70 mM NH4Cl, 30 mM KCl, 7 mM MgCl2, 0.6 mM spermine, 0.4 mM spermidine
cryo-EM vitrification conditions
Manual blotting for about 2 seconds；Cryogen ETHANE；Manual blotting for about 2 seconds prior to plunging into liquid ethane (custom-built CEVS vitrification instrument with dew point temperature adjusted to 18 degrees C)
|
Resolution 12.00 Å |
| 4V76 E. coli 70S-fMetVal-tRNAVal-tRNAfMet complex in intermediate post-translocation state (post2a) Deposited 2013-10-14 | 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 AH
1–130（130 aa）
|
Not recorded | VAL VALINE × 1 FME N-FORMYLMETHIONINE × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
50 mM Tris-HCl, 70 mM NH4Cl, 30 mM KCl, 7 mM MgCl2, 0.6 mM spermine, 0.4 mM spermidine；pH 7.5；50 mM Tris-HCl, 70 mM NH4Cl, 30 mM KCl, 7 mM MgCl2, 0.6 mM spermine, 0.4 mM spermidine
cryo-EM vitrification conditions
Manual blotting for about 2 seconds；Cryogen ETHANE；Manual blotting for about 2 seconds prior to plunging into liquid ethane (custom-built CEVS vitrification instrument with dew point temperature adjusted to 18 degrees C)
|
Resolution 17.00 Å |
| 4V77 E. coli 70S-fMetVal-tRNAVal-tRNAfMet complex in intermediate post-translocation state (post2b) Deposited 2013-10-14 | 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 AH
1–130（130 aa）
|
Not recorded | VAL VALINE × 1 FME N-FORMYLMETHIONINE × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 17.00 Å |
| 4V78 E. coli 70S-fMetVal-tRNAVal-tRNAfMet complex in intermediate post-translocation state (post3a) Deposited 2013-10-14 | 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 AH
1–130（130 aa）
|
Not recorded | VAL VALINE × 1 FME N-FORMYLMETHIONINE × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 20.00 Å |
| 4V79 E. coli 70S-fMetVal-tRNAVal-tRNAfMet complex in intermediate post-translocation state (post3b) Deposited 2013-10-14 | 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 AH
1–130（130 aa）
|
Not recorded | VAL VALINE × 1 FME N-FORMYLMETHIONINE × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
50 mM Tris-HCl, 70 mM NH4Cl, 30 mM KCl, 7 mM MgCl2, 0.6 mM spermine, 0.4 mM spermidine；pH 7.5；50 mM Tris-HCl, 70 mM NH4Cl, 30 mM KCl, 7 mM MgCl2, 0.6 mM spermine, 0.4 mM spermidine
cryo-EM vitrification conditions
Manual blotting for about 2 seconds；Cryogen ETHANE；Manual blotting for about 2 seconds prior to plunging into liquid ethane (custom-built CEVS vitrification instrument with dew point temperature adjusted to 18 degrees C)
|
Resolution 15.00 Å |
| 4V7A E. coli 70S-fMetVal-tRNAVal post-translocation complex (post4) Deposited 2013-10-14 | 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: 55-meric |
Chain AH
1–130（130 aa）
|
Not recorded | VAL VALINE × 1 FME N-FORMYLMETHIONINE × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
50 mM Tris-HCl, 70 mM NH4Cl, 30 mM KCl, 7 mM MgCl2, 0.6 mM spermine, 0.4 mM spermidine；pH 7.5；50 mM Tris-HCl, 70 mM NH4Cl, 30 mM KCl, 7 mM MgCl2, 0.6 mM spermine, 0.4 mM spermidine
cryo-EM vitrification conditions
Manual blotting for about 2 seconds；Cryogen ETHANE；Manual blotting for about 2 seconds prior to plunging into liquid ethane (custom-built CEVS vitrification instrument with dew point temperature adjusted to 18 degrees C)
|
Resolution 9.00 Å |
| 4V7B Visualization of two tRNAs trapped in transit during EF-G-mediated translocation Deposited 2013-10-27 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 52 PDB declaration: 58-meric |
Chain AH
1–130（130 aa）
|
Not recorded | FUA FUSIDIC ACID × 1 GDP GUANOSINE-5'-DIPHOSPHATE × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
80 mM HEPES potassium, 75 mM NH4Cl, 10 mM MgCl2, 6 mM BME；pH 7.6；80 mM HEPES potassium, 75 mM NH4Cl, 10 mM MgCl2, 6 mM BME
cryo-EM vitrification conditions
blot for 5-10 seconds before plunging；96 K；Cryogen ETHANE；Blot for 5-10 seconds before plunging into liquid ethane (FEI VITROBOT MARK I)
|
Resolution 6.80 Å |
| 4V7C Structure of the Ribosome with Elongation Factor G Trapped in the Pre-Translocation State (pre-translocation 70S*tRNA structure) Deposited 2013-11-20 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 52 PDB declaration: 58-meric |
Chain AH
2–130（129 aa）
|
Not recorded | ZN ZINC ION × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
Polymix buffer；pH 7.6；10 mM HEPES-KOH, 5 mM MgCl2, 90 mM NH4Cl, 2 mM spermidine, 0.1 mM spermine, 6 mM BME, 0.5 mM viomycin, 0.5 mM GTP, 0.5 mM fusidic acid
cryo-EM vitrification conditions
Freshly glow-disharged grids were loaded into an FEI Mark II Vitrobot and equilibrated to 95% relative humidity at 22 degrees Celsius. 2 microliters of sample was applied through the side port, blotted for 7 seconds with a positional offset of 2, and plunged into liquid ethane.；Cryogen ETHANE；Freshly glow-disharged grids were loaded into an FEI Mark II Vitrobot and equilibrated to 95% relative humidity at 22 degrees Celsius. 2 microliters of sample was applied through the side port, blotted for 7 seconds with a positional offset of 2, and plunged into liquid ethane.
|
Resolution 7.60 Å |
| 4V7D Structure of the Ribosome with Elongation Factor G Trapped in the Pre-Translocation State (pre-translocation 70S*tRNA*EF-G structure) Deposited 2013-11-21 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 54 PDB declaration: 60-meric |
Chain BH
2–130（129 aa）
|
Not recorded | ZN ZINC ION × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
Polymix buffer；pH 7.6；10 mM HEPES-KOH, 5 mM MgCl2, 90 mM NH4Cl, 2 mM spermidine, 0.1 mM spermine, 6 mM BME, 0.5 mM viomycin, 0.5 mM GTP, 0.5 mM fusidic acid
cryo-EM vitrification conditions
Freshly glow-disharged grids were loaded into an FEI Mark II Vitrobot and equilibrated to 95% relative humidity at 22 degrees Celsius. 2 microliters of sample was applied through the side port, blotted for 7 seconds with a positional offset of 2, and plunged into liquid ethane.；Cryogen ETHANE；Freshly glow-disharged grids were loaded into an FEI Mark II Vitrobot and equilibrated to 95% relative humidity at 22 degrees Celsius. 2 microliters of sample was applied through the side port, blotted for 7 seconds with a positional offset of 2, and plunged into liquid ethane.
|
Resolution 7.60 Å |
| 4V7I Ribosome-SecY complex. Deposited 2009-10-21 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 53 PDB declaration: 56-meric |
Chain BH
1–130（130 aa）
|
Not recorded | No recorded non-water small molecule |
ELECTRON MICROSCOPY
cryo-EM buffer
50 MM HEPES- KOH PH 7.5, 100 MM KOAC, 10 MM MG(OAC)2, 0.05% DDM；pH 7.5；50 MM HEPES- KOH PH 7.5, 100 MM KOAC, 10 MM MG(OAC)2, 0.05% DDM
cryo-EM vitrification conditions
Cryogen ETHANE；THE SPECIMENS WERE PLUNGE FROZEN IN LIQUID ETHANE AT 4 DEGREES C AT AN RH OF ~90-95%.
|
Resolution 9.60 Å |
| 4V7S Crystal structure of the E. coli ribosome bound to telithromycin. Deposited 2010-08-05 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 52-meric |
Chain AH
2–130（129 aa）
|
Not recorded | MG MAGNESIUM ION × 181 TEL TELITHROMYCIN × 1 ZN ZINC ION × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
MICROBATCH；pH 6.5；291 K；PEG8k, MPD, pH 6.5, microbatch, temperature 291K
|
Resolution 3.25 Å R-free 0.245 |
| 4V7S Crystal structure of the E. coli ribosome bound to telithromycin. Deposited 2010-08-05 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 49 PDB declaration: 52-meric |
Chain CH
2–130（129 aa）
|
Not recorded | MG MAGNESIUM ION × 179 ZN ZINC ION × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
MICROBATCH；pH 6.5；291 K；PEG8k, MPD, pH 6.5, microbatch, temperature 291K
|
Resolution 3.25 Å R-free 0.245 |
| 4V7T Crystal structure of the E. coli ribosome bound to chloramphenicol. Deposited 2010-08-14 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 52-meric |
Chain AH
2–130（129 aa）
|
Not recorded | MG MAGNESIUM ION × 183 CLM CHLORAMPHENICOL × 1 ZN ZINC ION × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
MICROBATCH；pH 6.5；291 K；PEG8k, MPD, pH 6.5, microbatch, temperature 291K
|
Resolution 3.19 Å R-free 0.252 |
| 4V7T Crystal structure of the E. coli ribosome bound to chloramphenicol. Deposited 2010-08-14 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 49 PDB declaration: 52-meric |
Chain CH
2–130（129 aa）
|
Not recorded | MG MAGNESIUM ION × 179 ZN ZINC ION × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
MICROBATCH；pH 6.5；291 K；PEG8k, MPD, pH 6.5, microbatch, temperature 291K
|
Resolution 3.19 Å R-free 0.252 |
| 4V7U Crystal structure of the E. coli ribosome bound to erythromycin. Deposited 2010-08-15 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 52-meric |
Chain AH
2–130（129 aa）
|
Not recorded | MG MAGNESIUM ION × 182 ERY ERYTHROMYCIN A × 1 ZN ZINC ION × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
MICROBATCH；pH 6.5；291 K；4.3% PEG 8000, 4.9% MPD, 3.8 mM MgCl2, 380 mM NH4Cl, 5.5 mM putrescine, 5 mM spermidine, 10 mM Tris, 20 mM MES pH 6.5. 0.25 mM EDTA, microbatch, temperature 291K
|
Resolution 3.10 Å R-free 0.254 |
| 4V7U Crystal structure of the E. coli ribosome bound to erythromycin. Deposited 2010-08-15 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 49 PDB declaration: 52-meric |
Chain CH
2–130（129 aa）
|
Not recorded | MG MAGNESIUM ION × 179 ZN ZINC ION × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
MICROBATCH；pH 6.5；291 K；4.3% PEG 8000, 4.9% MPD, 3.8 mM MgCl2, 380 mM NH4Cl, 5.5 mM putrescine, 5 mM spermidine, 10 mM Tris, 20 mM MES pH 6.5. 0.25 mM EDTA, microbatch, temperature 291K
|
Resolution 3.10 Å R-free 0.254 |
| 4V7V Crystal structure of the E. coli ribosome bound to clindamycin. Deposited 2010-08-16 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 52-meric |
Chain AH
2–130（129 aa）
|
Not recorded | MG MAGNESIUM ION × 182 CLY CLINDAMYCIN × 1 ZN ZINC ION × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
MICROBATCH；291 K；4.3% PEG 8000, 4.9% MPD, 10 mM Tris, 20 mM MES, pH 6.5-7.0, 3.8 mM MgCl2, 380 mM NH4Cl, 5.5 mM putrescine, 5 mM spermidine, 0.25 mM EDTA, microbatch, temperature 291K
|
Resolution 3.29 Å R-free 0.241 |
| 4V7V Crystal structure of the E. coli ribosome bound to clindamycin. Deposited 2010-08-16 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 49 PDB declaration: 52-meric |
Chain CH
2–130（129 aa）
|
Not recorded | MG MAGNESIUM ION × 179 ZN ZINC ION × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
MICROBATCH；291 K；4.3% PEG 8000, 4.9% MPD, 10 mM Tris, 20 mM MES, pH 6.5-7.0, 3.8 mM MgCl2, 380 mM NH4Cl, 5.5 mM putrescine, 5 mM spermidine, 0.25 mM EDTA, microbatch, temperature 291K
|
Resolution 3.29 Å R-free 0.241 |
| 4V89 Crystal Structure of Release Factor RF3 Trapped in the GTP State on a Rotated Conformation of the Ribosome (without viomycin) Deposited 2011-11-17 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 54 PDB declaration: 58-meric |
Chain AH
1–130（130 aa）
|
Not recorded | GNP PHOSPHOAMINOPHOSPHONIC ACID-GUANYLATE ESTER × 1 MG MAGNESIUM ION × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；pH 7；295 K；Tris Ac PH.7.0 25-35 mM KCL 6.1% PEG 20000 %1 glycerol 50mM sucrose
, VAPOR DIFFUSION, SITTING DROP, temperature 295K
|
Resolution 3.70 Å R-free 0.290 |
| 4V9C Allosteric control of the ribosome by small-molecule antibiotics Deposited 2012-07-25 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 54-meric |
Chain AH
1–130（130 aa）
|
Not recorded | MG MAGNESIUM ION × 224 NMY NEOMYCIN × 10 ZN ZINC ION × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
pH 6.5；291 K；PEG800, MPD, pH 6.5, microbatch, temperature 291K
|
Resolution 3.30 Å R-free 0.255 |
| 4V9C Allosteric control of the ribosome by small-molecule antibiotics Deposited 2012-07-25 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 50 PDB declaration: 55-meric |
Chain CH
1–130（130 aa）
|
Not recorded | MG MAGNESIUM ION × 266 NMY NEOMYCIN × 8 ZN ZINC ION × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
pH 6.5；291 K；PEG800, MPD, pH 6.5, microbatch, temperature 291K
|
Resolution 3.30 Å R-free 0.255 |
| 4V9D Structures of the bacterial ribosome in classical and hybrid states of tRNA binding Deposited 2012-07-31 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 55-meric |
Chain AH
2–130（129 aa）
|
Not recorded | MG MAGNESIUM ION × 271 ZN ZINC ION × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
MICROBATCH；pH 6.5；291 K；PEG8000, MPD, pH 6.5, microbatch, temperature 291K
X-ray crystallization conditions
MICROBATCH；pH 6.5；291 K；PEG8000, MPD, pH 6.5, microbatch, temperature 291K
X-ray crystallization conditions
MICROBATCH；pH 6.5；291 K；PEG8000, MPD, pH 6.5, microbatch, temperature 291K
X-ray crystallization conditions
MICROBATCH；pH 6.5；291 K；PEG8000, MPD, pH 6.5, microbatch, temperature 291K
X-ray crystallization conditions
MICROBATCH；pH 6.5；291 K；PEG8000, MPD, pH 6.5, microbatch, temperature 291K
|
Resolution 3.00 Å R-free 0.260 |
| 4V9D Structures of the bacterial ribosome in classical and hybrid states of tRNA binding Deposited 2012-07-31 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 49 PDB declaration: 54-meric |
Chain BH
2–130（129 aa）
|
Not recorded | MG MAGNESIUM ION × 227 ZN ZINC ION × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
MICROBATCH；pH 6.5；291 K；PEG8000, MPD, pH 6.5, microbatch, temperature 291K
X-ray crystallization conditions
MICROBATCH；pH 6.5；291 K；PEG8000, MPD, pH 6.5, microbatch, temperature 291K
X-ray crystallization conditions
MICROBATCH；pH 6.5；291 K；PEG8000, MPD, pH 6.5, microbatch, temperature 291K
X-ray crystallization conditions
MICROBATCH；pH 6.5；291 K；PEG8000, MPD, pH 6.5, microbatch, temperature 291K
X-ray crystallization conditions
MICROBATCH；pH 6.5；291 K；PEG8000, MPD, pH 6.5, microbatch, temperature 291K
|
Resolution 3.00 Å R-free 0.260 |
| 4V9O Control of ribosomal subunit rotation by elongation factor G Deposited 2013-05-03 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 53 PDB declaration: 56-meric |
Chain BH
1–130（130 aa）
|
Not recorded | MG MAGNESIUM ION × 187 ZN ZINC ION × 1 GCP PHOSPHOMETHYLPHOSPHONIC ACID GUANYLATE ESTER × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
MICROBATCH；pH 6.5；291 K；PEG8k, MPD, KSCN, pH 6.5, microbatch, temperature 291K
X-ray crystallization conditions
MICROBATCH；pH 6.5；291 K；PEG8k, MPD, KSCN, pH 6.5, microbatch, temperature 291K
X-ray crystallization conditions
MICROBATCH；pH 6.5；291 K；PEG8k, MPD, KSCN, pH 6.5, microbatch, temperature 291K
X-ray crystallization conditions
MICROBATCH；pH 6.5；291 K；PEG8k, KSCN, pH 6.5, microbatch, temperature 291K
X-ray crystallization conditions
MICROBATCH；pH 6.5；291 K；PEG8k, KSCN, pH 6.5, microbatch, temperature 291K
|
Resolution 2.90 Å R-free 0.272 |
| 4V9O Control of ribosomal subunit rotation by elongation factor G Deposited 2013-05-03 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 52 PDB declaration: 55-meric |
Chain DH
1–130（130 aa）
|
Not recorded | MG MAGNESIUM ION × 187 ZN ZINC ION × 1 GCP PHOSPHOMETHYLPHOSPHONIC ACID GUANYLATE ESTER × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
MICROBATCH；pH 6.5；291 K；PEG8k, MPD, KSCN, pH 6.5, microbatch, temperature 291K
X-ray crystallization conditions
MICROBATCH；pH 6.5；291 K；PEG8k, MPD, KSCN, pH 6.5, microbatch, temperature 291K
X-ray crystallization conditions
MICROBATCH；pH 6.5；291 K；PEG8k, MPD, KSCN, pH 6.5, microbatch, temperature 291K
X-ray crystallization conditions
MICROBATCH；pH 6.5；291 K；PEG8k, KSCN, pH 6.5, microbatch, temperature 291K
X-ray crystallization conditions
MICROBATCH；pH 6.5；291 K；PEG8k, KSCN, pH 6.5, microbatch, temperature 291K
|
Resolution 2.90 Å R-free 0.272 |
| 4V9O Control of ribosomal subunit rotation by elongation factor G Deposited 2013-05-03 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 3 Protein–RNA Heteromer；Protein × 52 PDB declaration: 55-meric |
Chain FH
1–130（130 aa）
|
Not recorded | MG MAGNESIUM ION × 187 ZN ZINC ION × 1 GCP PHOSPHOMETHYLPHOSPHONIC ACID GUANYLATE ESTER × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
MICROBATCH；pH 6.5；291 K；PEG8k, MPD, KSCN, pH 6.5, microbatch, temperature 291K
X-ray crystallization conditions
MICROBATCH；pH 6.5；291 K；PEG8k, MPD, KSCN, pH 6.5, microbatch, temperature 291K
X-ray crystallization conditions
MICROBATCH；pH 6.5；291 K；PEG8k, MPD, KSCN, pH 6.5, microbatch, temperature 291K
X-ray crystallization conditions
MICROBATCH；pH 6.5；291 K；PEG8k, KSCN, pH 6.5, microbatch, temperature 291K
X-ray crystallization conditions
MICROBATCH；pH 6.5；291 K；PEG8k, KSCN, pH 6.5, microbatch, temperature 291K
|
Resolution 2.90 Å R-free 0.272 |
| 4V9O Control of ribosomal subunit rotation by elongation factor G Deposited 2013-05-03 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 4 Protein–RNA Heteromer；Protein × 51 PDB declaration: 54-meric |
Chain HH
1–130（130 aa）
|
Not recorded | MG MAGNESIUM ION × 187 ZN ZINC ION × 1 GCP PHOSPHOMETHYLPHOSPHONIC ACID GUANYLATE ESTER × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
MICROBATCH；pH 6.5；291 K；PEG8k, MPD, KSCN, pH 6.5, microbatch, temperature 291K
X-ray crystallization conditions
MICROBATCH；pH 6.5；291 K；PEG8k, MPD, KSCN, pH 6.5, microbatch, temperature 291K
X-ray crystallization conditions
MICROBATCH；pH 6.5；291 K；PEG8k, MPD, KSCN, pH 6.5, microbatch, temperature 291K
X-ray crystallization conditions
MICROBATCH；pH 6.5；291 K；PEG8k, KSCN, pH 6.5, microbatch, temperature 291K
X-ray crystallization conditions
MICROBATCH；pH 6.5；291 K；PEG8k, KSCN, pH 6.5, microbatch, temperature 291K
|
Resolution 2.90 Å R-free 0.272 |
| 4V9P Control of ribosomal subunit rotation by elongation factor G Deposited 2013-05-03 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 52 PDB declaration: 55-meric |
Chain BH
1–130（130 aa）
|
Not recorded | MG MAGNESIUM ION × 185 ZN ZINC ION × 1 GCP PHOSPHOMETHYLPHOSPHONIC ACID GUANYLATE ESTER × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
MICROBATCH；pH 6.5；291 K；PEG8k, MPD, KSCN, pH 6.5, microbatch, temperature 291K
X-ray crystallization conditions
MICROBATCH；pH 6.5；291 K；PEG8k, MPD, KSCN, pH 6.5, microbatch, temperature 291K
X-ray crystallization conditions
MICROBATCH；pH 6.5；291 K；PEG8k, MPD, KSCN, pH 6.5, microbatch, temperature 291K
X-ray crystallization conditions
MICROBATCH；pH 6.5；291 K；PEG8k, KSCN, pH 6.5, microbatch, temperature 291K
X-ray crystallization conditions
MICROBATCH；pH 6.5；291 K；PEG8k, KSCN, pH 6.5, microbatch, temperature 291K
|
Resolution 2.90 Å R-free 0.267 |
| 4V9P Control of ribosomal subunit rotation by elongation factor G Deposited 2013-05-03 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 51 PDB declaration: 54-meric |
Chain DH
1–130（130 aa）
|
Not recorded | MG MAGNESIUM ION × 185 ZN ZINC ION × 1 GCP PHOSPHOMETHYLPHOSPHONIC ACID GUANYLATE ESTER × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
MICROBATCH；pH 6.5；291 K；PEG8k, MPD, KSCN, pH 6.5, microbatch, temperature 291K
X-ray crystallization conditions
MICROBATCH；pH 6.5；291 K；PEG8k, MPD, KSCN, pH 6.5, microbatch, temperature 291K
X-ray crystallization conditions
MICROBATCH；pH 6.5；291 K；PEG8k, MPD, KSCN, pH 6.5, microbatch, temperature 291K
