50S ribosomal protein L2
OrganismNot specified
State in the Current Structure
| Assembly | Oligomeric State | Construct | Mutations and Modifications | Ligands, Ions and Associated Components | Method and Experimental Conditions | Structure Quality |
|---|---|---|---|---|---|---|
| 1 | Protein–RNA Heteromer Protein × 52 RNA 7 PDB declaration: 59-meric（59） Consistent with all polymer counts | Chain b； UniProt 2–272 | Not recorded | 50S ribosomal protein L3 × 1 （P60438） 50S ribosomal protein L4 × 1 （D7Z9F6） 50S ribosomal protein L5 × 1 （S1EUW9） 50S ribosomal protein L6 × 1 （E9YV47） 50S ribosomal protein L9 × 1 （D7ZI15） 50S ribosomal protein L10 × 1 （D6I3M6） 50S ribosomal protein L11 × 1 （S1ERR4） 50S ribosomal protein L13 × 1 （D7ZET0） 50S ribosomal protein L14 × 1 （U9YFU2） 50S ribosomal protein L15 × 1 （A0A037Y8L6） 50S ribosomal protein L16 × 1 （P0ADY7） 50S ribosomal protein L17 × 1 （D6I1Y5） 50S ribosomal protein L18 × 1 （F4TL27） 50S ribosomal protein L19 × 1 （I2XAW2） 50S ribosomal protein L20 × 1 （L3CCT0） 50S ribosomal protein L21 × 1 （D7ZEN7） 50S ribosomal protein L22 × 1 （D7Z9G0） 50S ribosomal protein L23 × 1 （D6I208） 50S ribosomal protein L24 × 1 （D7XKZ6） 50S ribosomal protein L25 × 1 （D7XH79） 50S ribosomal protein L27 × 1 （I2X5R7） 50S ribosomal protein L28 × 1 （J7RMJ2） 50S ribosomal protein L29 × 1 （D7Z9G3） 50S ribosomal protein L30 × 1 （I2X1N4） 50S ribosomal protein L32 × 1 （E3PJQ3） 50S ribosomal protein L33 × 1 （L3NSS9） 50S ribosomal protein L34 × 1 （B7MGC4） 50S ribosomal protein L35 × 1 （G0F552） 50S ribosomal protein L36 × 1 （A0A0E2L017） 30S ribosomal protein S2 × 1 （C3TPN2） 30S ribosomal protein S3 × 1 （A0A376HTV6） 30S ribosomal protein S4 × 1 （L3PZ69） 30S ribosomal protein S5 × 1 （F4TL26） 30S ribosomal protein S6 × 1 （S1CG62） 30S ribosomal protein S7 × 1 （S1D5F0） 30S ribosomal protein S8 × 1 （D8A1L7） 30S ribosomal protein S9 × 1 （T9TH92） 30S ribosomal protein S10 × 1 （D7X302） 30S ribosomal protein S11 × 1 （I2UH22） 30S ribosomal protein S12 × 1 （V6FZ95） 30S ribosomal protein S13 × 1 （A0A1X3KX08） 30S ribosomal protein S14 × 1 （I2X0X3） 30S ribosomal protein S15 × 1 （D7XN21） 30S ribosomal protein S16 × 1 （B7MIU7） 30S ribosomal protein S17 × 1 （A0A080IK26） 30S ribosomal protein S18 × 1 （E0J6I2） 30S ribosomal protein S19 × 1 （F4SQ43） 30S ribosomal protein S20 × 1 （T6N332） 30S ribosomal protein S21 × 1 （E9TH65） 50S ribosomal protein L1 × 1 （A0A4Y8DMK0） 16S ribosomal RNA × 1 23S ribosomal RNA × 1 5S ribosomal RNA × 1 tRNAfMet × 2 mRNA × 1 tRNAPhe × 1 Elongation factor Tu × 1 （E2QFJ4） 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 |
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 6WD9 | Assembly / Oligomeric State | Construct | Mutations and Modifications | Ligands, Ions and Non-polymers | Method and Experimental Conditions | Structure Quality |
|---|---|---|---|---|---|---|---|
| 10QM E.coli 50S ribosomal subunit bound to compound 48a Deposited 2026-02-01 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 29 PDB declaration: 31-meric |
Chain K
1–273（273 aa）
|
Not recorded | No recorded non-water small molecule | ELECTRON MICROSCOPY mmCIF provides none of the parsed conditions | Resolution 2.49 Å |
| 11BQ Escherichia coli 70S ribosome containing an evolved 16S rRNA (EC-S3.5) Deposited 2026-02-16 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 53-meric |
Chain c
1–273（273 aa）
|
Not recorded | ZN ZINC ION × 2 MG MAGNESIUM ION × 307 SPD SPERMIDINE × 14 SPM SPERMINE × 1 C CYTIDINE-5'-MONOPHOSPHATE × 1 G GUANOSINE-5'-MONOPHOSPHATE × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.00 Å |
| 11DG Chimeric Escherichia coli 70S ribosome containing an evolved Vibrio cholerae 16S rRNA (VC-S4.4) Deposited 2026-02-18 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 53-meric |
Chain c
1–273（273 aa）
|
Not recorded | ZN ZINC ION × 2 MG MAGNESIUM ION × 272 SPD SPERMIDINE × 14 SPM SPERMINE × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.00 Å |
| 11EL Chimeric Escherichia coli 70S ribosome containing an evolved 16S rRNA from Vibrio cholerae (VC-ST) Deposited 2026-02-19 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 53-meric |
Chain c
1–273（273 aa）
|
Not recorded | ZN ZINC ION × 2 MG MAGNESIUM ION × 308 SPD SPERMIDINE × 16 SPM SPERMINE × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.20 Å |
| 11FV Chimeric Escherichia coli 70S ribosome containing an evolved 16S rRNA from Pseudomonas aeruginosa (PA-S3.3) Deposited 2026-02-21 | 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 K
1–273（273