X-ray crystallization conditions
MICROBATCH；pH 6.5；291 K；PEG8k, KSCN, pH 6.5, microbatch, temperature 291K
X-ray crystallization conditions
MICROBATCH；pH 6.5；291 K；PEG8k, KSCN, pH 6.5, microbatch, temperature 291K
|
Resolution 2.90 Å R-free 0.267 |
| 4V9P Control of ribosomal subunit rotation by elongation factor G Deposited 2013-05-03 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 3 Protein–RNA Heteromer；Protein × 52 PDB declaration: 55-meric |
Chain FH
1–130（130 aa）
|
Not recorded | MG MAGNESIUM ION × 185 ZN ZINC ION × 1 GCP PHOSPHOMETHYLPHOSPHONIC ACID GUANYLATE ESTER × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
MICROBATCH；pH 6.5；291 K；PEG8k, MPD, KSCN, pH 6.5, microbatch, temperature 291K
X-ray crystallization conditions
MICROBATCH；pH 6.5；291 K；PEG8k, MPD, KSCN, pH 6.5, microbatch, temperature 291K
X-ray crystallization conditions
MICROBATCH；pH 6.5；291 K；PEG8k, MPD, KSCN, pH 6.5, microbatch, temperature 291K
X-ray crystallization conditions
MICROBATCH；pH 6.5；291 K；PEG8k, KSCN, pH 6.5, microbatch, temperature 291K
X-ray crystallization conditions
MICROBATCH；pH 6.5；291 K；PEG8k, KSCN, pH 6.5, microbatch, temperature 291K
|
Resolution 2.90 Å R-free 0.267 |
| 4V9P Control of ribosomal subunit rotation by elongation factor G Deposited 2013-05-03 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 4 Protein–RNA Heteromer；Protein × 50 PDB declaration: 53-meric |
Chain HH
1–130（130 aa）
|
Not recorded | MG MAGNESIUM ION × 185 ZN ZINC ION × 1 GCP PHOSPHOMETHYLPHOSPHONIC ACID GUANYLATE ESTER × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
MICROBATCH；pH 6.5；291 K；PEG8k, MPD, KSCN, pH 6.5, microbatch, temperature 291K
X-ray crystallization conditions
MICROBATCH；pH 6.5；291 K；PEG8k, MPD, KSCN, pH 6.5, microbatch, temperature 291K
X-ray crystallization conditions
MICROBATCH；pH 6.5；291 K；PEG8k, MPD, KSCN, pH 6.5, microbatch, temperature 291K
X-ray crystallization conditions
MICROBATCH；pH 6.5；291 K；PEG8k, KSCN, pH 6.5, microbatch, temperature 291K
X-ray crystallization conditions
MICROBATCH；pH 6.5；291 K；PEG8k, KSCN, pH 6.5, microbatch, temperature 291K
|
Resolution 2.90 Å R-free 0.267 |
| 4WF1 Crystal structure of the E. coli ribosome bound to negamycin. Deposited 2014-09-11 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 53-meric |
Chain AH
2–130（129 aa）
|
Not recorded | MG MAGNESIUM ION × 271 ZN ZINC ION × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
MICROBATCH；pH 6.5；291 K；PEG8k, MPD
|
Resolution 3.09 Å R-free 0.244 |
| 4WF1 Crystal structure of the E. coli ribosome bound to negamycin. Deposited 2014-09-11 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 49 PDB declaration: 52-meric |
Chain CH
2–130（129 aa）
|
Not recorded | MG MAGNESIUM ION × 228 ZN ZINC ION × 1 NEG NEGAMYCIN × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
MICROBATCH；pH 6.5；291 K；PEG8k, MPD
|
Resolution 3.09 Å R-free 0.244 |
| 4WOI 4,5-linked aminoglycoside antibiotics regulate the bacterial ribosome by targeting dynamic conformational processes within intersubunit bridge B2 Deposited 2014-10-15 | 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 AH
1–130（130 aa）
|
Not recorded | MG MAGNESIUM ION × 269 PAR PAROMOMYCIN × 6 ZN ZINC ION × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
MICROBATCH；pH 6.5；291 K；PEG8k, MPD, KCl, KSCN
|
Resolution 3.00 Å R-free 0.253 |
| 4WOI 4,5-linked aminoglycoside antibiotics regulate the bacterial ribosome by targeting dynamic conformational processes within intersubunit bridge B2 Deposited 2014-10-15 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 49 PDB declaration: 54-meric |
Chain DH
1–130（130 aa）
|
Not recorded | MG MAGNESIUM ION × 226 PAR PAROMOMYCIN × 7 ZN ZINC ION × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
MICROBATCH；pH 6.5；291 K；PEG8k, MPD, KCl, KSCN
|
Resolution 3.00 Å R-free 0.253 |
| 4WWW Crystal structure of the E. coli ribosome bound to CEM-101 Deposited 2014-11-12 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 52-meric |
Chain QH
2–130（129 aa）
|
Not recorded | MG MAGNESIUM ION × 182 EM1 (3aS,4R,7S,9R,10R,11R,13R,15R,15aR)-1-{4-[4-(3-aminophenyl)-1H-1,2,3-triazol-1-yl]butyl}-4-ethyl-7-fluoro-11-methoxy-3a ,7,9,11,13,15-hexamethyl-2,6,8,14-tetraoxotetradecahydro-2H-oxacyclotetradecino[4,3-d][1,3]oxazol-10-yl 3,4,6-trideoxy-3-(dimethylamino)-beta-D-xylo-hexopyranoside × 1 ZN ZINC ION × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
MICROBATCH；pH 6.5；291 K；PEG8k, MPD
|
Resolution 3.10 Å R-free 0.252 |
| 4WWW Crystal structure of the E. coli ribosome bound to CEM-101 Deposited 2014-11-12 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 49 PDB declaration: 52-meric |
Chain XH
2–130（129 aa）
|
Not recorded | MG MAGNESIUM ION × 179 ZN ZINC ION × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
MICROBATCH；pH 6.5；291 K；PEG8k, MPD
|
Resolution 3.10 Å R-free 0.252 |
| 4YBB High-resolution structure of the Escherichia coli ribosome Deposited 2015-02-18 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 53-meric |
Chain AH
2–130（129 aa）
|
Not recorded | MG MAGNESIUM ION × 263 PG4 TETRAETHYLENE GLYCOL × 6 MPD (4S)-2-METHYL-2,4-PENTANEDIOL × 14 PUT 1,4-DIAMINOBUTANE × 16 ZN ZINC ION × 2 PEG DI(HYDROXYETHYL)ETHER × 11 SPD SPERMIDINE × 4 1PE PENTAETHYLENE GLYCOL × 2 PGE TRIETHYLENE GLYCOL × 9 ACY ACETIC ACID × 3 EDO 1,2-ETHANEDIOL × 12 GUN GUANINE × 1 TRS 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
MICROBATCH；pH 6.5；291 K；PEG8k, MPD
|
Resolution 2.10 Å R-free 0.234 |
| 4YBB High-resolution structure of the Escherichia coli ribosome Deposited 2015-02-18 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 49 PDB declaration: 52-meric |
Chain BH
2–130（129 aa）
|
Not recorded | MG MAGNESIUM ION × 200 PG4 TETRAETHYLENE GLYCOL × 1 ZN ZINC ION × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
MICROBATCH；pH 6.5；291 K；PEG8k, MPD
|
Resolution 2.10 Å R-free 0.234 |
| 5AFI 2.9A Structure of E. coli ribosome-EF-TU complex by cs-corrected cryo-EM Deposited 2015-01-22 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 52 PDB declaration: 59-meric |
Chain h
1–130（130 aa）
|
Not recorded | MG MAGNESIUM ION × 333 CL CHLORIDE ION × 2 FME N-FORMYLMETHIONINE × 1 KIR KIRROMYCIN × 1 GDP GUANOSINE-5'-DIPHOSPHATE × 1 NA SODIUM ION × 2 ZN ZINC ION × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
50MM HEPES-KOH, 70MMNH4CL, 30MM KCL, 20MM MGCL2, 1MM DTT, 0.6MM SPERMINE, 0.4MM SPERMIDINE, 0.15MM KIRROMYCIN；pH 7.5；50MM HEPES-KOH, 70MMNH4CL, 30MM KCL, 20MM MGCL2, 1MM DTT, 0.6MM SPERMINE, 0.4MM SPERMIDINE, 0.15MM KIRROMYCIN
cryo-EM vitrification conditions
Cryogen ETHANE；LIQUIDE ETHANE
|
Resolution 2.90 Å |
| 5H5U Mechanistic insights into the alternative translation termination by ArfA and RF2 Deposited 2016-11-09 | 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 o
2–130（129 aa）
|
Not recorded | No recorded non-water small molecule |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.6
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.01 Å |
| 5IQR Structure of RelA bound to the 70S ribosome Deposited 2016-03-11 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 52 PDB declaration: 59-meric |
Chain m
1–130（130 aa）
|
Not recorded | MG MAGNESIUM ION × 299 ZN ZINC ION × 3 PAR PAROMOMYCIN × 1 MET METHIONINE × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE；Grids were blotted for 5 s
|
Resolution 3.00 Å |
| 5IT8 High-resolution structure of the Escherichia coli ribosome Deposited 2016-03-16 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 53-meric |
Chain AH
2–130（129 aa）
|
Not recorded | MG MAGNESIUM ION × 266 PG4 TETRAETHYLENE GLYCOL × 6 MPD (4S)-2-METHYL-2,4-PENTANEDIOL × 14 PUT 1,4-DIAMINOBUTANE × 16 ZN ZINC ION × 2 PEG DI(HYDROXYETHYL)ETHER × 11 EDO 1,2-ETHANEDIOL × 12 PGE TRIETHYLENE GLYCOL × 9 SPD SPERMIDINE × 4 1PE PENTAETHYLENE GLYCOL × 2 ACY ACETIC ACID × 3 GUN GUANINE × 1 TRS 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
MICROBATCH；pH 6.5；291 K；PEG8k, MPD
|
Resolution 3.12 Å R-free 0.220 |
| 5IT8 High-resolution structure of the Escherichia coli ribosome Deposited 2016-03-16 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 49 PDB declaration: 52-meric |
Chain BH
2–130（129 aa）
|
Not recorded | MG MAGNESIUM ION × 200 PG4 TETRAETHYLENE GLYCOL × 1 ZN ZINC ION × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
MICROBATCH；pH 6.5；291 K；PEG8k, MPD
|
Resolution 3.12 Å R-free 0.220 |
| 5J5B Structure of the WT E coli ribosome bound to tetracycline Deposited 2016-04-01 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 53-meric |
Chain AH
2–130（129 aa）
|
Not recorded | MG MAGNESIUM ION × 267 PG4 TETRAETHYLENE GLYCOL × 6 MPD (4S)-2-METHYL-2,4-PENTANEDIOL × 14 PUT 1,4-DIAMINOBUTANE × 16 TAC TETRACYCLINE × 1 ZN ZINC ION × 2 PEG DI(HYDROXYETHYL)ETHER × 11 EDO 1,2-ETHANEDIOL × 12 PGE TRIETHYLENE GLYCOL × 9 SPD SPERMIDINE × 4 1PE PENTAETHYLENE GLYCOL × 2 ACY ACETIC ACID × 3 GUN GUANINE × 1 TRS 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
MICROBATCH；291 K；PEG 8000, Spermidine, Putrescine, Ammonium Chloride, Magnesium Chloride, MES pH 6.5
|
Resolution 2.80 Å R-free 0.219 |
| 5J5B Structure of the WT E coli ribosome bound to tetracycline Deposited 2016-04-01 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 49 PDB declaration: 52-meric |
Chain BH
2–130（129 aa）
|
Not recorded | MG MAGNESIUM ION × 202 PG4 TETRAETHYLENE GLYCOL × 1 TAC TETRACYCLINE × 1 ZN ZINC ION × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
MICROBATCH；291 K；PEG 8000, Spermidine, Putrescine, Ammonium Chloride, Magnesium Chloride, MES pH 6.5
|
Resolution 2.80 Å R-free 0.219 |
| 5J7L Structure of the 70S E coli ribosome with the U1052G mutation in the 16S rRNA bound to tetracycline Deposited 2016-04-06 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 53-meric |
Chain AH
2–130（129 aa）
|
Not recorded | MG MAGNESIUM ION × 268 PG4 TETRAETHYLENE GLYCOL × 6 MPD (4S)-2-METHYL-2,4-PENTANEDIOL × 14 PUT 1,4-DIAMINOBUTANE × 16 TAC TETRACYCLINE × 2 ZN ZINC ION × 2 PEG DI(HYDROXYETHYL)ETHER × 11 EDO 1,2-ETHANEDIOL × 12 PGE TRIETHYLENE GLYCOL × 9 SPD SPERMIDINE × 4 1PE PENTAETHYLENE GLYCOL × 2 ACY ACETIC ACID × 3 GUN GUANINE × 1 TRS 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
MICROBATCH；291 K；PEG 8k, Spermidine, Putrescine, Ammonium Chloride, Magnesium Chloride, MES pH 6.5
|
Resolution 3.00 Å R-free 0.193 |
| 5J7L Structure of the 70S E coli ribosome with the U1052G mutation in the 16S rRNA bound to tetracycline Deposited 2016-04-06 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 49 PDB declaration: 52-meric |
Chain BH
2–130（129 aa）
|
Not recorded | MG MAGNESIUM ION × 204 PG4 TETRAETHYLENE GLYCOL × 1 TAC TETRACYCLINE × 2 ZN ZINC ION × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
MICROBATCH；291 K；PEG 8k, Spermidine, Putrescine, Ammonium Chloride, Magnesium Chloride, MES pH 6.5
|
Resolution 3.00 Å R-free 0.193 |
| 5J88 Structure of the E coli 70S ribosome with the U1060A mutation in 16S rRNA Deposited 2016-04-07 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 53-meric |
Chain AH
2–130（129 aa）
|
Not recorded | MG MAGNESIUM ION × 266 PG4 TETRAETHYLENE GLYCOL × 6 MPD (4S)-2-METHYL-2,4-PENTANEDIOL × 14 PUT 1,4-DIAMINOBUTANE × 16 ZN ZINC ION × 2 PEG DI(HYDROXYETHYL)ETHER × 11 EDO 1,2-ETHANEDIOL × 12 PGE TRIETHYLENE GLYCOL × 9 SPD SPERMIDINE × 4 1PE PENTAETHYLENE GLYCOL × 2 ACY ACETIC ACID × 3 GUN GUANINE × 1 TRS 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
MICROBATCH；291 K；PEG 8k, Spermidine, Putrescine, Ammonium Chloride, Magnesium Chloride, MES pH 6.5
|
Resolution 3.32 Å R-free 0.219 |
| 5J88 Structure of the E coli 70S ribosome with the U1060A mutation in 16S rRNA Deposited 2016-04-07 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 49 PDB declaration: 52-meric |
Chain BH
2–130（129 aa）
|
Not recorded | MG MAGNESIUM ION × 200 PG4 TETRAETHYLENE GLYCOL × 1 ZN ZINC ION × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
MICROBATCH；291 K；PEG 8k, Spermidine, Putrescine, Ammonium Chloride, Magnesium Chloride, MES pH 6.5
|
Resolution 3.32 Å R-free 0.219 |
| 5J8A Structure of the E coli 70S ribosome with the U1052G mutation in 16S rRNA bound to tigecycline Deposited 2016-04-07 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 53-meric |
Chain AH
2–130（129 aa）
|
Not recorded | MG MAGNESIUM ION × 268 PG4 TETRAETHYLENE GLYCOL × 6 MPD (4S)-2-METHYL-2,4-PENTANEDIOL × 14 PUT 1,4-DIAMINOBUTANE × 16 T1C TIGECYCLINE × 1 ZN ZINC ION × 2 PEG DI(HYDROXYETHYL)ETHER × 11 EDO 1,2-ETHANEDIOL × 12 PGE TRIETHYLENE GLYCOL × 9 SPD SPERMIDINE × 4 1PE PENTAETHYLENE GLYCOL × 2 ACY ACETIC ACID × 3 GUN GUANINE × 1 TRS 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
MICROBATCH；291 K；PEG 8k, Spermidine, Putrescine, Ammonium Chloride, MAgnesium Chloride, MPD, MES pH 6.5
|
Resolution 3.10 Å R-free 0.192 |
| 5J8A Structure of the E coli 70S ribosome with the U1052G mutation in 16S rRNA bound to tigecycline Deposited 2016-04-07 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 49 PDB declaration: 52-meric |
Chain BH
2–130（129 aa）
|
Not recorded | MG MAGNESIUM ION × 204 PG4 TETRAETHYLENE GLYCOL × 1 T1C TIGECYCLINE × 1 ZN ZINC ION × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
MICROBATCH；291 K；PEG 8k, Spermidine, Putrescine, Ammonium Chloride, MAgnesium Chloride, MPD, MES pH 6.5
|
Resolution 3.10 Å R-free 0.192 |
| 5J91 Structure of the Wild-type 70S E coli ribosome bound to Tigecycline Deposited 2016-04-08 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 53-meric |
Chain AH
2–130（129 aa）
|
Not recorded | MG MAGNESIUM ION × 267 PG4 TETRAETHYLENE GLYCOL × 6 MPD (4S)-2-METHYL-2,4-PENTANEDIOL × 14 PUT 1,4-DIAMINOBUTANE × 16 T1C TIGECYCLINE × 1 ZN ZINC ION × 2 PEG DI(HYDROXYETHYL)ETHER × 11 EDO 1,2-ETHANEDIOL × 12 PGE TRIETHYLENE GLYCOL × 9 SPD SPERMIDINE × 4 1PE PENTAETHYLENE GLYCOL × 2 ACY ACETIC ACID × 3 GUN GUANINE × 1 TRS 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
MICROBATCH；pH 6.5；291 K；PEG 8k, Spermidine, Putrescine, Ammonium Chloride, MAgnesium Chloride, MPD, MES pH 6.5
|
Resolution 2.96 Å R-free 0.221 |
| 5J91 Structure of the Wild-type 70S E coli ribosome bound to Tigecycline Deposited 2016-04-08 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 49 PDB declaration: 52-meric |
Chain BH
2–130（129 aa）
|
Not recorded | MG MAGNESIUM ION × 202 PG4 TETRAETHYLENE GLYCOL × 1 T1C TIGECYCLINE × 1 ZN ZINC ION × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
MICROBATCH；pH 6.5；291 K；PEG 8k, Spermidine, Putrescine, Ammonium Chloride, MAgnesium Chloride, MPD, MES pH 6.5
|
Resolution 2.96 Å R-free 0.221 |
| 5JC9 Structure of the Escherichia coli ribosome with the U1052G mutation in the 16S rRNA Deposited 2016-04-14 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 53-meric |
Chain AH
2–130（129 aa）
|
Not recorded | MG MAGNESIUM ION × 267 PG4 TETRAETHYLENE GLYCOL × 6 MPD (4S)-2-METHYL-2,4-PENTANEDIOL × 14 PUT 1,4-DIAMINOBUTANE × 16 ZN ZINC ION × 2 PEG DI(HYDROXYETHYL)ETHER × 11 EDO 1,2-ETHANEDIOL × 12 PGE TRIETHYLENE GLYCOL × 9 SPD SPERMIDINE × 4 1PE PENTAETHYLENE GLYCOL × 2 ACY ACETIC ACID × 3 GUN GUANINE × 1 TRS 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
MICROBATCH；pH 6.5；291 K；PEG 8k, Spermidine, Putrescine, Ammonium Chloride, MAgnesium Chloride, MPD, MES
|
Resolution 3.03 Å R-free 0.200 |
| 5JC9 Structure of the Escherichia coli ribosome with the U1052G mutation in the 16S rRNA Deposited 2016-04-14 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 49 PDB declaration: 52-meric |
Chain BH
2–130（129 aa）
|
Not recorded | MG MAGNESIUM ION × 202 PG4 TETRAETHYLENE GLYCOL × 1 ZN ZINC ION × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
MICROBATCH；pH 6.5；291 K；PEG 8k, Spermidine, Putrescine, Ammonium Chloride, MAgnesium Chloride, MPD, MES
|
Resolution 3.03 Å R-free 0.200 |
| 5JTE Cryo-EM structure of an ErmBL-stalled ribosome in complex with A-, P-, and E-tRNA Deposited 2016-05-09 | 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: 58-meric |
Chain AH
1–130（130 aa）
|
Not recorded | LYS LYSINE × 1 ERY ERYTHROMYCIN A × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.60 Å |
| 5JU8 Cryo-EM structure of an ErmBL-stalled ribosome in complex with P-, and E-tRNA Deposited 2016-05-10 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 56-meric |
Chain AH
1–130（130 aa）
|
Not recorded | ERY ERYTHROMYCIN A × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.60 Å |
| 5KCR Cryo-EM structure of the Escherichia coli 70S ribosome in complex with antibiotic Avilamycin C, mRNA and P-site tRNA at 3.6A resolution Deposited 2016-06-06 | 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: 55-meric |
Chain 1h
1–130（130 aa）
|
Not recorded | 6UQ (2R,3S,4R,6S)-4-hydroxy-6-{[(2R,3aR,4R,4'R,5'S,6S,6'R,7aR)-4'-hydroxy-6-{[(2S,3R,4R,5S,6R)-3-hydroxy-2-{[(2R,3S,4S,5S,6S)-4-hydroxy-6-({(2R,3aS,3a'R,6S,6'R,7R,7'R,7aR,7a'R)-7'-hydroxy-7'-[(1S)-1-hydroxyethyl]-6'-methyl-7-[(2-methylpropanoyl)oxy]octahydro-4H-2,4'-spirobi[[1,3]dioxolo[4,5-c]pyran]-6-yl}oxy)-5-methoxy-2-(methoxymethyl)tetrahydro-2H-pyran-3-yl]oxy}-5-methoxy-6-methyltetrahydro-2H-pyran-4-yl]oxy}-4,6',7a-trimethyloctahydro-4H-spiro[1,3-dioxolo[4,5-c]pyran-2,2'-pyran]-5'-yl]oxy}-2-methyltetrahydro-2H-pyran-3-yl 3,5-dichloro-4-hydroxy-2-methoxy-6-methylbenzoate (non-preferred name) × 1 ZN ZINC ION × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4
cryo-EM vitrification conditions
Cryogen ETHANE
X-ray crystallization conditions
pH 7.4
|
Resolution 3.60 Å |
| 5KCS Cryo-EM structure of the Escherichia coli 70S ribosome in complex with antibiotic Evernimycin, mRNA, TetM and P-site tRNA at 3.9A resolution Deposited 2016-06-06 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 53 PDB declaration: 58-meric |
Chain 1h
1–130（130 aa）
|
Not recorded | EVN (2R,3R,4R,6S)-6-{[(2R,3aR,4R,4'R,5'S,6S,6'R,7S,7aR)-6-{[(2S,3R,4R,5S,6R)-2-{[(2R,3S,4S,5S,6S)-6-({(2R,3aS,3a'R,6S,7R,7' R,7aS,7a'S)-7'-[(2,4-dihydroxy-6-methylbenzoyl)oxy]-7-hydroxyoctahydro-4H-2,4'-spirobi[[1,3]dioxolo[4,5-c]pyran]-6-yl}ox y)-4-hydroxy-5-methoxy-2-(methoxymethyl)tetrahydro-2H-pyran-3-yl]oxy}-3-hydroxy-5-methoxy-6-methyltetrahydro-2H-pyran-4- yl]oxy}-4',7-dihydroxy-4,6',7a-trimethyloctahydro-4H-spiro[1,3-dioxolo[4,5-c]pyran-2,2'-pyran]-5'-yl]oxy}-4-{[(2R,4S,5R, 6S)-5-methoxy-4,6-dimethyl-4-nitrotetrahydro-2H-pyran-2-yl]oxy}-2-methyltetrahydro-2H-pyran-3-yl 3,5-dichloro-4-hydroxy-2-methoxy-6-methylbenzoate (non-preferred name) × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.90 Å |
| 5KPS Structure of RelA bound to ribosome in absence of A/R tRNA (Structure I) Deposited 2016-07-05 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 52 PDB declaration: 58-meric |
Chain 13
1–130（130 aa）
|
Not recorded | No recorded non-water small molecule |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4
cryo-EM vitrification conditions
Cryogen ETHANE；Apply 2 uL sample and blot 4 seconds before plunging into liquid ethane (GATAN CRYOPLUNGE 3).
|
Resolution 3.90 Å |
| 5KPV Structure of RelA bound to ribosome in presence of A/R tRNA (Structure II) Deposited 2016-07-05 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 52 PDB declaration: 59-meric |
Chain 12
1–130（130 aa）
|
Not recorded | No recorded non-water small molecule |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4
cryo-EM vitrification conditions
Cryogen ETHANE；Apply 2 uL sample and blot 4 seconds before plunging into liquid ethane (GATAN CRYOPLUNGE 3).
|
Resolution 4.10 Å |
| 5KPW Structure of RelA bound to ribosome in presence of A/R tRNA (Structure III) Deposited 2016-07-05 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 52 PDB declaration: 59-meric |
Chain 12
1–130（130 aa）
|
Not recorded | No recorded non-water small molecule |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4
cryo-EM vitrification conditions
Cryogen ETHANE；Apply 2 uL sample and blot 4 seconds before plunging into liquid ethane (GATAN CRYOPLUNGE 3).
|
Resolution 3.90 Å |
| 5KPX Structure of RelA bound to ribosome in presence of A/R tRNA (Structure IV) Deposited 2016-07-05 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 52 PDB declaration: 59-meric |
Chain 12
1–130（130 aa）
|
Not recorded | No recorded non-water small molecule |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4
cryo-EM vitrification conditions
Cryogen ETHANE；Apply 2 uL sample and blot 4 seconds before plunging into liquid ethane (GATAN CRYOPLUNGE 3).
|
Resolution 3.90 Å |
| 5L3P Cryo-EM structure of stringent response factor RelA bound to ErmCL-stalled ribosome complex Deposited 2016-05-24 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 52 PDB declaration: 58-meric |
Chain h
1–130（130 aa）
|
Not recorded | No recorded non-water small molecule |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.70 Å |
| 5LZA Structure of the 70S ribosome with SECIS-mRNA and P-site tRNA (Initial complex, IC) Deposited 2016-09-29 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 55-meric |
Chain h
2–130（129 aa）
|
Not recorded | ZN ZINC ION × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5；50 mM Hepes-KOH, pH 7.5, 70 mM NH4Cl, 30 mM KCl, 7 mM MgCl2, 0.6mM spermine, 0.4mM spermidine, 2 mM DTT
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.60 Å |
| 5LZB Structure of SelB-Sec-tRNASec bound to the 70S ribosome in the initial binding state (IB) Deposited 2016-09-29 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 51 PDB declaration: 58-meric |
Chain h
2–130（129 aa）
|
Not recorded | FME N-FORMYLMETHIONINE × 1 SEC SELENOCYSTEINE × 1 GNP PHOSPHOAMINOPHOSPHONIC ACID-GUANYLATE ESTER × 1 MG MAGNESIUM ION × 1 ZN ZINC ION × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5；50 mM Hepes-KOH, pH 7.5, 70 mM NH4Cl, 30 mM KCl, 7 mM MgCl2, 0.6mM spermine, 0.4mM spermidine, 2 mM DTT
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 5.30 Å |
| 5LZC Structure of SelB-Sec-tRNASec bound to the 70S ribosome in the codon reading state (CR) Deposited 2016-09-29 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 51 PDB declaration: 58-meric |
Chain h
2–130（129 aa）
|
Not recorded | FME N-FORMYLMETHIONINE × 1 SEC SELENOCYSTEINE × 1 GNP PHOSPHOAMINOPHOSPHONIC ACID-GUANYLATE ESTER × 1 MG MAGNESIUM ION × 1 ZN ZINC ION × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5；50 mM Hepes-KOH, pH 7.5, 70 mM NH4Cl, 30 mM KCl, 7 mM MgCl2, 0.6mM spermine, 0.4mM spermidine, 2 mM DTT
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 4.80 Å |
| 5LZD Structure of SelB-Sec-tRNASec bound to the 70S ribosome in the GTPase activated state (GA) Deposited 2016-09-29 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 51 PDB declaration: 58-meric |
Chain h
2–130（129 aa）
|
Not recorded | CL CHLORIDE ION × 1 MG MAGNESIUM ION × 147 FME N-FORMYLMETHIONINE × 1 SEC SELENOCYSTEINE × 1 GNP PHOSPHOAMINOPHOSPHONIC ACID-GUANYLATE ESTER × 1 ZN ZINC ION × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5；50 mM Hepes-KOH, pH 7.5, 70 mM NH4Cl, 30 mM KCl, 7 mM MgCl2, 0.6mM spermine, 0.4mM spermidine, 2 mM DTT
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.40 Å |
| 5LZE Structure of the 70S ribosome with Sec-tRNASec in the classical pre-translocation state (C) Deposited 2016-09-29 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 57-meric |
Chain h
2–130（129 aa）
|
Not recorded | ZN ZINC ION × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5；50 mM Hepes-KOH, pH 7.5, 70 mM NH4Cl, 30 mM KCl, 7 mM MgCl2, 0.6 mM spermine, 0.4 mM spermidine, 2 mM DTT
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.50 Å |
| 5MDV Structure of ArfA and RF2 bound to the 70S ribosome (accommodated state) Deposited 2016-11-13 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 53 PDB declaration: 58-meric |
Chain m
1–130（130 aa）
|
Not recorded | MG MAGNESIUM ION × 440 FME N-FORMYLMETHIONINE × 1 ZN ZINC ION × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.97 Å |
| 5MDW Structure of ArfA(A18T) and RF2 bound to the 70S ribosome (pre-accommodated state) Deposited 2016-11-13 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 53 PDB declaration: 58-meric |
Chain m
1–130（130 aa）
|
Not recorded | MG MAGNESIUM ION × 438 FME N-FORMYLMETHIONINE × 1 ZN ZINC ION × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.06 Å |
| 5MDY Structure of ArfA and TtRF2 bound to the 70S ribosome (pre-accommodated state) Deposited 2016-11-13 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 53 PDB declaration: 62-meric |
Chain m
1–130（130 aa）
|
Not recorded | MG MAGNESIUM ION × 450 FME N-FORMYLMETHIONINE × 1 ZN ZINC ION × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.35 Å |
| 5MDZ Structure of the 70S ribosome (empty A site) Deposited 2016-11-13 | 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: 56-meric |
Chain m
1–130（130 aa）
|
Not recorded | MG MAGNESIUM ION × 437 FME N-FORMYLMETHIONINE × 1 ZN ZINC ION × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.10 Å |
| 5ME0 Structure of the 30S Pre-Initiation Complex 1 (30S IC-1) Stalled by GE81112 Deposited 2016-11-14 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 24 PDB declaration: 26-meric |
Chain H
1–130（130 aa）
|
Not recorded | FME N-FORMYLMETHIONINE × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.7
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 13.50 Å |
| 5ME1 Structure of the 30S Pre-Initiation Complex 2 (30S IC-2) Stalled by GE81112 Deposited 2016-11-14 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 24 PDB declaration: 26-meric |
Chain H
1–130（130 aa）
|
Not recorded | FME N-FORMYLMETHIONINE × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.7
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 13.50 Å |
| 5MGP Structural basis for ArfA-RF2 mediated translation termination on stop-codon lacking mRNAs Deposited 2016-11-21 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 51 PDB declaration: 56-meric |
Chain h
2–130（129 aa）
|
Not recorded | No recorded non-water small molecule |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.2
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.10 Å |
| 5MY1 E. coli expressome Deposited 2017-01-25 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 25 PDB declaration: 26-meric |
Chain H
2–130（129 aa）
|
Not recorded | ZN ZINC ION × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.6
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 7.60 Å |
| 5NO2 RsgA-GDPNP bound to the 30S ribosomal subunit (RsgA assembly intermediate) Deposited 2017-04-10 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 18 PDB declaration: nonadecameric |
Chain H
2–130（129 aa）
|
Not recorded | MG MAGNESIUM ION × 71 ZN ZINC ION × 1 GNP PHOSPHOAMINOPHOSPHONIC ACID-GUANYLATE ESTER × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.8
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 5.16 Å |
| 5NO3 RsgA-GDPNP bound to the 30S ribosomal subunit (RsgA assembly intermediate without uS3) Deposited 2017-04-10 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 19 PDB declaration: eicosameric |
Chain H
2–130（129 aa）
|
Not recorded | MG MAGNESIUM ION × 71 ZN ZINC ION × 2 GNP PHOSPHOAMINOPHOSPHONIC ACID-GUANYLATE ESTER × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.8
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 5.16 Å |
| 5NO4 RsgA-GDPNP bound to the 30S ribosomal subunit (RsgA assembly intermediate with uS3) Deposited 2017-04-10 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 19 PDB declaration: eicosameric |
Chain H
2–130（129 aa）
|
Not recorded | MG MAGNESIUM ION × 71 ZN ZINC ION × 1 GNP PHOSPHOAMINOPHOSPHONIC ACID-GUANYLATE ESTER × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.8
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 5.16 Å |
| 5NP6 70S structure prior to bypassing Deposited 2017-04-13 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 52 PDB declaration: 57-meric |
Chain K
2–130（129 aa）
|
Not recorded | No recorded non-water small molecule |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.60 Å |
| 5NWY 2.9 A cryo-EM structure of VemP-stalled ribosome-nascent chain complex Deposited 2017-05-08 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 51 PDB declaration: 56-meric |
Chain 7
1–130（130 aa）
|
Not recorded | No recorded non-water small molecule |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.2
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.90 Å |
| 5O2R Cryo-EM structure of the proline-rich antimicrobial peptide Api137 bound to the terminating ribosome Deposited 2017-05-22 | 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 h
2–130（129 aa）
|
Not recorded | No recorded non-water small molecule |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.40 Å |
| 5U4I Structural Basis of Co-translational Quality Control by ArfA and RF2 Bound to Ribosome Deposited 2016-12-04 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 51 PDB declaration: 57-meric |
Chain h
2–130（129 aa）
|
Not recorded | MG MAGNESIUM ION × 124 ZN ZINC ION × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.50 Å |
| 5UYK 70S ribosome bound with cognate ternary complex not base-paired to A site codon (Structure I) Deposited 2017-02-24 | 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: 60-meric |
Chain H
2–130（129 aa）
|
Not recorded | GCP PHOSPHOMETHYLPHOSPHONIC ACID GUANYLATE ESTER × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE；2 uL of complex was applied to each grid. After a 10-second incubation, the grids were blotted for 2 to 4 seconds.
|
Resolution 3.90 Å |
| 5UYL 70S ribosome bound with cognate ternary complex base-paired to A site codon (Structure II) Deposited 2017-02-24 | 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: 60-meric |
Chain H
2–130（129 aa）
|
Not recorded | FME N-FORMYLMETHIONINE × 1 PHE PHENYLALANINE × 1 GCP PHOSPHOMETHYLPHOSPHONIC ACID GUANYLATE ESTER × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE；2 uL of complex was applied to each grid. After a 10-second incubation, the grids were blotted for 2 to 4 seconds.
|
Resolution 3.60 Å |
| 5UYM 70S ribosome bound with cognate ternary complex base-paired to A site codon, closed 30S (Structure III) Deposited 2017-02-24 | 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: 60-meric |
Chain H
2–130（129 aa）
|
Not recorded | MG MAGNESIUM ION × 383 ZN ZINC ION × 2 FME N-FORMYLMETHIONINE × 1 PHE PHENYLALANINE × 1 GCP PHOSPHOMETHYLPHOSPHONIC ACID GUANYLATE ESTER × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE；2 uL of complex was applied to each grid. After a 10-second incubation, the grids were blotted for 2 to 4 seconds.
|
Resolution 3.20 Å |
| 5UYN 70S ribosome bound with near-cognate ternary complex not base-paired to A site codon (Structure I-nc) Deposited 2017-02-24 | 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: 60-meric |
Chain H
2–130（129 aa）
|
Not recorded | GCP PHOSPHOMETHYLPHOSPHONIC ACID GUANYLATE ESTER × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE；2 uL of complex was applied to each grid. After a 10-second incubation, the grids were blotted for 2 to 4 seconds.
|
Resolution 4.00 Å |
| 5UYP 70S ribosome bound with near-cognate ternary complex base-paired to A site codon, open 30S (Structure II-nc) Deposited 2017-02-24 | 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: 60-meric |
Chain H
2–130（129 aa）
|
Not recorded | FME N-FORMYLMETHIONINE × 1 LYS LYSINE × 1 GCP PHOSPHOMETHYLPHOSPHONIC ACID GUANYLATE ESTER × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE；2 uL of complex was applied to each grid. After a 10-second incubation, the grids were blotted for 2 to 4 seconds.
|
Resolution 3.90 Å |
| 5UYQ 70S ribosome bound with near-cognate ternary complex base-paired to A site codon, closed 30S (Structure III-nc) Deposited 2017-02-24 | 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: 60-meric |
Chain H
2–130（129 aa）
|
Not recorded | FME N-FORMYLMETHIONINE × 1 LYS LYSINE × 1 MG MAGNESIUM ION × 1 GCP PHOSPHOMETHYLPHOSPHONIC ACID GUANYLATE ESTER × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE；2 uL of complex was applied to each grid. After a 10-second incubation, the grids were blotted for 2 to 4 seconds.
|
Resolution 3.80 Å |
| 5WDT 70S ribosome-EF-Tu H84A complex with GppNHp Deposited 2017-07-06 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 52 PDB declaration: 59-meric |
Chain h
2–130（129 aa）
|
Not recorded | FME N-FORMYLMETHIONINE × 1 MG MAGNESIUM ION × 1904 K POTASSIUM ION × 5 PHE PHENYLALANINE × 1 GNP PHOSPHOAMINOPHOSPHONIC ACID-GUANYLATE ESTER × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE；5 second blot time,
no wait time
|
Resolution 3.00 Å |
| 5WE4 70S ribosome-EF-Tu wt complex with GppNHp Deposited 2017-07-07 | 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 h
2–130（129 aa）
|
Not recorded | MG MAGNESIUM ION × 1618 K POTASSIUM ION × 1 FME N-FORMYLMETHIONINE × 1 PHE PHENYLALANINE × 1 GNP PHOSPHOAMINOPHOSPHONIC ACID-GUANYLATE ESTER × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE；5 second blot time,
no wait time
|
Resolution 3.10 Å |
| 5WE6 70S ribosome-EF-Tu H84A complex with GTP and cognate tRNA Deposited 2017-07-07 | 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 h
2–130（129 aa）
|
Not recorded | FME N-FORMYLMETHIONINE × 1 MG MAGNESIUM ION × 662 K POTASSIUM ION × 8 PHE PHENYLALANINE × 1 GTP GUANOSINE-5'-TRIPHOSPHATE × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE；5 second blot time,
no wait time
|
Resolution 3.40 Å |
| 5WFK 70S ribosome-EF-Tu H84A complex with GTP and near-cognate tRNA (Complex C3) Deposited 2017-07-12 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 52 PDB declaration: 59-meric |
Chain h
2–130（129 aa）
|
Not recorded | FME N-FORMYLMETHIONINE × 1 MG MAGNESIUM ION × 1413 K POTASSIUM ION × 1 PHE PHENYLALANINE × 1 GTP GUANOSINE-5'-TRIPHOSPHATE × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE；5 second blot time,
no wait time
|
Resolution 3.40 Å |
| 6BU8 70S ribosome with S1 domains 1 and 2 (Class 1) Deposited 2017-12-08 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 53 PDB declaration: 60-meric |
Chain H
2–130（129 aa）
|
Not recorded | FME N-FORMYLMETHIONINE × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE；2 uL of complex was applied to each grid. After a 10-second incubation, the grids were blotted for 2 to 4 seconds.
|
Resolution 3.50 Å |
| 6BY1 E. coli pH03H9 complex Deposited 2017-12-19 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 57-meric |
Chain AH
2–130（129 aa）
|
Not recorded | MG MAGNESIUM ION × 225 ZN ZINC ION × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；pH 7；289 K；PEG 2000, PEP629, potassium thiocyanate, tris acetate
|
Resolution 3.94 Å R-free 0.269 |
| 6BY1 E. coli pH03H9 complex Deposited 2017-12-19 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 49 PDB declaration: 55-meric |
Chain BH
2–130（129 aa）
|
Not recorded | MG MAGNESIUM ION × 220 ZN ZINC ION × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；pH 7；289 K；PEG 2000, PEP629, potassium thiocyanate, tris acetate
|
Resolution 3.94 Å R-free 0.269 |
| 6C4I Conformation of methylated GGQ in the peptidyl transferase center during translation termination Deposited 2018-01-12 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 53 PDB declaration: 59-meric |
Chain h
1–130（130 aa）
|
Not recorded | MG MAGNESIUM ION × 317 ZN ZINC ION × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE；Grids were blotted for 3.5 seconds.
|
Resolution 3.24 Å |
| 6ENF Cryo-EM structure of a polyproline-stalled ribosome in the absence of EF-P Deposited 2017-10-04 | 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: 53-meric |
Chain h
2–130（129 aa）
|
Not recorded | No recorded non-water small molecule |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.20 Å |
| 6ENJ Polyproline-stalled ribosome in the presence of A+P site tRNA and elongation-factor P (EF-P) Deposited 2017-10-05 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 56-meric |
Chain h
2–130（129 aa）
|
Not recorded | PRO PROLINE × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.70 Å |
| 6ENU Polyproline-stalled ribosome in the presence of elongation-factor P (EF-P) Deposited 2017-10-06 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 51 PDB declaration: 56-meric |
Chain h
2–130（129 aa）
|
Not recorded | PRO PROLINE × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.10 Å |
| 6GWT Cryo-EM structure of an E. coli 70S ribosome in complex with RF3-GDPCP, RF1(GAQ) and Pint-tRNA (State I) Deposited 2018-06-25 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 53 PDB declaration: 58-meric |
Chain h
2–130（129 aa）
|
Not recorded | GCP PHOSPHOMETHYLPHOSPHONIC ACID GUANYLATE ESTER × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4；Solutions were preapred fresh and filtered previous to usage.
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.80 Å |
| 6GXM Cryo-EM structure of an E. coli 70S ribosome in complex with RF3-GDPCP, RF1(GAQ) and Pint-tRNA (State II) Deposited 2018-06-27 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 53 PDB declaration: 58-meric |
Chain h
2–130（129 aa）
|
Not recorded | GCP PHOSPHOMETHYLPHOSPHONIC ACID GUANYLATE ESTER × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4；Solutions were preapred fresh and filtered previous to usage.
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.80 Å |
| 6GXN Cryo-EM structure of an E. coli 70S ribosome in complex with RF3-GDPCP, RF1(GAQ) and Pint-tRNA (State III) Deposited 2018-06-27 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 53 PDB declaration: 58-meric |
Chain h
2–130（129 aa）
|
Not recorded | GCP PHOSPHOMETHYLPHOSPHONIC ACID GUANYLATE ESTER × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4；Solutions were preapred fresh and filtered previous to usage.
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.90 Å |
| 6GXO Cryo-EM structure of a rotated E. coli 70S ribosome in complex with RF3-GDPCP, RF1(GAQ) and P/E-tRNA (State IV) Deposited 2018-06-27 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 53 PDB declaration: 58-meric |
Chain h
2–130（129 aa）
|
Not recorded | GCP PHOSPHOMETHYLPHOSPHONIC ACID GUANYLATE ESTER × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4；Solutions were preapred fresh and filtered previous to usage.
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.90 Å |
| 6GXP Cryo-EM structure of a rotated E. coli 70S ribosome in complex with RF3-GDPCP(RF3-only) Deposited 2018-06-27 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 52 PDB declaration: 55-meric |
Chain h
2–130（129 aa）
|
Not recorded | GCP PHOSPHOMETHYLPHOSPHONIC ACID GUANYLATE ESTER × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4；Solutions were preapred fresh and filtered previous to usage.
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 4.40 Å |
| 6H4N Structure of a hibernating 100S ribosome reveals an inactive conformation of the ribosomal protein S1 - 70S Hibernating E. coli Ribosome Deposited 2018-07-22 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 52 PDB declaration: 57-meric |
Chain h
2–130（129 aa）
|
Not recorded | No recorded non-water small molecule |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5；B100S buffer (25 mM Hepes pH 7.5, 100 mM KOAc, 15 mM Mg(OAc)2, 1 mM dithiothreitol)
cryo-EM vitrification conditions
Cryogen ETHANE-PROPANE
|
Resolution 3.00 Å |
| 6H58 Structure of a hibernating 100S ribosome reveals an inactive conformation of the ribosomal protein S1 - Full 100S Hibernating E. coli Ribosome Deposited 2018-07-24 | 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 × 104 PDB declaration: 112-meric |
Chain h
2–130（129 aa）
Chain hh
2–130（129 aa）
|
Not recorded | No recorded non-water small molecule |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE-PROPANE
|
Resolution 7.90 Å |
| 6HRM E. coli 70S d2d8 stapled ribosome Deposited 2018-09-27 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 51 PDB declaration: 53-meric |
Chain m
2–130（129 aa）
|
Not recorded | MG MAGNESIUM ION × 436 ZN ZINC ION × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.96 Å |
| 6I7V Ribosomal protein paralogs bL31 and bL36 Deposited 2018-11-19 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 99 PDB declaration: 105-meric |
Chain AH
2–130（129 aa）
Chain BH
2–130（129 aa）
|
Not recorded | MG MAGNESIUM ION × 453 PGE TRIETHYLENE GLYCOL × 8 MPD (4S)-2-METHYL-2,4-PENTANEDIOL × 13 PG4 TETRAETHYLENE GLYCOL × 5 SPD SPERMIDINE × 3 PUT 1,4-DIAMINOBUTANE × 7 1PE PENTAETHYLENE GLYCOL × 2 ACY ACETIC ACID × 3 PEG DI(HYDROXYETHYL)ETHER × 9 EDO 1,2-ETHANEDIOL × 12 GUN GUANINE × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
MICROBATCH；pH 6.5；291 K；PEG8k, MPD, KSCN
|
Resolution 2.90 Å R-free 0.255 |
| 6OFX Non-rotated ribosome (Structure I) Deposited 2019-04-01 | 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 M
2–130（129 aa）
|
Not recorded | FME N-FORMYLMETHIONINE × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.30 Å |
| 6OG7 70S termination complex with RF2 bound to the UGA codon. Non-rotated ribosome with RF2 bound (Structure II) Deposited 2019-04-01 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 55-meric |
Chain M
2–130（129 aa）
|
Not recorded | No recorded non-water small molecule |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.30 Å |
| 6Q97 Structure of tmRNA SmpB bound in A site of E. coli 70S ribosome Deposited 2018-12-17 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 53 PDB declaration: 60-meric |
Chain m
2–130（129 aa）
|
Not recorded | MG MAGNESIUM ION × 439 ZN ZINC ION × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.90 Å |
| 6Q98 Structure of tmRNA SmpB bound in P site of E. coli 70S ribosome Deposited 2018-12-17 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 53 PDB declaration: 57-meric |
Chain m
1–130（130 aa）
|
Not recorded | MG MAGNESIUM ION × 429 ZN ZINC ION × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 4.30 Å |
| 6Q9A Structure of tmRNA SmpB bound past E site of E. coli 70S ribosome Deposited 2018-12-17 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 53 PDB declaration: 58-meric |
Chain m
2–130（129 aa）
|
Not recorded | MG MAGNESIUM ION × 437 ZN ZINC ION × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.70 Å |
| 6SZS Release factor-dependent ribosome rescue by BrfA in the Gram-positive bacterium Bacillus subtilis Deposited 2019-10-02 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 51 PDB declaration: 56-meric |
Chain h
1–130（130 aa）
|
Not recorded | No recorded non-water small molecule |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.2
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.06 Å |
| 6TBV Cryo-EM structure of an Escherichia coli ribosome-SpeFL complex stalled in response to L-ornithine (Replicate 2) Deposited 2019-11-04 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 55-meric |
Chain S081
1–130（130 aa）
|
Not recorded | MG MAGNESIUM ION × 339 K POTASSIUM ION × 147 UNX UNKNOWN LIGAND × 1201 ZN ZINC ION × 3 ORN L-ornithine × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.70 Å |
| 6TC3 Cryo-EM structure of an Escherichia coli ribosome-SpeFL complex stalled in response to L-ornithine (Replicate 1) Deposited 2019-11-05 | 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 S081
1–130（130 aa）
|
Not recorded | MG MAGNESIUM ION × 339 K POTASSIUM ION × 147 UNX UNKNOWN LIGAND × 1201 ZN ZINC ION × 3 ORN L-ornithine × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.70 Å |
| 6VWL 70S ribosome bound to HIV frameshifting stem-loop (FSS) and P/E tRNA (rotated conformation) Deposited 2020-02-20 | 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: 53-meric |
Chain g
1–130（130 aa）
|
Not recorded | MG MAGNESIUM ION × 34 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.10 Å |
| 6VWM 70S ribosome bound to HIV frameshifting stem-loop (FSS) and P-site tRNA (non-rotated conformation, Structure I) Deposited 2020-02-20 | 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: 53-meric |
Chain g
1–130（130 aa）
|
Not recorded | MG MAGNESIUM ION × 53 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.40 Å |
| 6VWN 70S ribosome bound to HIV frameshifting stem-loop (FSS) and P-site tRNA (non-rotated conformation, Structure II) Deposited 2020-02-20 | 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: 53-meric |
Chain g
1–130（130 aa）
|
Not recorded | MG MAGNESIUM ION × 55 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.40 Å |
| 6W6K 30S-Activated-high-Mg2+ Deposited 2020-03-17 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 17 PDB declaration: octadecameric |
Chain H
1–130（130 aa）
|
Not recorded | MG MAGNESIUM ION × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.60 Å |
| 6W77 30S-Inactivated-high-Mg2+ Class A Deposited 2020-03-18 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 17 PDB declaration: octadecameric |
Chain H
1–130（130 aa）
|
Not recorded | No recorded non-water small molecule |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.60 Å |
| 6W7M 30S-Inactive-high-Mg2+ + carbon layer Deposited 2020-03-19 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 19 PDB declaration: eicosameric |
Chain H
1–130（130 aa）
|
Not recorded | No recorded non-water small molecule |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.80 Å |
| 6W7N 30S-Inactive-low-Mg2+ Class A Deposited 2020-03-19 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 14 PDB declaration: pentadecameric |
Chain H
1–130（130 aa）
|
Not recorded | No recorded non-water small molecule |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.40 Å |
| 6W7W 30S-Inactive-low-Mg2+ Class B Deposited 2020-03-19 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 9 PDB declaration: decameric |
Chain G
1–130（130 aa）
|
Not recorded | No recorded non-water small molecule |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.90 Å |
| 6WD6 Cryo-EM of elongating ribosome with EF-Tu*GTP elucidates tRNA proofreading (Cognate Structure II-C2) Deposited 2020-03-31 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 52 PDB declaration: 59-meric |
Chain M
2–130（129 aa）
|
Not recorded | FME N-FORMYLMETHIONINE × 1 PHE PHENYLALANINE × 1 GDP GUANOSINE-5'-DIPHOSPHATE × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.70 Å |
| 6WDB Cryo-EM of elongating ribosome with EF-Tu*GTP elucidates tRNA proofreading (Cognate Structure IV-A) Deposited 2020-03-31 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 51 PDB declaration: 58-meric |
Chain M
2–130（129 aa）
|
Not recorded | FME N-FORMYLMETHIONINE × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 4.00 Å |
| 6WDC Cryo-EM of elongating ribosome with EF-Tu*GTP elucidates tRNA proofreading (Cognate Structure IV-B) Deposited 2020-03-31 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 51 PDB declaration: 58-meric |
Chain M
2–130（129 aa）
|
Not recorded | FME N-FORMYLMETHIONINE × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 4.20 Å |
| 6WDD Cryo-EM of elongating ribosome with EF-Tu*GTP elucidates tRNA proofreading (Cognate Structure V-A) Deposited 2020-03-31 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 51 PDB declaration: 58-meric |
Chain M
2–130（129 aa）
|
Not recorded | FME N-FORMYLMETHIONINE × 1 PHE PHENYLALANINE × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.20 Å |
| 6WDE Cryo-EM of elongating ribosome with EF-Tu*GTP elucidates tRNA proofreading (Cognate Structure V-B) Deposited 2020-03-31 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 51 PDB declaration: 58-meric |
Chain M
2–130（129 aa）
|
Not recorded | PHE PHENYLALANINE × 1 MET METHIONINE × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.00 Å |
| 6WDF Cryo-EM of elongating ribosome with EF-Tu*GTP elucidates tRNA proofreading (Cognate Structure VI-A) Deposited 2020-03-31 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 51 PDB declaration: 57-meric |
Chain M
2–130（129 aa）
|
Not recorded | PHE PHENYLALANINE × 1 FME N-FORMYLMETHIONINE × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.30 Å |
| 6WDG Cryo-EM of elongating ribosome with EF-Tu*GTP elucidates tRNA proofreading (Cognate Structure VI-B) Deposited 2020-03-31 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 51 PDB declaration: 57-meric |
Chain M
2–130（129 aa）
|
Not recorded | PHE PHENYLALANINE × 1 FME N-FORMYLMETHIONINE × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.30 Å |
| 6WDH Cryo-EM of elongating ribosome with EF-Tu*GTP elucidates tRNA proofreading (Non-cognate Structure IV-B1) Deposited 2020-03-31 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 51 PDB declaration: 58-meric |
Chain M
2–130（129 aa）
|
Not recorded | FME N-FORMYLMETHIONINE × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 4.30 Å |
| 6WDI Cryo-EM of elongating ribosome with EF-Tu*GTP elucidates tRNA proofreading (Non-cognate Structure IV-B2) Deposited 2020-03-31 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 51 PDB declaration: 58-meric |
Chain M
2–130（129 aa）
|
Not recorded | FME N-FORMYLMETHIONINE × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 4.00 Å |
| 6WDJ Cryo-EM of elongating ribosome with EF-Tu*GTP elucidates tRNA proofreading (Non-cognate Structure V-A1) Deposited 2020-03-31 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 51 PDB declaration: 58-meric |
Chain M
2–130（129 aa）
|
Not recorded | FME N-FORMYLMETHIONINE × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.70 Å |
| 6WDK Cryo-EM of elongating ribosome with EF-Tu*GTP elucidates tRNA proofreading (Non-cognate Structure V-A2) Deposited 2020-03-31 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 51 PDB declaration: 58-meric |
Chain M
2–130（129 aa）
|
Not recorded | FME N-FORMYLMETHIONINE × 1 PHE PHENYLALANINE × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.60 Å |
| 6WDL Cryo-EM of elongating ribosome with EF-Tu*GTP elucidates tRNA proofreading (Non-cognate Structure V-B1) Deposited 2020-03-31 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 51 PDB declaration: 58-meric |
Chain M
2–130（129 aa）
|
Not recorded | FME N-FORMYLMETHIONINE × 1 PHE PHENYLALANINE × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.70 Å |
| 6WDM Cryo-EM of elongating ribosome with EF-Tu*GTP elucidates tRNA proofreading (Non-cognate Structure V-B2) Deposited 2020-03-31 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 51 PDB declaration: 58-meric |
Chain M
2–130（129 aa）
|
Not recorded | PHE PHENYLALANINE × 1 FME N-FORMYLMETHIONINE × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.60 Å |
| 6WNV 70S ribosome without free 5S rRNA and with a perturbed PTC Deposited 2020-04-23 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 52-meric |
Chain M
2–130（129 aa）
|
Not recorded | No recorded non-water small molecule |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.50 Å |
| 6WNW Active 70S ribosome without free 5S rRNA and bound with A- and P- tRNA Deposited 2020-04-23 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 52 PDB declaration: 57-meric |
Chain M
2–130（129 aa）
|
Not recorded | No recorded non-water small molecule |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.20 Å |
| 6XE0 Cryo-EM structure of NusG-CTD bound to 70S ribosome (30S: NusG-CTD fragment) Deposited 2020-06-11 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 21 PDB declaration: 22-meric |
Chain G
2–130（129 aa）
|
Not recorded | No recorded non-water small molecule |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 6.80 Å |
| 6XZA E. coli 70S ribosome in complex with dirithromycin, and deacylated tRNA(iMet) (focused classification). Deposited 2020-02-03 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 53-meric |
Chain H1
2–130（129 aa）
|
Not recorded | DI0 Dirithromycin × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.66 Å |
| 6XZB E. coli 70S ribosome in complex with dirithromycin, fMet-Phe-tRNA(Phe) and deacylated tRNA(iMet) (focused classification). Deposited 2020-02-03 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 54-meric |
Chain H1
2–130（129 aa）
|
Not recorded | DI0 Dirithromycin × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.54 Å |
| 6Y69 Cryo-EM structure of an Escherichia coli 70S ribosome in complex with antibiotic TetracenomycinX Deposited 2020-02-26 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 54-meric |
Chain h
2–130（129 aa）
|
Not recorded | OCW Tetracenomycin X × 1 MG MAGNESIUM ION × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.86 Å |
| 6ZTL E. coli 70S-RNAP expressome complex in collided state bound to NusG Deposited 2020-07-20 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Other combination Heteromer；Protein × 54 PDB declaration: 62-meric |
Chain AH
1–130（130 aa）
|
Not recorded | MG MAGNESIUM ION × 441 PHE PHENYLALANINE × 1 ZN ZINC ION × 3 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 8
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.50 Å |
| 7ABZ Structure of pre-accomodated trans-translation complex on E. coli stalled ribosome. Deposited 2020-09-09 | 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 m
2–130（129 aa）
|
Not recorded | MG MAGNESIUM ION × 192 KIR KIRROMYCIN × 1 GDP GUANOSINE-5'-DIPHOSPHATE × 1 ZN ZINC ION × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE；blot for 3.5 seconds before plunging
|
Resolution 3.21 Å |
| 7AC7 Structure of accomodated trans-translation complex on E. Coli stalled ribosome. Deposited 2020-09-10 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 52 PDB declaration: 58-meric |
Chain m
2–130（129 aa）
|
Not recorded | MG MAGNESIUM ION × 441 ZN ZINC ION × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE；blot for 3.5 seconds before plunging
|
Resolution 3.08 Å |
| 7ACJ Structure of translocated trans-translation complex on E. coli stalled ribosome. Deposited 2020-09-11 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 51 PDB declaration: 55-meric |
Chain m
2–130（129 aa）
|
Not recorded | MG MAGNESIUM ION × 308 ZN ZINC ION × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE；blot for 3.5 seconds before plunging
|
Resolution 3.20 Å |
| 7ACR Structure of post-translocated trans-translation complex on E. coli stalled ribosome. Deposited 2020-09-11 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 51 PDB declaration: 55-meric |
Chain m
2–130（129 aa）
|
Not recorded | MG MAGNESIUM ION × 212 ZN ZINC ION × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE；blot for 3.5 seconds before plunging
|
Resolution 3.44 Å |
| 7B5K E. coli 70S containing suppressor tRNA in the A-site stabilized by a Negamycin analogue and P-site tRNA-nascent chain. Deposited 2020-12-03 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 57-meric |
Chain h
2–130（129 aa）
|
Not recorded | MG MAGNESIUM ION × 359 ERY ERYTHROMYCIN A × 1 SY5 2-[[[(3~{R},5~{R})-3-azanyl-6-(3-azanylpropylamino)-5-oxidanyl-hexanoyl]amino]-methyl-amino]ethanoic acid × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE-PROPANE
|
Resolution 2.90 Å |
| 7BOD Bacterial 30S ribosomal subunit assembly complex state M (body domain) Deposited 2021-01-25 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 12 PDB declaration: tridecameric |
Chain H
1–130（130 aa）
|
Not recorded | MG MAGNESIUM ION × 101 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.8
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.88 Å |
| 7BOE Bacterial 30S ribosomal subunit assembly complex state M (Consensus refinement) Deposited 2021-01-25 | 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 H
1–130（130 aa）
|
Not recorded | MG MAGNESIUM ION × 152 ZN ZINC ION × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.8
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.90 Å |
| 7BOF Bacterial 30S ribosomal subunit assembly complex state I (body domain) Deposited 2021-01-25 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 11 PDB declaration: dodecameric |
Chain H
1–130（130 aa）
|
Not recorded | MG MAGNESIUM ION × 129 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.8
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.92 Å |
| 7BOG Bacterial 30S ribosomal subunit assembly complex state E (body domain) Deposited 2021-01-25 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 12 PDB declaration: tridecameric |
Chain H
1–130（130 aa）
|
Not recorded | MG MAGNESIUM ION × 105 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.8
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.75 Å |
| 7BOH Complete Bacterial 30S ribosomal subunit assembly complex state E (+RbfA)(Consensus Refinement) Deposited 2021-01-25 | 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 H
1–130（130 aa）
|
Not recorded | MG MAGNESIUM ION × 156 ZN ZINC ION × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.8
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.82 Å |
| 7BOI Bacterial 30S ribosomal subunit assembly complex state F (multibody refinement for body domain of 30S ribosome) Deposited 2021-01-25 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 13 PDB declaration: tetradecameric |
Chain H
1–130（130 aa）
|
Not recorded | MG MAGNESIUM ION × 72 ZN ZINC ION × 1 GNP PHOSPHOAMINOPHOSPHONIC ACID-GUANYLATE ESTER × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.8
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.98 Å |
| 7D6Z Molecular model of the cryo-EM structure of 70S ribosome in complex with peptide deformylase and trigger factor Deposited 2020-10-02 | 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 o
1–130（130 aa）
|
Not recorded | No recorded non-water small molecule |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.40 Å |
| 7D80 Molecular model of the cryo-EM structure of 70S ribosome in complex with peptide deformylase, trigger factor, and methionine aminopeptidase Deposited 2020-10-06 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 51 PDB declaration: 57-meric |
Chain I
1–130（130 aa）
|
Not recorded | No recorded non-water small molecule |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 4.10 Å |
| 7JSS ArfB Rescue of a 70S Ribosome stalled on truncated mRNA with a partial A-site codon (+2-II) Deposited 2020-08-15 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 54-meric |
Chain M
2–130（129 aa）
|
Not recorded | No recorded non-water small molecule |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.70 Å |
| 7JSW ArfB Rescue of a 70S Ribosome stalled on truncated mRNA with a partial A-site codon (+2-III) Deposited 2020-08-16 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 54-meric |
Chain M
2–130（129 aa）
|
Not recorded | No recorded non-water small molecule |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.80 Å |
| 7JSZ ArfB Rescue of a 70S Ribosome stalled on truncated mRNA with a partial A-site codon (+2-IV) Deposited 2020-08-16 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 52 PDB declaration: 57-meric |
Chain M
2–130（129 aa）
|
Not recorded | No recorded non-water small molecule |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.70 Å |
| 7JT1 70S ribosome stalled on long mRNA with ArfB-1 and ArfB-2 bound (+9-III) Deposited 2020-08-16 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 55-meric |
Chain M
2–130（129 aa）
|
Not recorded | No recorded non-water small molecule |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.30 Å |
| 7JT2 70S ribosome stalled on long mRNA with ArfB bound in the A site Deposited 2020-08-16 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 55-meric |
Chain M
2–130（129 aa）
|
Not recorded | No recorded non-water small molecule |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.50 Å |
| 7JT3 Rotated 70S ribosome stalled on long mRNA with ArfB-1 and ArfB-2 bound in the A site (+9-IV) Deposited 2020-08-17 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 53 PDB declaration: 58-meric |
Chain M
2–130（129 aa）
|
Not recorded | No recorded non-water small molecule |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.70 Å |
| 7K50 Pre-translocation non-frameshifting(CCA-A) complex (Structure I) Deposited 2020-09-16 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 52 PDB declaration: 59-meric |
Chain M
2–130（129 aa）
|
Not recorded | FME N-FORMYLMETHIONINE × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE；Blotting force 9, blotted for 4 seconds
|
Resolution 3.40 Å |
| 7K51 Mid-translocated non-frameshifting(CCA-A) complex with EF-G and GDPCP (Structure II) Deposited 2020-09-16 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 53 PDB declaration: 59-meric |
Chain M
2–130（129 aa）
|
Not recorded | FME N-FORMYLMETHIONINE × 1 PRO PROLINE × 1 GCP PHOSPHOMETHYLPHOSPHONIC ACID GUANYLATE ESTER × 1 MG MAGNESIUM ION × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE；Blotting force 9, blotted for 4 seconds
|
Resolution 3.50 Å |
| 7K52 Near post-translocated non-frameshifting(CCA-A) complex with EF-G and GDPCP (Structure III) Deposited 2020-09-16 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 53 PDB declaration: 59-meric |
Chain M
2–130（129 aa）
|
Not recorded | FME N-FORMYLMETHIONINE × 1 PRO PROLINE × 1 GCP PHOSPHOMETHYLPHOSPHONIC ACID GUANYLATE ESTER × 1 MG MAGNESIUM ION × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE；blotting force 9, blotted for 4 seconds
|
Resolution 3.40 Å |
| 7K53 Pre-translocation +1-frameshifting(CCC-A) complex (Structure I-FS) Deposited 2020-09-16 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 52 PDB declaration: 59-meric |
Chain M
2–130（129 aa）
|
Not recorded | FME N-FORMYLMETHIONINE × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE；Blotting force 9, blotted for 4 seconds
|
Resolution 3.20 Å |
| 7K54 Mid-translocated +1-frameshifting(CCC-A) complex with EF-G and GDPCP (Structure II-FS) Deposited 2020-09-16 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 53 PDB declaration: 59-meric |
Chain M
2–130（129 aa）
|
Not recorded | FME N-FORMYLMETHIONINE × 1 PRO PROLINE × 1 GCP PHOSPHOMETHYLPHOSPHONIC ACID GUANYLATE ESTER × 1 MG MAGNESIUM ION × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE；Blotting force 9, blotted for 4 seconds
|
Resolution 3.20 Å |
| 7K55 Near post-translocated +1-frameshifting(CCC-A) complex with EF-G and GDPCP (Structure III-FS) Deposited 2020-09-16 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 53 PDB declaration: 59-meric |
Chain M
2–130（129 aa）
|
Not recorded | FME N-FORMYLMETHIONINE × 1 PRO PROLINE × 1 GCP PHOSPHOMETHYLPHOSPHONIC ACID GUANYLATE ESTER × 1 MG MAGNESIUM ION × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE；blotting force 9, blotted for 4 seconds
|
Resolution 3.30 Å |
| 7LV0 Pre-translocation rotated ribosome +1-frameshifting(CCC-A) complex (Structure Irot-FS) Deposited 2021-02-23 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 52 PDB declaration: 58-meric |
Chain M
2–130（129 aa）
|
Not recorded | FME N-FORMYLMETHIONINE × 1 PRO PROLINE × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE；Blotting force 9, blotted for 4 seconds
|
Resolution 3.20 Å |
| 7N1P Elongating 70S ribosome complex in a classical pre-translocation (PRE-C) conformation Deposited 2021-05-28 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 52 PDB declaration: 58-meric |
Chain SH
1–130（130 aa）
|
Not recorded | PUT 1,4-DIAMINOBUTANE × 18 MG MAGNESIUM ION × 405 ZN ZINC ION × 3 ATP ADENOSINE-5'-TRIPHOSPHATE × 3 SPD SPERMIDINE × 5 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.33 Å |
| 7N2C Elongating 70S ribosome complex in a fusidic acid-stalled intermediate state of translocation bound to EF-G(GDP) (INT2) Deposited 2021-05-28 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 55 PDB declaration: 61-meric |
Chain SH
1–130（130 aa）
|
Not recorded | PUT 1,4-DIAMINOBUTANE × 21 MG MAGNESIUM ION × 197 ZN ZINC ION × 3 ATP ADENOSINE-5'-TRIPHOSPHATE × 2 SPD SPERMIDINE × 3 FUA FUSIDIC ACID × 1 GDP GUANOSINE-5'-DIPHOSPHATE × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.72 Å |
| 7N2U Elongating 70S ribosome complex in a hybrid-H1 pre-translocation (PRE-H1) conformation Deposited 2021-05-29 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 56-meric |
Chain SH
1–130（130 aa）
|
Not recorded | PUT 1,4-DIAMINOBUTANE × 16 MG MAGNESIUM ION × 368 ZN ZINC ION × 3 ATP ADENOSINE-5'-TRIPHOSPHATE × 2 SPD SPERMIDINE × 5 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.53 Å |
| 7N2V Elongating 70S ribosome complex in a spectinomycin-stalled intermediate state of translocation bound to EF-G in an active, GTP conformation (INT1) Deposited 2021-05-29 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 53 PDB declaration: 59-meric |
Chain SH
1–130（130 aa）
|
Not recorded | SCM SPECTINOMYCIN × 3 PUT 1,4-DIAMINOBUTANE × 17 MG MAGNESIUM ION × 344 ZN ZINC ION × 3 ATP ADENOSINE-5'-TRIPHOSPHATE × 2 SPD SPERMIDINE × 2 GTP GUANOSINE-5'-TRIPHOSPHATE × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.54 Å |
| 7N30 Elongating 70S ribosome complex in a hybrid-H2* pre-translocation (PRE-H2*) conformation Deposited 2021-05-30 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 56-meric |
Chain SH
1–130（130 aa）
|
Not recorded | PUT 1,4-DIAMINOBUTANE × 11 MG MAGNESIUM ION × 296 ZN ZINC ION × 1 ATP ADENOSINE-5'-TRIPHOSPHATE × 2 SPD SPERMIDINE × 4 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.66 Å |
| 7N31 Elongating 70S ribosome complex in a post-translocation (POST) conformation Deposited 2021-05-31 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 56-meric |
Chain SH
1–130（130 aa）
|
Not recorded | MG MAGNESIUM ION × 209 ATP ADENOSINE-5'-TRIPHOSPHATE × 2 PUT 1,4-DIAMINOBUTANE × 9 SPD SPERMIDINE × 4 ZN ZINC ION × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.69 Å |
| 7NAR Complete Bacterial 30S ribosomal subunit assembly complex state F (+RsgA)(Consensus Refinement) Deposited 2021-01-25 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 21 PDB declaration: 22-meric |
Chain H
1–130（130 aa）
|
Not recorded | MG MAGNESIUM ION × 97 ZN ZINC ION × 2 GNP PHOSPHOAMINOPHOSPHONIC ACID-GUANYLATE ESTER × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.8
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.00 Å |
| 7NAS Bacterial 30S ribosomal subunit assembly complex state A (multibody refinement for body domain of 30S ribosome) Deposited 2021-01-25 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 13 PDB declaration: tetradecameric |
Chain H
1–130（130 aa）
|
Not recorded | MG MAGNESIUM ION × 43 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.8
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.31 Å |
| 7NAT Bacterial 30S ribosomal subunit assembly complex state A (Consensus refinement) Deposited 2021-01-25 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 21 PDB declaration: 22-meric |
Chain H
1–130（130 aa）
|
Not recorded | MG MAGNESIUM ION × 65 ZN ZINC ION × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.8
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.59 Å |
| 7NAU Bacterial 30S ribosomal subunit assembly complex state C (Consensus Refinement) Deposited 2021-01-25 | 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 H
1–130（130 aa）
|
Not recorded | MG MAGNESIUM ION × 57 ZN ZINC ION × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.8
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.78 Å |
| 7NAV Bacterial 30S ribosomal subunit assembly complex state D (Consensus refinement) Deposited 2021-01-25 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 21 PDB declaration: 22-meric |
Chain H
1–130（130 aa）
|
Not recorded | MG MAGNESIUM ION × 37 ZN ZINC ION × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.8
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 4.80 Å |
| 7NAW Bacterial 30S ribosomal subunit assembly complex state B (Consensus Refinement) Deposited 2021-01-25 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 22 PDB declaration: 23-meric |
Chain H
1–130（130 aa）
|
Not recorded | MG MAGNESIUM ION × 31 ZN ZINC ION × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.8
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 4.05 Å |
| 7NBU Structure of the HigB1 toxin mutant K95A from Mycobacterium tuberculosis (Rv1955) and its target, the cspA mRNA, on the E. coli Ribosome. Deposited 2021-01-27 | Different construct 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 H
2–130（129 aa）
|
Not recorded | MG MAGNESIUM ION × 313 FME N-FORMYLMETHIONINE × 1 ZN ZINC ION × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE；blot for 2s before plunging
|
Resolution 3.11 Å |
| 7O19 Cryo-EM structure of an Escherichia coli TnaC-ribosome complex stalled in response to L-tryptophan Deposited 2021-03-29 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 55-meric |
Chain AH
1–130（130 aa）
|
Not recorded | MG MAGNESIUM ION × 170 ZN ZINC ION × 3 TRP TRYPTOPHAN × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5；All buffers used during the preparation contained 2 mM L-tryptophan.
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.90 Å |
| 7O1A Cryo-EM structure of an Escherichia coli TnaC(R23F)-ribosome complex stalled in response to L-tryptophan Deposited 2021-03-29 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 55-meric |
Chain AH
1–130（130 aa）
|
Not recorded | MG MAGNESIUM ION × 326 K POTASSIUM ION × 147 ZN ZINC ION × 3 TRP TRYPTOPHAN × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5；All buffers used during the preparation contained 2 mM L-tryptophan.
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.40 Å |
| 7O1C Cryo-EM structure of an Escherichia coli TnaC(R23F)-ribosome-RF2 complex stalled in response to L-tryptophan Deposited 2021-03-29 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 51 PDB declaration: 56-meric |
Chain AH
1–130（130 aa）
|
Not recorded | MG MAGNESIUM ION × 339 K POTASSIUM ION × 147 ZN ZINC ION × 3 TRP TRYPTOPHAN × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5；All buffers used during the preparation contained 2 mM L-tryptophan.
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.60 Å |
| 7OIZ Cryo-EM structure of 70S ribosome stalled with TnaC peptide Deposited 2021-05-13 | 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: 55-meric |
Chain H
1–130（130 aa）
|
Not recorded | PAR PAROMOMYCIN × 1 MG MAGNESIUM ION × 308 TRP TRYPTOPHAN × 1 ZN ZINC ION × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.90 Å |
| 7OJ0 Cryo-EM structure of 70S ribosome stalled with TnaC peptide and RF2 Deposited 2021-05-13 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 54 PDB declaration: 59-meric |
Chain H
1–130（130 aa）
|
Not recorded | MG MAGNESIUM ION × 308 TRP TRYPTOPHAN × 1 ZN ZINC ION × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.50 Å |
| 7P3K Cryo-EM structure of 70S ribosome stalled with TnaC peptide (control) Deposited 2021-07-08 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 54-meric |
Chain H
1–130（130 aa）
|
Not recorded | MG MAGNESIUM ION × 308 CLM CHLORAMPHENICOL × 1 ZN ZINC ION × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.90 Å |
| 7PJV Structure of the 70S-EF-G-GDP-Pi ribosome complex with tRNAs in hybrid state 1 (H1-EF-G-GDP-Pi) Deposited 2021-08-24 | 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 h
1–130（130 aa）
|
Not recorded | MG MAGNESIUM ION × 369 ZN ZINC ION × 2 NA SODIUM ION × 2 AM2 APRAMYCIN × 3 GDP GUANOSINE-5'-DIPHOSPHATE × 1 PO4 PHOSPHATE ION × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5；50 mM HEPES, 70 mM NH4Cl, 30 mM KCl, 3.5 mM MgCl2, 0.6 mM spermine, 0.4 mM spermidine
cryo-EM vitrification conditions
Cryogen ETHANE；Manual blotting & plunge-freezing
|
Resolution 3.10 Å |
| 7PJY Structure of the 70S-EF-G-GDP ribosome complex with tRNAs in chimeric state 1 (CHI1-EF-G-GDP) Deposited 2021-08-24 | 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 h
1–130（130 aa）
|
Not recorded | MG MAGNESIUM ION × 318 ZN ZINC ION × 2 NA SODIUM ION × 1 AM2 APRAMYCIN × 4 GDP GUANOSINE-5'-DIPHOSPHATE × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5；50 mM HEPES, 70 mM NH4Cl, 30 mM KCl, 3.5 mM MgCl2, 0.6 mM spermine, 0.4 mM spermidine
cryo-EM vitrification conditions
Cryogen ETHANE；Manual blotting & plunge-freezing
|
Resolution 3.10 Å |
| 7QG8 Structure of the collided E. coli disome - VemP-stalled 70S ribosome Deposited 2021-12-07 | 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: 57-meric |
Chain 7
1–130（130 aa）
|
Not recorded | MG MAGNESIUM ION × 2 K POTASSIUM ION × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.97 Å |
| 7QGH Structure of the E. coli disome - collided 70S ribosome Deposited 2021-12-08 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 52 PDB declaration: 58-meric |
Chain 7
1–130（130 aa）
|
Not recorded | MG MAGNESIUM ION × 2 K POTASSIUM ION × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 4.48 Å |
| 7SS9 Late translocation intermediate with EF-G partially dissociated (Structure V) Deposited 2021-11-10 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 51 PDB declaration: 57-meric |
Chain M
2–130（129 aa）
|
Not recorded | No recorded non-water small molecule |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.90 Å |
| 7SSD Mid translocation intermediate with EF-G bound with GDP (Structure IV) Deposited 2021-11-10 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 52 PDB declaration: 58-meric |
Chain M
2–130（129 aa）
|
Not recorded | GDP GUANOSINE-5'-DIPHOSPHATE × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.30 Å |
| 7SSL Pre translocation intermediate with EF-G bound to GDP and Pi (Structure III) Deposited 2021-11-11 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 52 PDB declaration: 58-meric |
Chain M
2–130（129 aa）
|
Not recorded | GDP GUANOSINE-5'-DIPHOSPHATE × 1 PO4 PHOSPHATE ION × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.80 Å |
| 7SSN Pre translocation 70S ribosome with A/P* and P/E tRNA (Structure II-B) Deposited 2021-11-11 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 48 PDB declaration: 54-meric |
Chain M
2–130（129 aa）
|
Not recorded | No recorded non-water small molecule |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.20 Å |
| 7SSO Pre translocation 70S ribosome with A/A and P/E tRNA (Structure II-A) Deposited 2021-11-11 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 52 PDB declaration: 58-meric |
Chain M
2–130（129 aa）
|
Not recorded | FME N-FORMYLMETHIONINE × 1 PRO PROLINE × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.20 Å |
| 7SSW Late translocation intermediate with EF-G dissociated (Structure VI) Deposited 2021-11-11 | 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: 56-meric |
Chain M
2–130（129 aa）
|
Not recorded | No recorded non-water small molecule |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.80 Å |
| 7ST2 Post translocation, non-rotated 70S ribosome with EF-G dissociated (Structure VII) Deposited 2021-11-11 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 52 PDB declaration: 58-meric |
Chain M
2–130（129 aa）
|
Not recorded | No recorded non-water small molecule |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.90 Å |
| 7ST6 Pre translocation, non-rotated 70S ribosome (Structure I) Deposited 2021-11-12 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 57-meric |
Chain M
2–130（129 aa）
|
Not recorded | PRO PROLINE × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.00 Å |
| 7ST7 Pre translocation intermediate stalled with viomycin and bound with EF-G in a GDP and Pi state (Structure III-vio) Deposited 2021-11-12 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 53 PDB declaration: 59-meric |
Chain M
2–130（129 aa）
|
Not recorded | GDP GUANOSINE-5'-DIPHOSPHATE × 1 PO4 PHOSPHATE ION × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.20 Å |
| 7Y7C Structure of the Bacterial Ribosome with human tRNA Asp(G34) and mRNA(GAU) Deposited 2022-06-22 | 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: 55-meric |
Chain H
1–130（130 aa）
|
Not recorded | MG MAGNESIUM ION × 283 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.6；The Buffer pH was adjusted to 7.6 using KOH.
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.51 Å |
| 7Y7D Structure of the Bacterial Ribosome with human tRNA Asp(Q34) and mRNA(GAU) Deposited 2022-06-22 | 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: 55-meric |
Chain H
1–130（130 aa）
|
Not recorded | MG MAGNESIUM ION × 258 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.6；The Buffer pH was adjusted to 7.6 using KOH.
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.58 Å |
| 7Y7E Structure of the Bacterial Ribosome with human tRNA Asp(ManQ34) and mRNA(GAU) Deposited 2022-06-22 | 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: 55-meric |
Chain H
1–130（130 aa）
|
Not recorded | MG MAGNESIUM ION × 248 MAN alpha-D-mannopyranose × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.6；The Buffer pH was adjusted to 7.6 using KOH.
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.41 Å |
| 7Y7F Structure of the Bacterial Ribosome with human tRNA Asp(ManQ34) and mRNA(GAC) Deposited 2022-06-22 | 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: 55-meric |
Chain H
1–130（130 aa）
|
Not recorded | MG MAGNESIUM ION × 259 MAN alpha-D-mannopyranose × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.6；The Buffer pH was adjusted to 7.6 using KOH.
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.43 Å |
| 7Y7G Structure of the Bacterial Ribosome with human tRNA Tyr(GalQ34) and mRNA(UAU) Deposited 2022-06-22 | 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: 55-meric |
Chain H
1–130（130 aa）
|
Not recorded | MG MAGNESIUM ION × 256 GAL beta-D-galactopyranose × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.6；The Buffer pH was adjusted to 7.6 using KOH.
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.34 Å |
| 7Y7H Structure of the Bacterial Ribosome with human tRNA Tyr(GalQ34) and mRNA(UAC) Deposited 2022-06-22 | 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: 55-meric |
Chain H
1–130（130 aa）
|
Not recorded | MG MAGNESIUM ION × 263 GAL beta-D-galactopyranose × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.6；The Buffer pH was adjusted to 7.6 using KOH.
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.51 Å |
| 7ZTA Structure of an Escherichia coli 70S ribosome stalled by Tetracenomycin X during translation of an MAAAPQK(C) peptide Deposited 2022-05-09 | 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 S081
2–130（129 aa）
|
Not recorded | MG MAGNESIUM ION × 289 K POTASSIUM ION × 115 ZN ZINC ION × 3 OCW Tetracenomycin X × 1 CYS CYSTEINE × 1 GLN GLUTAMINE × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE；Waiting 30 sec
Blotting 2.5 sec
Blot force 5
|
Resolution 2.70 Å |
| 8A3L Structural insights into the binding of bS1 to the ribosome Deposited 2022-06-08 | 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: 56-meric |
Chain H
1–130（130 aa）
|
Not recorded | MG MAGNESIUM ION × 313 ZN ZINC ION × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.42 Å |
| 8AYE E. coli 70S ribosome bound to thermorubin and fMet-tRNA Deposited 2022-09-02 | 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 H
1–130（130 aa）
|
Not recorded | ZN ZINC ION × 2 MG MAGNESIUM ION × 308 T8B Thermorubin × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 1.96 Å |
| 8B0X Translating 70S ribosome in the unrotated state (P and E, tRNAs) Deposited 2022-09-08 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 48 PDB declaration: 53-meric |
Chain H
1–130（130 aa）
|
Not recorded | ZN ZINC ION × 1 K POTASSIUM ION × 168 MG MAGNESIUM ION × 361 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 1.55 Å |
| 8B7Y Cryo-EM structure of the E.coli 70S ribosome in complex with the antibiotic Myxovalargin B. Deposited 2022-10-03 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 47 PDB declaration: 52-meric |
Chain P
1–130（130 aa）
|
Not recorded | MG MAGNESIUM ION × 237 ZN ZINC ION × 1 FME N-FORMYLMETHIONINE × 1 SPD SPERMIDINE × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4
cryo-EM vitrification conditions
Cryogen ETHANE-PROPANE
|
Resolution 3.00 Å |
| 8BF7 Elongating E. coli 70S ribosome containing deacylated tRNA(iMet) in the P-site and AAA mRNA codon with cognate dipeptidyl-tRNA(Lys) in the A-site Deposited 2022-10-24 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 56-meric |
Chain l
1–130（130 aa）
|
Not recorded | No recorded non-water small molecule |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5；1x TAKM7 buffer
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.33 Å |
| 8BGE Elongating E. coli 70S ribosome containing acylated tRNA(iMet) in the P-site and AAm6A mRNA codon in the A-site after uncompleted di-peptide formation Deposited 2022-10-27 | 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: 53-meric |
Chain l
1–130（130 aa）
|
Not recorded | FME N-FORMYLMETHIONINE × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5；1x TAKM7 buffer
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.11 Å |
| 8BGH Elongating E. coli 70S ribosome containing acylated tRNA(iMet) in the P-site and AAA mRNA codon in the A-site after uncompleted di-peptide formation Deposited 2022-10-27 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 54-meric |
Chain l
1–130（130 aa）
|
Not recorded | FME N-FORMYLMETHIONINE × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5；1x TAKM7 buffer
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.88 Å |
| 8BH4 Elongating E. coli 70S ribosome containing deacylated tRNA(iMet) in the P-site and AAm6A mRNA codon with cognate dipeptidyl-tRNA(Lys) in the A-site Deposited 2022-10-29 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 55-meric |
Chain l
1–130（130 aa）
|
Not recorded | No recorded non-water small molecule |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5；1x TAKM7 buffer
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.62 Å |
| 8BHJ Elongating E. coli 70S ribosome containing deacylated tRNA(iMet) in the P-site and Am6AA mRNA codon with cognate dipeptidyl-tRNA(Lys) in the A-site Deposited 2022-10-31 | 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: 55-meric |
Chain l
1–130（130 aa）
|
Not recorded | No recorded non-water small molecule |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5；1x TAKM7 buffer
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.81 Å |
| 8BHL Elongating E. coli 70S ribosome containing acylated tRNA(iMet) in the P-site and Am6AA mRNA codon in the A-site after uncompleted di-peptide formation Deposited 2022-10-31 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 48 PDB declaration: 53-meric |
Chain l
1–130（130 aa）
|
Not recorded | FME N-FORMYLMETHIONINE × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5；1x TAKM7 buffer
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.21 Å |
| 8BHN Elongating E. coli 70S ribosome containing deacylated tRNA(iMet) in the P-site and m6AAA mRNA codon with cognate dipeptidyl-tRNA(Lys) in the A-site Deposited 2022-10-31 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 56-meric |
Chain l
1–130（130 aa）
|
Not recorded | No recorded non-water small molecule |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5；1x TAKM7 buffer
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.85 Å |
| 8BHP Elongating E. coli 70S ribosome containing acylated tRNA(iMet) in the P-site and m6AAA mRNA codon in the A-site after uncompleted di-peptide formation Deposited 2022-10-31 | 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: 54-meric |
Chain l
1–130（130 aa）
|
Not recorded | FME N-FORMYLMETHIONINE × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5；1x TAKM7 buffer
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.37 Å |
| 8BIL Initiation complex of the E. coli 70S ribosome with mRNA containing AAA codon in the A-site. Deposited 2022-11-02 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 54-meric |
Chain l
1–130（130 aa）
|
Not recorded | FME N-FORMYLMETHIONINE × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5；1x TAKM7 buffer
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.04 Å |
| 8BIM Initiation complex of the E. coli 70S ribosome with mRNA containing AAm6A codon in the A-site Deposited 2022-11-02 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 54-meric |
Chain l
1–130（130 aa）
|
Not recorded | FME N-FORMYLMETHIONINE × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5；1x TAKM7 buffer
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.04 Å |
| 8CAI Streptomycin and Hygromycin B bound to the 30S body Deposited 2023-01-24 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 14 PDB declaration: pentadecameric |
Chain H
1–130（130 aa）
|
Not recorded | K POTASSIUM ION × 29 HY0 HYGROMYCIN B VARIANT × 3 5I0 [(2~{S},3~{S},4~{S},5~{R},6~{S})-2-[(2~{R},3~{R},4~{R},5~{S})-2-[(1~{R},2~{S},3~{R},4~{R},5~{S},6~{R})-2,4-bis[[azaniumylidene(azanyl)methyl]amino]-3,5,6-tris(oxidanyl)cyclohexyl]oxy-4-[bis(oxidanyl)methyl]-5-methyl-4-oxidanyl-oxolan-3-yl]oxy-6-(hydroxymethyl)-4,5-bis(oxidanyl)oxan-3-yl]-methyl-azanium × 1 SCM SPECTINOMYCIN × 1 MG MAGNESIUM ION × 55 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.08 Å |
| 8CEP Kasugamycin bound to the 30S body Deposited 2023-02-02 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 17 PDB declaration: nonadecameric |
Chain H
1–130（130 aa）
|
Not recorded | K POTASSIUM ION × 25 KSG (1S,2R,3S,4R,5S,6S)-2,3,4,5,6-PENTAHYDROXYCYCLOHEXYL 2-AMINO-4-{[CARBOXY(IMINO)METHYL]AMINO}-2,3,4,6-TETRADEOXY-ALPHA-D-ARABINO-HEXOPYRANOSIDE × 1 MG MAGNESIUM ION × 54 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.04 Å |
| 8CGJ Streptomycin bound to the 30S body Deposited 2023-02-05 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 14 PDB declaration: hexadecameric |
Chain H
1–130（130 aa）
|
Not recorded | K POTASSIUM ION × 25 5I0 [(2~{S},3~{S},4~{S},5~{R},6~{S})-2-[(2~{R},3~{R},4~{R},5~{S})-2-[(1~{R},2~{S},3~{R},4~{R},5~{S},6~{R})-2,4-bis[[azaniumylidene(azanyl)methyl]amino]-3,5,6-tris(oxidanyl)cyclohexyl]oxy-4-[bis(oxidanyl)methyl]-5-methyl-4-oxidanyl-oxolan-3-yl]oxy-6-(hydroxymethyl)-4,5-bis(oxidanyl)oxan-3-yl]-methyl-azanium × 1 TAC TETRACYCLINE × 1 MG MAGNESIUM ION × 63 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 1.79 Å |
| 8CGR Apramycin bound to the 30S body Deposited 2023-02-06 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 12 PDB declaration: tetradecameric |
Chain H
1–130（130 aa）
|
Not recorded | K POTASSIUM ION × 28 AM2 APRAMYCIN × 3 MG MAGNESIUM ION × 57 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.12 Å |
| 8CGU Gentamicin bound to the 30S body Deposited 2023-02-06 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 12 PDB declaration: 14-meric |
Chain H
1–130（130 aa）
|
Not recorded | K POTASSIUM ION × 24 LLL (2R,3R,4R,5R)-2-((1S,2S,3R,4S,6R)-4,6-DIAMINO-3-((2R,3R,6S)-3-AMINO-6-(AMINOMETHYL)-TETRAHYDRO-2H-PYRAN-2-YLOXY)-2-HYDR OXYCYCLOHEXYLOXY)-5-METHYL-4-(METHYLAMINO)-TETRAHYDRO-2H-PYRAN-3,5-DIOL × 4 MG MAGNESIUM ION × 58 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 1.89 Å |
| 8HSP E. coli 70S ribosome complexed with tRNA_Ile2 bearing L34 and t6A37 in classical state Deposited 2022-12-20 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 55-meric |
Chain H
1–130（130 aa）
|
Not recorded | MG MAGNESIUM ION × 315 K POTASSIUM ION × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.6；The Buffer pH was adjusted to 7.6 using KOH.
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.32 Å |
| 8HTZ E. coli 70S ribosome complexed with H. marismortui tRNA_Ile2 bearing agm2C34 in classical state Deposited 2022-12-22 | 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: 55-meric |
Chain H
1–130（130 aa）
|
Not recorded | MG MAGNESIUM ION × 317 K POTASSIUM ION × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.6；The Buffer pH was adjusted to 7.6 using KOH.
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.40 Å |
| 8HU1 E. coli 70S ribosome complexed with tRNA_Ile2 bearing L34 and ct6A37 in classical state Deposited 2022-12-22 | 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: 55-meric |
Chain H
1–130（130 aa）
|
Not recorded | MG MAGNESIUM ION × 314 K POTASSIUM ION × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.6；The Buffer pH was adjusted to 7.6 using KOH.
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.69 Å |
| 8IFB Dibekacin-bound E.coli 70S ribosome in the PURE system Deposited 2023-02-17 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 55-meric |
Chain H
1–130（130 aa）
|
Not recorded | MG MAGNESIUM ION × 406 SPD SPERMIDINE × 14 84D Dibekacin × 13 SPM SPERMINE × 1 ZN ZINC ION × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.6
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.43 Å |
| 8IFC Arbekacin-bound E.coli 70S ribosome in the PURE system Deposited 2023-02-17 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 55-meric |
Chain H
1–130（130 aa）
|
Not recorded | MG MAGNESIUM ION × 460 SPD SPERMIDINE × 16 84G Arbekacin × 10 SPM SPERMINE × 1 ZN ZINC ION × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.6
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.90 Å |
| 8JSG Structure of the 30S-IF3 complex from Escherichia coli Deposited 2023-06-20 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 21 PDB declaration: 22-meric |
Chain p
2–130（129 aa）
|
Not recorded | No recorded non-water small molecule |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 4.60 Å |
| 8JSH Structure of the 30S-body-IF3 complex from Escherichia coli Deposited 2023-06-20 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 13 PDB declaration: tetradecameric |
Chain p
1–130（130 aa）
|
Not recorded | No recorded non-water small molecule |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 4.40 Å |
| 8K3O Cryo-EM structure of 30S ribosome with cleaved AP-mRNA bound complex I Deposited 2023-07-16 | 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: 22-meric |
Chain H
1–130（130 aa）
|
Not recorded | No recorded non-water small molecule |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.88 Å |
| 8K4E Cryo-EM structure of 30S ribosome with cleaved AP-mRNA bound complex-II Deposited 2023-07-18 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 20 PDB declaration: 22-meric |
Chain H
1–130（130 aa）
|
Not recorded | No recorded non-water small molecule |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.40 Å |
| 8P16 E167K RF2 on E. coli 70S release complex with UGG (Structure I) Deposited 2023-05-11 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 51 PDB declaration: 56-meric |
Chain m
1–130（130 aa）
|
Not recorded | MG MAGNESIUM ION × 330 SPD SPERMIDINE × 13 K POTASSIUM ION × 128 PUT 1,4-DIAMINOBUTANE × 13 SPM SPERMINE × 1 ZN ZINC ION × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5；HEPES-polymix buffer (pH-7.5)
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.77 Å |
| 8P17 E167K RF2 on E. coli 70S release complex with UGG (Structure II) Deposited 2023-05-11 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 51 PDB declaration: 56-meric |
Chain m
1–130（130 aa）
|
Not recorded | MG MAGNESIUM ION × 325 SPD SPERMIDINE × 13 K POTASSIUM ION × 128 PUT 1,4-DIAMINOBUTANE × 13 SPM SPERMINE × 1 ZN ZINC ION × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5；HEPES-polymix buffer (pH-7.5)
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.78 Å |
| 8P18 E167K RF2 on E. coli 70S release complex with UGG (Structure III) Deposited 2023-05-11 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 51 PDB declaration: 56-meric |
Chain m
1–130（130 aa）
|
Not recorded | MG MAGNESIUM ION × 321 SPD SPERMIDINE × 13 K POTASSIUM ION × 127 PUT 1,4-DIAMINOBUTANE × 13 SPM SPERMINE × 1 ZN ZINC ION × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5；HEPES-polymix buffer (pH-7.5)
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.77 Å |
| 8PEG Escherichia coli paused disome complex (queueing 70S non-rotated closed PRE state) Deposited 2023-06-13 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 54 PDB declaration: 61-meric |
Chain H
1–130（130 aa）
|
Not recorded | ZN ZINC ION × 2 MG MAGNESIUM ION × 260 ATP ADENOSINE-5'-TRIPHOSPHATE × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.6
cryo-EM vitrification conditions
Cryogen ETHANE；Withdrawn samples were spotted directly onto freshly glow-discharged holey carbon grids, blotted for 1-2 s, and flash frozen in liquid ethane using a Vitrobot Mark IV plunger (ThermoFisher Scientific) after a wait time of 40 s at 4 degrees Celcius.
|
Resolution 3.30 Å |
| 8PHJ cA4-bound Cami1 in complex with 70S ribosome Deposited 2023-06-20 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 54 PDB declaration: 61-meric |
Chain H
1–130（130 aa）
|
Not recorded | ZN ZINC ION × 2 MG MAGNESIUM ION × 241 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.67 Å |
| 8PKL Escherichia coli paused disome complex (leading 70S non-rotated closed PRE state) Deposited 2023-06-26 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 53 PDB declaration: 60-meric |
Chain H
1–130（130 aa）
|
Not recorded | ZN ZINC ION × 2 PUT 1,4-DIAMINOBUTANE × 2 SPD SPERMIDINE × 1 MG MAGNESIUM ION × 287 ALA ALANINE × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.6
cryo-EM vitrification conditions
Cryogen ETHANE；Withdrawn samples were spotted directly onto freshly glow-discharged holey carbon grids, blotted for 1-2 s, and flash frozen in liquid ethane using a Vitrobot Mark IV plunger (ThermoFisher Scientific) after a wait time of 40 s at 4 degrees Celcius.
|
Resolution 3.09 Å |
| 8PVA Structure of bacterial ribosome determined by cryoEM at 100 keV Deposited 2023-07-17 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 56-meric |
Chain H
1–130（130 aa）
|
Not recorded | ZN ZINC ION × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 4.50 Å |
| 8QBT E. coli ApdP-stalled ribosomal complex Deposited 2023-08-25 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 45 PDB declaration: 52-meric |
Chain p
1–130（130 aa）
|
Not recorded | MG MAGNESIUM ION × 248 K POTASSIUM ION × 127 PRO PROLINE × 1 ZN ZINC ION × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4
cryo-EM vitrification conditions
Cryogen ETHANE-PROPANE
|
Resolution 2.20 Å |
| 8QK7 E167K RF2 on E. coli 70S release complex with UAA Deposited 2023-09-14 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 51 PDB declaration: 56-meric |
Chain m
1–130（130 aa）
|
Not recorded | MG MAGNESIUM ION × 332 PUT 1,4-DIAMINOBUTANE × 21 K POTASSIUM ION × 126 SPD SPERMIDINE × 10 SPM SPERMINE × 2 ZN ZINC ION × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5；HEPES-polymix buffer (pH-7.5)
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.77 Å |
| 8QOA Structure of SecM-stalled Escherichia coli 70S ribosome Deposited 2023-09-28 | 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: 57-meric |
Chain H
1–130（130 aa）
|
Not recorded | ZN ZINC ION × 2 K POTASSIUM ION × 132 MG MAGNESIUM ION × 288 PRO PROLINE × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4
cryo-EM vitrification conditions
Cryogen ETHANE-PROPANE
|
Resolution 2.00 Å |
| 8R3V Escherichia coli paused disome complex (non-rotated disome interface) Deposited 2023-11-10 | 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 × 54 PDB declaration: 65-meric |
Chain H1
1–130（130 aa）
Chain H2
1–130（130 aa）
|
Not recorded | ZN ZINC ION × 2 PUT 1,4-DIAMINOBUTANE × 2 SPD SPERMIDINE × 1 MG MAGNESIUM ION × 297 ALA ALANINE × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.6
cryo-EM vitrification conditions
Cryogen ETHANE；Withdrawn samples were spotted directly onto freshly glow-discharged holey carbon grids, blotted for 1-2 s, and flash frozen in liquid ethane using a Vitrobot Mark IV plunger (ThermoFisher Scientific) after a wait time of 40 s at 4 degrees Celsius.
|
Resolution 3.28 Å |
| 8R6C 70S Escherichia coli ribosome with Paenilamicin B2 bound with A- and P-site tRNA. Deposited 2023-11-22 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 57-meric |
Chain H
1–130（130 aa）
|
Not recorded | ZN ZINC ION × 2 MG MAGNESIUM ION × 308 K POTASSIUM ION × 3 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4
cryo-EM vitrification conditions
Cryogen ETHANE-PROPANE
|
Resolution 2.20 Å |
| 8R8M 70S Escherichia coli ribosome with Paenilamicin B2 bound with hybrid A/P- and hybrid P/E-tRNA. Deposited 2023-11-29 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 56-meric |
Chain H
1–130（130 aa）
|
Not recorded | ZN ZINC ION × 2 MG MAGNESIUM ION × 307 K POTASSIUM ION × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4
cryo-EM vitrification conditions
Cryogen ETHANE-PROPANE
|
Resolution 2.40 Å |
| 8RCL Escherichia coli paused disome complex (Non-rotated disome interface class 1) Deposited 2023-12-06 | 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 × 54 PDB declaration: 65-meric |
Chain H1
1–130（130 aa）
Chain H2
1–130（130 aa）
|
Not recorded | ZN ZINC ION × 2 PUT 1,4-DIAMINOBUTANE × 2 SPD SPERMIDINE × 1 MG MAGNESIUM ION × 296 ALA ALANINE × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.6
cryo-EM vitrification conditions
Cryogen ETHANE；Withdrawn samples were spotted directly onto freshly glow-discharged holey carbon grids, blotted for 1-2 s, and flash frozen in liquid ethane using a Vitrobot Mark IV plunger (ThermoFisher Scientific) after a wait time of 40 s at 4 degrees Celcius.
|
Resolution 3.49 Å |
| 8RCM Escherichia coli paused disome complex (Non-rotated disome interface class 2) Deposited 2023-12-06 | 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 × 54 PDB declaration: 65-meric |
Chain H1
1–130（130 aa）
Chain H2
1–130（130 aa）
|
Not recorded | ZN ZINC ION × 2 PUT 1,4-DIAMINOBUTANE × 2 MG MAGNESIUM ION × 296 ALA ALANINE × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.6
cryo-EM vitrification conditions
Cryogen ETHANE；Withdrawn samples were spotted directly onto freshly glow-discharged holey carbon grids, blotted for 1-2 s, and flash frozen in liquid ethane using a Vitrobot Mark IV plunger (ThermoFisher Scientific) after a wait time of 40 s at 4 degrees Celcius.
|
Resolution 3.59 Å |
| 8RCS Escherichia coli paused disome complex (Rotated disome interface class 1) Deposited 2023-12-07 | 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 × 55 PDB declaration: 65-meric |
Chain H1
1–130（130 aa）
Chain H2
1–130（130 aa）
|
Not recorded | ZN ZINC ION × 2 PUT 1,4-DIAMINOBUTANE × 2 SPD SPERMIDINE × 1 MG MAGNESIUM ION × 269 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.6
cryo-EM vitrification conditions
Cryogen ETHANE；Withdrawn samples were spotted directly onto freshly glow-discharged holey carbon grids, blotted for 1-2 s, and flash frozen in liquid ethane using a Vitrobot Mark IV plunger (ThermoFisher Scientific) after a wait time of 40 s at 4 degrees Celcius.
|
Resolution 4.46 Å |
| 8RCT Escherichia coli paused disome complex (Rotated disome interface class 2) Deposited 2023-12-07 | 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 × 55 PDB declaration: 65-meric |
Chain H1
1–130（130 aa）
Chain H2
1–130（130 aa）
|
Not recorded | ZN ZINC ION × 2 PUT 1,4-DIAMINOBUTANE × 2 SPD SPERMIDINE × 1 MG MAGNESIUM ION × 268 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.6
cryo-EM vitrification conditions
Cryogen ETHANE；Withdrawn samples were spotted directly onto freshly glow-discharged holey carbon grids, blotted for 1-2 s, and flash frozen in liquid ethane using a Vitrobot Mark IV plunger (ThermoFisher Scientific) after a wait time of 40 s at 4 degrees Celcius.
|
Resolution 5.32 Å |
| 8Y5K E.coli transcription translation coupling complex in TTC-A state 2 containing mRNA with 27-mer spacer, NusG, NusA, fMet-tRNA(iMet), Phe-tRNA(Phe), and viomycin Deposited 2024-01-31 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Other combination Heteromer；Protein × 59 PDB declaration: 67-meric |
Chain M
1–130（130 aa）
|
Not recorded | MG MAGNESIUM ION × 1 GDP GUANOSINE-5'-DIPHOSPHATE × 1 PO4 PHOSPHATE ION × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 6.90 Å |
| 8Y5L E.coli transcription translation coupling complex in TTC-B state 1 (subclass1) containing mRNA with 30-mer spacer, NusG, NusA, fMet-tRNA(iMet), Phe-tRNA(Phe), and viomycin Deposited 2024-01-31 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Other combination Heteromer；Protein × 58 PDB declaration: 67-meric |
Chain M
1–130（130 aa）
|
Not recorded | MG MAGNESIUM ION × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.70 Å |
| 8Y5M E.coli transcription translation coupling complex in TTC-B state 2 containing mRNA with 27-mer spacer, NusG, NusA, fMet-tRNA(iMet), Phe-tRNA(Phe), and viomycin Deposited 2024-01-31 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Other combination Heteromer；Protein × 60 PDB declaration: 68-meric |
Chain M
1–130（130 aa）
|
Not recorded | MG MAGNESIUM ION × 1 GDP GUANOSINE-5'-DIPHOSPHATE × 1 PO4 PHOSPHATE ION × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 4.50 Å |
| 8Y5N E.coli transcription translation coupling complex in TTC-A state 3 containing mRNA with 21-mer spacer, NusG, NusA, fMet-tRNA(iMet), Phe-tRNA(Phe), and viomycin Deposited 2024-01-31 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Other combination Heteromer；Protein × 59 PDB declaration: 67-meric |
Chain M
1–130（130 aa）
|
Not recorded | GDP GUANOSINE-5'-DIPHOSPHATE × 1 PO4 PHOSPHATE ION × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 4.50 Å |
| 8Y5O E.coli transcription translation coupling complex in TTC-B state 3 (subclass1) containing mRNA with 30-mer spacer, NusG, NusA, fMet-tRNA(iMet), Phe-tRNA(Phe), and viomycin Deposited 2024-01-31 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Other combination Heteromer；Protein × 60 PDB declaration: 68-meric |
Chain M
1–130（130 aa）
|
Not recorded | MG MAGNESIUM ION × 1 GDP GUANOSINE-5'-DIPHOSPHATE × 1 PO4 PHOSPHATE ION × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 4.20 Å |
| 8Y5P E.coli transcription translation coupling complex in TTC-B state 4 (subclass 1) containing mRNA with 24-mer spacer, NusG, NusA, fMet-tRNA(iMet), Phe-tRNA(Phe), and viomycin Deposited 2024-01-31 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Other combination Heteromer；Protein × 60 PDB declaration: 67-meric |
Chain M
1–130（130 aa）
|
Not recorded | MG MAGNESIUM ION × 1 GDP GUANOSINE-5'-DIPHOSPHATE × 1 PO4 PHOSPHATE ION × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 6.50 Å |
| 8Y5Q E.coli transcription translation coupling complex in TTC-B state 4 (subclass 2) containing mRNA with 27-mer spacer, NusG, NusA, fMet-tRNA(iMet), Phe-tRNA(Phe), and GDPCP Deposited 2024-01-31 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Other combination Heteromer；Protein × 59 PDB declaration: 66-meric |
Chain M
1–130（130 aa）
|
Not recorded | MG MAGNESIUM ION × 1 GCP PHOSPHOMETHYLPHOSPHONIC ACID GUANYLATE ESTER × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.90 Å |
| 8Y5R E.coli Transcription translation coupling complex in TTC-B state 5 (subclass 1) containing mRNA with 27-mer spacer, NusG, NusA, fMet-tRNA(iMet), Phe-tRNA(Phe), and fusidic acid Deposited 2024-01-31 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Other combination Heteromer；Protein × 58 PDB declaration: 66-meric |
Chain M
1–130（130 aa）
|
Not recorded | MG MAGNESIUM ION × 1 FUA FUSIDIC ACID × 1 GDP GUANOSINE-5'-DIPHOSPHATE × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 4.50 Å |
| 8Y5S E.coli Transcription translation coupling complex in TTC-B state 5 (subclass 2) containing mRNA with 27-mer spacer, NusG, NusA, fMet-tRNA(iMet), Phe-tRNA(Phe), and GDPCP Deposited 2024-01-31 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Other combination Heteromer；Protein × 58 PDB declaration: 66-meric |
Chain M
1–130（130 aa）
|
Not recorded | MG MAGNESIUM ION × 1 GCP PHOSPHOMETHYLPHOSPHONIC ACID GUANYLATE ESTER × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 4.50 Å |
| 8Y5T E.coli Transcription translation coupling complex in TTC-B state 5 (subclass 3) containing mRNA with 27-mer spacer, NusG, NusA, fMet-tRNA(iMet), Phe-tRNA(Phe), and fusidic acid Deposited 2024-01-31 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Other combination Heteromer；Protein × 58 PDB declaration: 66-meric |
Chain M
1–130（130 aa）
|
Not recorded | MG MAGNESIUM ION × 1 FUA FUSIDIC ACID × 1 GDP GUANOSINE-5'-DIPHOSPHATE × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 4.40 Å |
| 8YDE E.coli transcription translation coupling complex in TTC-B state 1 (subclass 3) containing mRNA with 39-mer spacer, NusG, NusA, fMet-tRNA(iMet), Phe-tRNA(Phe), and viomycin Deposited 2024-02-20 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Other combination Heteromer；Protein × 58 PDB declaration: 67-meric |
Chain M
1–130（130 aa）
|
Not recorded | MG MAGNESIUM ION × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 5.00 Å |
| 8YDF E.coli transcription translation coupling complex in TTC-B state 1 (subclass 2) containing mRNA with 39-mer spacer, NusG, NusA, fMet-tRNA(iMet), Phe-tRNA(Phe), and viomycin Deposited 2024-02-20 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Other combination Heteromer；Protein × 58 PDB declaration: 67-meric |
Chain M
1–130（130 aa）
|
Not recorded | MG MAGNESIUM ION × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 4.60 Å |
| 8YDG E.coli transcription translation coupling complex in TTC-B state 3 (subclass2) containing mRNA with 39-mer spacer, NusG, NusA, fMet-tRNA(iMet), Phe-tRNA(Phe), and viomycin Deposited 2024-02-20 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Other combination Heteromer；Protein × 60 PDB declaration: 68-meric |
Chain M
1–130（130 aa）
|
Not recorded | MG MAGNESIUM ION × 1 GDP GUANOSINE-5'-DIPHOSPHATE × 1 PO4 PHOSPHATE ION × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 5.10 Å |
| 8YDH E.coli transcription translation coupling complex in TTC-P state 1 (subclass1) containing mRNA with 39-mer spacer, NusG, NusA, fMet-tRNA(iMet), Phe-tRNA(Phe), and viomycin Deposited 2024-02-20 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Other combination Heteromer；Protein × 58 PDB declaration: 67-meric |
Chain M
1–130（130 aa）
|
Not recorded | MG MAGNESIUM ION × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 4.55 Å |
| 8YDI E.coli transcription translation coupling complex in TTC-P state 1 (subclass 2) containing mRNA with 39-mer spacer, NusG, NusA, fMet-tRNA(iMet), Phe-tRNA(Phe), and viomycin Deposited 2024-02-20 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Other combination Heteromer；Protein × 58 PDB declaration: 67-meric |
Chain M
1–130（130 aa）
|
Not recorded | MG MAGNESIUM ION × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 4.60 Å |
| 8YDJ E.coli transcription translation coupling complex in TTC-P containing mRNA with 39-mer spacer, NusG, NusA, fMet-tRNA(iMet), Phe-tRNA(Phe), and viomycin Deposited 2024-02-20 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Other combination Heteromer；Protein × 60 PDB declaration: 68-meric |
Chain M
1–130（130 aa）
|
Not recorded | MG MAGNESIUM ION × 1 GDP GUANOSINE-5'-DIPHOSPHATE × 1 PO4 PHOSPHATE ION × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 5.10 Å |
| 8YUO E. coli 70S ribosome complexed with P. putida tRNAIle2 at the A-site and P-site Deposited 2024-03-27 | 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: 55-meric |
Chain H
1–130（130 aa）
|
Not recorded | MG MAGNESIUM ION × 309 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.6；The Buffer pH was adjusted to 7.6 using KOH.
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.25 Å |
| 8YUP E. coli 70S ribosome complexed with P. putida tRNAIle2 and A4 mRNA Deposited 2024-03-28 | 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: 55-meric |
Chain H
1–130（130 aa）
|
Not recorded | MG MAGNESIUM ION × 309 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.6；The Buffer pH was adjusted to 7.6 using KOH.
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.39 Å |
| 8YUQ E. coli 70S ribosome complexed with P. putida tRNAIle2 and dA4 mRNA Deposited 2024-03-27 | 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: 55-meric |
Chain H
1–130（130 aa）
|
Not recorded | MG MAGNESIUM ION × 309 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.6；The Buffer pH was adjusted to 7.6 using KOH.
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.41 Å |
| 8YUR E. coli 70S ribosome complexed with P. putida tRNAIle2 and Am4 mRNA Deposited 2024-03-27 | 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: 55-meric |
Chain H
1–130（130 aa）
|
Not recorded | MG MAGNESIUM ION × 309 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.6；The Buffer pH was adjusted to 7.6 using KOH.
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.47 Å |
| 8YUS E. coli 70S ribosome complexed with P.putida tRNAIle2 and A(F)4 mRNA Deposited 2024-03-27 | 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: 55-meric |
Chain H
1–130（130 aa）
|
Not recorded | MG MAGNESIUM ION × 309 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.6；The Buffer pH was adjusted to 7.6 using KOH.
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.43 Å |
| 8ZEJ Structure of E.coli ribosome in complex with an engineered arrest peptide Deposited 2024-05-06 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 56-meric |
Chain H
1–130（130 aa）
|
Not recorded | ZN ZINC ION × 1 PRO PROLINE × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.6；20 mM HEPES (pH 7.6), 140 mM NH4Cl, 25 mM MgCl2, 2 mM DTT
cryo-EM vitrification conditions
Cryogen NITROGEN
|
Resolution 2.69 Å |
| 8ZFF Structure of the Bacterial Ribosome without hypoxia-induced rRNA modifications Deposited 2024-05-07 | 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 H
1–130（130 aa）
|
Not recorded | MG MAGNESIUM ION × 457 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.6；The Buffer pH was adjusted to 7.6 using KOH.
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.59 Å |
| 8ZFG Structure of the Bacterial Ribosome with hypoxia-induced rRNA modifications Deposited 2024-05-07 | 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 H
1–130（130 aa）
|
Not recorded | MG MAGNESIUM ION × 471 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.6；The Buffer pH was adjusted to 7.6 using KOH.
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.68 Å |
| 8ZFI Structure of E.coli ribosome in complex with an engineered arrest peptide and trigger factor Deposited 2024-05-07 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 57-meric |
Chain H
1–130（130 aa）
|
Not recorded | ZN ZINC ION × 1 PRO PROLINE × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.6；20 mM HEPES (pH 7.6), 140 mM NH4Cl, 25 mM MgCl2, 2 mM DTT
cryo-EM vitrification conditions
Cryogen NITROGEN
|
Resolution 2.90 Å |
| 8ZTU 70S ribosome arrested by PepNL Deposited 2024-06-07 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 56-meric |
Chain H
1–130（130 aa）
|
Not recorded | MG MAGNESIUM ION × 300 K POTASSIUM ION × 47 SPD SPERMIDINE × 7 PUT 1,4-DIAMINOBUTANE × 1 ZN ZINC ION × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.6
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.90 Å |
| 8ZTV 70S ribosome arrested by PepNL with RF2 Deposited 2024-06-07 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 51 PDB declaration: 57-meric |
Chain H
1–130（130 aa）
|
Not recorded | MG MAGNESIUM ION × 301 K POTASSIUM ION × 47 SPD SPERMIDINE × 7 PUT 1,4-DIAMINOBUTANE × 1 ZN ZINC ION × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.6
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.90 Å |
| 9FBV 70S Escherichia coli ribosome with P-site initiatior tRNA. Deposited 2024-05-14 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 54-meric |
Chain H
1–130（130 aa）
|
Not recorded | ZN ZINC ION × 2 MG MAGNESIUM ION × 306 K POTASSIUM ION × 3 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4
cryo-EM vitrification conditions
Cryogen ETHANE-PROPANE
|
Resolution 2.40 Å |
| 9FCO Structure of E. coli 30S-IF1-IF3-mRNA-Kasugamycin complex Deposited 2024-05-15 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 14 PDB declaration: 16-meric |
Chain H
1–130（130 aa）
|
Not recorded | KSG (1S,2R,3S,4R,5S,6S)-2,3,4,5,6-PENTAHYDROXYCYCLOHEXYL 2-AMINO-4-{[CARBOXY(IMINO)METHYL]AMINO}-2,3,4,6-TETRADEOXY-ALPHA-D-ARABINO-HEXOPYRANOSIDE × 1 MG MAGNESIUM ION × 53 K POTASSIUM ION × 25 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE-PROPANE
|
Resolution 2.40 Å |
| 9FDA Structure of E. coli 30S-IF1-IF3-mRNA-Edeine complex Deposited 2024-05-16 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 14 PDB declaration: 15-meric |
Chain H
1–130（130 aa）
|
Not recorded | K POTASSIUM ION × 25 MG MAGNESIUM ION × 53 EDE EDEINE B × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE-PROPANE
|
Resolution 2.00 Å |
| 9FIB Structure of 30S-IF1-IF3-mRNA-GE81112A complex Deposited 2024-05-29 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 14 PDB declaration: 16-meric |
Chain H
1–130（130 aa）
|
Not recorded | A1IC4 (2S,3S)-2-[[(2S)-2-[[(2S,4S)-5-aminocarbonyloxy-4-oxidanyl-2-[[(2S,3R)-3-oxidanylpiperidin-2-yl]carbonylamino]pentanoyl]amino]-3-(1H-imidazol-4-yl)propanoyl]amino]-3-(2-chloranyl-1H-imidazol-4-yl)-3-oxidanyl-propanoic acid × 1 K POTASSIUM ION × 25 MG MAGNESIUM ION × 49 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE-PROPANE
|
Resolution 2.30 Å |
| 9G06 Structure of 30S-IF1-IF3-mRNA-fMet-tRNA-GE81112A complex Deposited 2024-07-07 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 21 PDB declaration: 24-meric |
Chain H
1–130（130 aa）
|
Not recorded | K POTASSIUM ION × 25 MG MAGNESIUM ION × 49 A1IC4 (2S,3S)-2-[[(2S)-2-[[(2S,4S)-5-aminocarbonyloxy-4-oxidanyl-2-[[(2S,3R)-3-oxidanylpiperidin-2-yl]carbonylamino]pentanoyl]amino]-3-(1H-imidazol-4-yl)propanoyl]amino]-3-(2-chloranyl-1H-imidazol-4-yl)-3-oxidanyl-propanoic acid × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE-PROPANE
|
Resolution 2.85 Å |
| 9GFT Structure of the HrpA-bound E. coli disome, Class I Deposited 2024-08-12 | 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 × 105 PDB declaration: 116-meric |
Chain 7
1–130（130 aa）
Chain AH
1–130（130 aa）
|
Not recorded | No recorded non-water small molecule |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.10 Å |
| 9GGR Structure of the HrpA-bound E. coli disome, Class II Deposited 2024-08-14 | 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 × 106 PDB declaration: 117-meric |
Chain 7
1–130（130 aa）
Chain AH
1–130（130 aa）
|
Not recorded | No recorded non-water small molecule |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.20 Å |
| 9GHA Fusidic acid-locked Escherichia coli 70S ribosome with Staphylococcus aureus EF-G and a tRNA in pe/E chimeric state (CHI) Deposited 2024-08-15 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 55-meric |
Chain H
1–130（130 aa）
|
Not recorded | ZN ZINC ION × 2 K POTASSIUM ION × 94 MG MAGNESIUM ION × 271 GDP GUANOSINE-5'-DIPHOSPHATE × 1 FUA FUSIDIC ACID × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.24 Å |
| 9GHB Fusidic acid-locked Escherichia coli 70S ribosome with Staphylococcus aureus EF-G in post-translocational state (POST) Deposited 2024-08-15 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 55-meric |
Chain H
1–130（130 aa）
|
Not recorded | ZN ZINC ION × 2 K POTASSIUM ION × 111 MG MAGNESIUM ION × 303 GDP GUANOSINE-5'-DIPHOSPHATE × 1 FUA FUSIDIC ACID × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.21 Å |
| 9GHC Pre-release fusidic acid-locked Escherichia coli 70S ribosome with Staphylococus aureus EF-G and FusB (FusB-EF-G-70S) Deposited 2024-08-15 | 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 H
1–130（130 aa）
|
Not recorded | ZN ZINC ION × 3 K POTASSIUM ION × 109 MG MAGNESIUM ION × 301 GDP GUANOSINE-5'-DIPHOSPHATE × 1 FUA FUSIDIC ACID × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.79 Å |
| 9GHD Escherichia coli 70S ribosome in complex with Staphylococcus aureus FusB-EF-G (FusB-EF-G-70S*) Deposited 2024-08-15 | 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 H
1–130（130 aa）
|
Not recorded | ZN ZINC ION × 2 K POTASSIUM ION × 112 MG MAGNESIUM ION × 303 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.41 Å |
| 9GHE Staphylococcus aureus FusB bound to the small subunit of the Escherichia coli 70S ribosome (FusB-70S:SSU) Deposited 2024-08-15 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 55-meric |
Chain H
1–130（130 aa）
|
Not recorded | ZN ZINC ION × 3 K POTASSIUM ION × 112 MG MAGNESIUM ION × 303 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 1.87 Å |
| 9GHF Staphylococcus aureus FusB bound to the large subunit of the Escherichia coli 70S ribosome (FusB-70S:LSU) Deposited 2024-08-15 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 55-meric |
Chain H
1–130（130 aa）
|
Not recorded | ZN ZINC ION × 3 K POTASSIUM ION × 112 MG MAGNESIUM ION × 303 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.40 Å |
| 9GUP 30S mRNA delivery complex (open head) Deposited 2024-09-20 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 21 PDB declaration: 23-meric |
Chain I
1–130（130 aa）
|
Not recorded | MG MAGNESIUM ION × 86 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.80 Å |
| 9GUQ 30S PIC (Pre-Initiation complex) Deposited 2024-09-20 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 21 PDB declaration: 24-meric |
Chain I
1–130（130 aa）
|
Not recorded | MG MAGNESIUM ION × 128 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.10 Å |
| 9GUS 30S mRNA delivery complex TEC resolved (30S only) Deposited 2024-09-20 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 21 PDB declaration: 24-meric |
Chain I
1–130（130 aa）
|
Not recorded | MG MAGNESIUM ION × 125 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.50 Å |
| 9GUT 30S mRNA delivery complex (bS1 resolved) Deposited 2024-09-20 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 21 PDB declaration: 24-meric |
Chain I
1–130（130 aa）
|
Not recorded | MG MAGNESIUM ION × 137 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.80 Å |
| 9GUU 30S mRNA delivery complex (consensus) Deposited 2024-09-20 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 21 PDB declaration: 24-meric |
Chain I
1–130（130 aa）
|
Not recorded | MG MAGNESIUM ION × 120 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.50 Å |
| 9GUV 30S mRNA delivery complex (closed-head) Deposited 2024-09-20 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 21 PDB declaration: 24-meric |
Chain I
1–130（130 aa）
|
Not recorded | MG MAGNESIUM ION × 86 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.00 Å |
| 9GUW 30S-TEC (TEC in expressome position) Inactive state 2 Deposited 2024-09-20 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Other combination Heteromer；Protein × 26 PDB declaration: 30-meric |
Chain I
1–130（130 aa）
|
Not recorded | MG MAGNESIUM ION × 118 ZN ZINC ION × 3 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.10 Å |
| 9GUX 30S-TEC (TEC in expressome position) Inactive state 1 Deposited 2024-09-20 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Other combination Heteromer；Protein × 27 PDB declaration: 31-meric |
Chain I
1–130（130 aa）
|
Not recorded | MG MAGNESIUM ION × 132 ZN ZINC ION × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.30 Å |
| 9GXX 70S ribosome with doublet-decoding tRNASer3 bound to A-site GCA codon Deposited 2024-10-01 | 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: 56-meric |
Chain H
1–130（130 aa）
|
Not recorded | MG MAGNESIUM ION × 288 SPD SPERMIDINE × 7 PUT 1,4-DIAMINOBUTANE × 7 SPM SPERMINE × 1 ZN ZINC ION × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5；HEPES-polymix buffer (pH-7.5)
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.61 Å |
| 9H0L 70S ribosome with cognate tRNASer3 bound to A-site AGC codon Deposited 2024-10-08 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 56-meric |
Chain H
1–130（130 aa）
|
Not recorded | MG MAGNESIUM ION × 314 SPD SPERMIDINE × 6 SPM SPERMINE × 1 PUT 1,4-DIAMINOBUTANE × 6 ZN ZINC ION × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5；HEPES-polymix buffer (pH-7.5)
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.49 Å |
| 9H8G Complex 5 30S-GE81112 Deposited 2024-10-29 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 12 PDB declaration: 13-meric |
Chain H
1–130（130 aa）
|
Not recorded | A1IC4 (2S,3S)-2-[[(2S)-2-[[(2S,4S)-5-aminocarbonyloxy-4-oxidanyl-2-[[(2S,3R)-3-oxidanylpiperidin-2-yl]carbonylamino]pentanoyl]amino]-3-(1H-imidazol-4-yl)propanoyl]amino]-3-(2-chloranyl-1H-imidazol-4-yl)-3-oxidanyl-propanoic acid × 1 MG MAGNESIUM ION × 99 K POTASSIUM ION × 35 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 8
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.09 Å |
| 9H9H Complex 1 30S-IF1-IF2-IF3-GE81112 Deposited 2024-10-31 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 23 PDB declaration: 26-meric |
Chain H
1–130（130 aa）
|
Not recorded | K POTASSIUM ION × 5 MG MAGNESIUM ION × 152 A1IC4 (2S,3S)-2-[[(2S)-2-[[(2S,4S)-5-aminocarbonyloxy-4-oxidanyl-2-[[(2S,3R)-3-oxidanylpiperidin-2-yl]carbonylamino]pentanoyl]amino]-3-(1H-imidazol-4-yl)propanoyl]amino]-3-(2-chloranyl-1H-imidazol-4-yl)-3-oxidanyl-propanoic acid × 1 ZN ZINC ION × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.7
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.80 Å |
| 9H9J Complex 2 (BODY) 30S-IF1-IF3-tRNA-GE81112 Deposited 2024-10-31 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 14 PDB declaration: 15-meric |
Chain H
1–130（130 aa）
|
Not recorded | A1IC4 (2S,3S)-2-[[(2S)-2-[[(2S,4S)-5-aminocarbonyloxy-4-oxidanyl-2-[[(2S,3R)-3-oxidanylpiperidin-2-yl]carbonylamino]pentanoyl]amino]-3-(1H-imidazol-4-yl)propanoyl]amino]-3-(2-chloranyl-1H-imidazol-4-yl)-3-oxidanyl-propanoic acid × 1 MG MAGNESIUM ION × 91 K POTASSIUM ION × 4 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.7
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.20 Å |
| 9H9L Complex 3 (BODY) 30S-tRNA-GE81112 Deposited 2024-10-31 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 12 PDB declaration: 13-meric |
Chain H
1–130（130 aa）
|
Not recorded | A1IC4 (2S,3S)-2-[[(2S)-2-[[(2S,4S)-5-aminocarbonyloxy-4-oxidanyl-2-[[(2S,3R)-3-oxidanylpiperidin-2-yl]carbonylamino]pentanoyl]amino]-3-(1H-imidazol-4-yl)propanoyl]amino]-3-(2-chloranyl-1H-imidazol-4-yl)-3-oxidanyl-propanoic acid × 1 MG MAGNESIUM ION × 92 K POTASSIUM ION × 6 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.7
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.20 Å |
| 9H9N Complex 4 (BODY) 30S-GE81112 (weak residual tRNA) Deposited 2024-10-31 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 12 PDB declaration: 13-meric |
Chain H
1–130（130 aa）
|
Not recorded | A1IC4 (2S,3S)-2-[[(2S)-2-[[(2S,4S)-5-aminocarbonyloxy-4-oxidanyl-2-[[(2S,3R)-3-oxidanylpiperidin-2-yl]carbonylamino]pentanoyl]amino]-3-(1H-imidazol-4-yl)propanoyl]amino]-3-(2-chloranyl-1H-imidazol-4-yl)-3-oxidanyl-propanoic acid × 1 MG MAGNESIUM ION × 95 K POTASSIUM ION × 11 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.7
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.10 Å |
| 9IOT Cryo-EM structure of Escherichia coli hibernating ribosome with RNase I mutant Deposited 2024-07-09 | 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: 56-meric |
Chain h
1–130（130 aa）
|
Not recorded | MG MAGNESIUM ION × 475 CA CALCIUM ION × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.6；20 mM HEPES-KOH (pH 7.6), 10 mM Mg(OAc)2, 30 mM NH4Cl, and 6 mM 2-mercaptoethanol
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.70 Å |
| 9JPM Structure of the Bacterial Ribosome with human tRNA Lys(mcm5s2U34) and mRNA(AAA) Deposited 2024-09-26 | 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: 55-meric |
Chain H
1–130（130 aa）
|
Not recorded | MG MAGNESIUM ION × 391 ZN ZINC ION × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.6；The Buffer pH was adjusted to 7.6 using KOH.
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.43 Å |
| 9JPO Structure of the Bacterial Ribosome with human tRNA Lys(mcm5h2U34) and mRNA(AAA) Deposited 2024-09-26 | 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: 55-meric |
Chain H
1–130（130 aa）
|
Not recorded | MG MAGNESIUM ION × 448 ZN ZINC ION × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.6；The Buffer pH was adjusted to 7.6 using KOH.
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.18 Å |
| 9JPP Structure of the Bacterial Ribosome with human tRNA Lys(mcm5s2U34) and mRNA(AAG) Deposited 2024-09-26 | 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: 55-meric |
Chain H
1–130（130 aa）
|
Not recorded | MG MAGNESIUM ION × 443 ZN ZINC ION × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.6；The Buffer pH was adjusted to 7.6 using KOH.
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.26 Å |
| 9JQ2 Structure of the Bacterial Ribosome with human tRNA Lys(mcm5h2U34) and mRNA(AAG) Deposited 2024-09-27 | 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: 55-meric |
Chain H
1–130（130 aa）
|
Not recorded | MG MAGNESIUM ION × 438 ZN ZINC ION × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.6；The Buffer pH was adjusted to 7.6 using KOH.
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.61 Å |
| 9N2B Impacts of ribosomal RNA sequence variation on gene expression and phenotype: Cryo-EM structure of the rrsB ribosome (BBB-70S) Deposited 2025-01-28 | 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 SH
1–130（130 aa）
|
Not recorded | PUT 1,4-DIAMINOBUTANE × 9 SPD SPERMIDINE × 5 MG MAGNESIUM ION × 276 K POTASSIUM ION × 56 ZN ZINC ION × 3 ATP ADENOSINE-5'-TRIPHOSPHATE × 2 FME N-FORMYLMETHIONINE × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.20 Å |
| 9N2C Impacts of ribosomal RNA sequence variation on gene expression and phenotype: Cryo-EM structure of the rrsH ribosome (HBB-70S) Deposited 2025-01-28 | 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 SH
1–130（130 aa）
|
Not recorded | PUT 1,4-DIAMINOBUTANE × 10 SPD SPERMIDINE × 5 MG MAGNESIUM ION × 283 K POTASSIUM ION × 49 ZN ZINC ION × 3 ATP ADENOSINE-5'-TRIPHOSPHATE × 2 FME N-FORMYLMETHIONINE × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.40 Å |
| 9PZG Bacterial ribosomal 2'-O-methyltransferase RsmI in complex with the small ribosomal subunit Deposited 2025-08-11 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 22 PDB declaration: 23-meric |
Chain H
1–130（130 aa）
|
Not recorded | AN6 5'-{[(3S)-3-amino-3-carboxypropyl](ethyl)amino}-5'-deoxyadenosine × 2 MG MAGNESIUM ION × 79 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.6；10 mM HEPES, 10 mM MgCl2, 100 mM NH4Cl, 6 mM Beta-mercaptoethanol
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.42 Å |
| 9Q87 Principles of ion binding to RNA inferred from the analysis of a 1.55 Angstrom resolution bacterial ribosome structure - Part I: Mg2+ Deposited 2025-02-23 | 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: 55-meric |
Chain H
1–130（130 aa）
|
Not recorded | K POTASSIUM ION × 235 MG MAGNESIUM ION × 415 CU1 COPPER (I) ION × 5 ZN ZINC ION × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 1.55 Å |
| 9QQQ Cryo-EM structure of SKM-70S ribosomal stalled complex in the major state (vacant A-site, canon) Deposited 2025-04-01 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 55-meric |
Chain H
1–130（130 aa）
|
Not recorded | ZN ZINC ION × 2 A1JA7 [(2~{S},3~{S},4~{R},5~{R},6~{S})-4-[(2~{S},3~{R},4~{S},5~{R},6~{S})-5-acetamido-6-(hydroxymethyl)-4-[(2~{R},3~{R},4~{S},5~{S},6~{R})-6-(hydroxymethyl)-4-[(2~{S},3~{R},4~{R},5~{R},6~{R})-6-(hydroxymethyl)-5-methoxy-3,4-bis(oxidanyl)oxan-2-yl]oxy-3,5-bis(oxidanyl)oxan-2-yl]oxy-3-oxidanyl-oxan-2-yl]oxy-6-carbamimidamido-2-(hydroxymethyl)-5-oxidanyl-oxan-3-yl] carbamate × 1 MG MAGNESIUM ION × 312 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4
cryo-EM vitrification conditions
Cryogen ETHANE-PROPANE
|
Resolution 2.26 Å |
| 9QSJ Cryo-EM structure of SKM-70S ribosomal stalled complex in the A-tRNA positioned (Body open) state. Deposited 2025-04-05 | 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: 55-meric |
Chain H
1–130（130 aa）
|
Not recorded | ZN ZINC ION × 2 A1JAI [(2~{S},3~{S},4~{R},5~{R},6~{S})-4-[(2~{S},3~{R},4~{S},5~{R},6~{S})-5-acetamido-6-(hydroxymethyl)-4-[(2~{R},3~{R},4~{S},5~{S},6~{R})-6-(hydroxymethyl)-4-[(2~{S},3~{R},4~{R},5~{R},6~{R})-6-(hydroxymethyl)-5-methoxy-3,4-bis(oxidanyl)oxan-2-yl]oxy-3,5-bis(oxidanyl)oxan-2-yl]oxy-3-oxidanyl-oxan-2-yl]oxy-2-(hydroxymethyl)-6-[[~{N}-[4-[(~{N}-methylcarbamimidoyl)amino]butyl]carbamimidoyl]amino]-5-oxidanyl-oxan-3-yl] carbamate × 1 MG MAGNESIUM ION × 311 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4
cryo-EM vitrification conditions
Cryogen ETHANE-PROPANE
|
Resolution 2.62 Å |
| 9R3A Structure of Stalled Beta-Galactosidase 70S Ribosome Nascent Chain Deposited 2025-05-03 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 56-meric |
Chain H
1–130（130 aa）
|
Not recorded | ZN ZINC ION × 2 K POTASSIUM ION × 131 MG MAGNESIUM ION × 287 PRO PROLINE × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.2
cryo-EM vitrification conditions
Cryogen ETHANE-PROPANE
|
Resolution 2.86 Å |
| 9RBF Structure of a stalled E. coli 70S RNC-NuoK-86 in complex with the membrane protein insertase SecYEG-YidC Deposited 2025-05-22 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 54 PDB declaration: 61-meric |
Chain H
1–130（130 aa）
|
Not recorded | No recorded non-water small molecule | ELECTRON MICROSCOPY mmCIF provides none of the parsed conditions | Resolution 2.44 Å |
| 9RJA Manikomycin bound to the Escherichia coli 70S ribosome Deposited 2025-06-12 | 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: 57-meric |
Chain H
1–130（130 aa）
|
Not recorded | ZN ZINC ION × 2 MG MAGNESIUM ION × 309 K POTASSIUM ION × 2 PAR PAROMOMYCIN × 1 SPD SPERMIDINE × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4
cryo-EM vitrification conditions
Cryogen ETHANE-PROPANE
|
Resolution 2.45 Å |
| 9RTU Structure of the 70S-EF-G(P610L)-GDP-Pi ribosome complex with tRNAs in hybrid state 1 (H1-EF-G(P610L)-GDP-Pi) Deposited 2025-07-03 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 53 PDB declaration: 59-meric |
Chain h
1–130（130 aa）
|
Not recorded | MG MAGNESIUM ION × 369 ZN ZINC ION × 2 NA SODIUM ION × 2 AM2 APRAMYCIN × 3 PO4 PHOSPHATE ION × 1 GDP GUANOSINE-5'-DIPHOSPHATE × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5；50 mM HEPES, 70 mM NH4Cl, 30 mM KCl, 3.5 mM MgCl2, 0.6 mM spermine, 0.4 mM spermidine
cryo-EM vitrification conditions
Cryogen ETHANE；Manual blotting & plunge-freezing
|
Resolution 3.00 Å |
| 9RTV Structure of the 70S-EF-G(P610L)-GDP-Pi ribosome complex with tRNAs in hybrid state 2 (H2-EF-G(P610L)-GDP-Pi) Deposited 2025-07-03 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 53 PDB declaration: 59-meric |
Chain h
1–130（130 aa）
|
Not recorded | MG MAGNESIUM ION × 369 ZN ZINC ION × 2 NA SODIUM ION × 2 AM2 APRAMYCIN × 3 GDP GUANOSINE-5'-DIPHOSPHATE × 1 PO4 PHOSPHATE ION × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5；50 mM HEPES, 70 mM NH4Cl, 30 mM KCl, 3.5 mM MgCl2, 0.6 mM spermine, 0.4 mM spermidine
cryo-EM vitrification conditions
Cryogen ETHANE；Manual blotting & plunge-freezing
|
Resolution 3.60 Å |
| 9SLG Doxycycline Bound E. coli Ribosome with Rearranged Peptidyl Transferase Centre Deposited 2025-09-03 | 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: 54-meric |
Chain H
1–130（130 aa）
|
Not recorded | ZN ZINC ION × 2 MG MAGNESIUM ION × 447 K POTASSIUM ION × 77 DXT (4S,4AR,5S,5AR,6R,12AS)-4-(DIMETHYLAMINO)-3,5,10,12,12A-PENTAHYDROXY-6-METHYL-1,11-DIOXO-1,4,4A,5,5A,6,11,12A-OCTAHYDROTETRACENE-2-CARBOXAMIDE × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5；BS100 ribosomal resuspension buffer
cryo-EM vitrification conditions
Cryogen ETHANE；Blot time 4 s, blot force 1, blot total 1
|
Resolution 2.16 Å |
| 9SRO Cryo-EM structure of SKM-70S ribosomal stalled complex in the rotated state with hybrid tRNAs Deposited 2025-09-24 | 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: 54-meric |
Chain H
1–130（130 aa）
|
Not recorded | ZN ZINC ION × 2 MG MAGNESIUM ION × 309 A1JAI [(2~{S},3~{S},4~{R},5~{R},6~{S})-4-[(2~{S},3~{R},4~{S},5~{R},6~{S})-5-acetamido-6-(hydroxymethyl)-4-[(2~{R},3~{R},4~{S},5~{S},6~{R})-6-(hydroxymethyl)-4-[(2~{S},3~{R},4~{R},5~{R},6~{R})-6-(hydroxymethyl)-5-methoxy-3,4-bis(oxidanyl)oxan-2-yl]oxy-3,5-bis(oxidanyl)oxan-2-yl]oxy-3-oxidanyl-oxan-2-yl]oxy-2-(hydroxymethyl)-6-[[~{N}-[4-[(~{N}-methylcarbamimidoyl)amino]butyl]carbamimidoyl]amino]-5-oxidanyl-oxan-3-yl] carbamate × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4
cryo-EM vitrification conditions
Cryogen ETHANE-PROPANE
|
Resolution 2.60 Å |
| 9SS0 30S ribosomal subunit RimM-KO with IF1 and IF3 (State I) Deposited 2025-09-25 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 17 PDB declaration: 18-meric |
Chain AG
1–130（130 aa）
|
Not recorded | No recorded non-water small molecule |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.00 Å |
| 9SS1 30S ribosomal subunit RimM-KO with IF1 and IF3 (State II) Deposited 2025-09-25 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 19 PDB declaration: 20-meric |
Chain AG
1–130（130 aa）
|
Not recorded | No recorded non-water small molecule |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.90 Å |
| 9SS2 30S ribosomal subunit RimM-KO with IF1 and IF3 (State III) Deposited 2025-09-25 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 22 PDB declaration: 23-meric |
Chain AG
1–130（130 aa）
|
Not recorded | No recorded non-water small molecule |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.90 Å |
| 9SS6 70S ribosome from RimM-KO Deposited 2025-09-25 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 52 PDB declaration: 55-meric |
Chain AG
1–130（130 aa）
|
Not recorded | No recorded non-water small molecule |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.60 Å |
| 9SYH E. coli 70S ribosome from deltaRlmE strain Deposited 2025-10-12 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 56-meric |
Chain H
1–130（130 aa）
|
Not recorded | K POTASSIUM ION × 148 MG MAGNESIUM ION × 351 SR0 N~1~-(3-azaniumylpropyl)butane-1,4-diaminium × 6 PUT 1,4-DIAMINOBUTANE × 9 ZN ZINC ION × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5；HEPES-polymix buffer (pH-7.5)
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 1.89 Å |
| 9T0Y E. coli 70S ribosome from delta-9 strain Deposited 2025-10-20 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 56-meric |
Chain H
1–130（130 aa）
|
Not recorded | K POTASSIUM ION × 143 MG MAGNESIUM ION × 337 SR0 N~1~-(3-azaniumylpropyl)butane-1,4-diaminium × 6 PUT 1,4-DIAMINOBUTANE × 9 ZN ZINC ION × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5；HEPES-polymix buffer (pH-7.5)
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 1.87 Å |
| 9T6M E. coli 70S ribosome from delta-10 strain Deposited 2025-11-07 | 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 H
1–130（130 aa）
|
Not recorded | K POTASSIUM ION × 132 MG MAGNESIUM ION × 316 SR0 N~1~-(3-azaniumylpropyl)butane-1,4-diaminium × 5 PUT 1,4-DIAMINOBUTANE × 8 ZN ZINC ION × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5；HEPES-polymix buffer (pH-7.5)
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 1.87 Å |
| 9TEW DalDro bound to the initiating Escherichia coli 70S ribosome Deposited 2025-11-26 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 55-meric |
Chain H
1–130（130 aa）
|
Not recorded | ZN ZINC ION × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4
cryo-EM vitrification conditions
Cryogen ETHANE-PROPANE
|
Resolution 2.90 Å |
| 9TEX Dal2 bound to the Escherichia coli 70S ribosome Deposited 2025-11-26 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 55-meric |
Chain H
1–130（130 aa）
|
Not recorded | ZN ZINC ION × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4
cryo-EM vitrification conditions
Cryogen ETHANE-PROPANE
|
Resolution 2.54 Å |
| 9TMI E. coli 70S ribosome with A- and P-site tRNA Deposited 2025-12-13 | 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 H
1–130（130 aa）
|
Not recorded | ZN ZINC ION × 2 MG MAGNESIUM ION × 258 SCM SPECTINOMYCIN × 1 VAL VALINE × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.6
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.08 Å |
| 9TNL E. coli 70S ribosome with A/P- and P/E-site tRNA Deposited 2025-12-16 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 55-meric |
Chain H
1–130（130 aa）
|
Not recorded | ZN ZINC ION × 2 SCM SPECTINOMYCIN × 1 MG MAGNESIUM ION × 266 K POTASSIUM ION × 52 VAL VALINE × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.6
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.11 Å |
| 9TQA E. coli 70S ribosome, trapped conformational ground state of SSU-h44 apical loop, with A- and P-site tRNA Deposited 2025-12-19 | 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 H
1–130（130 aa）
|
Not recorded | ZN ZINC ION × 2 SCM SPECTINOMYCIN × 1 MG MAGNESIUM ION × 238 VAL VALINE × 1 K POTASSIUM ION × 6 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.6
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.06 Å |
| 9WNQ Structure of E.coli ribosome in complex with an engineered arrest peptide Deposited 2025-09-05 | 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: 56-meric |
Chain H
1–130（130 aa）
|
Not recorded | ZN ZINC ION × 1 PRO PROLINE × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.6；20 mM HEPES (pH 7.6), 140 mM NH4Cl, 25 mM MgCl2, 2 mM DTT
cryo-EM vitrification conditions
Cryogen NITROGEN
|
Resolution 2.59 Å |
| 9WNR Structure of E.coli ribosome in complex with an engineered arrest peptide and trigger factor Deposited 2025-09-05 | 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: 57-meric |
Chain H
1–130（130 aa）
|
Not recorded | ZN ZINC ION × 1 PRO PROLINE × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.6；20 mM HEPES (pH 7.6), 140 mM NH4Cl, 25 mM MgCl2, 2 mM DTT
cryo-EM vitrification conditions
Cryogen NITROGEN
|
Resolution 2.76 Å |
| 9XTC E.coli delta lepA 30S ribosomal subunit class C, body domain Deposited 2025-11-22 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 12 PDB declaration: tridecameric |
Chain H
1–130（130 aa）
|
Not recorded | MG MAGNESIUM ION × 39 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.10 Å |
| 9XTD E.coli delta lepA 30S ribosomal subunit class B, body domain Deposited 2025-11-22 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 12 PDB declaration: tridecameric |
Chain H
2–130（129 aa）
|
Not recorded | MG MAGNESIUM ION × 39 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.26 Å |
| 9XTE E.coli delta lepA 30S ribosomal subunit class A, body domain Deposited 2025-11-22 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 12 PDB declaration: tridecameric |
Chain H
1–130（130 aa）
|
Not recorded | MG MAGNESIUM ION × 34 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.24 Å |
| 9ZTL Single Particle Cryo EM Analysis of a Ribosome Nascent Globin Complex Deposited 2025-12-23 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 55-meric |
Chain H
1–130（130 aa）
|
Not recorded | ZN ZINC ION × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.91 Å |
390 other PDB entries and 436 assemblies. Open the comparison page and filter oligomeric states
View Construct and Data Evidence
| UniProt name | RS8_ECOLI |
| Isoform | — |
| PDB entities | 2 |
| Chains and sequence ranges | Author chain G； PDBConstruct 1–129； UniProt 1–129 Author chain H； PDBConstruct 1–129； UniProt 1–129 |
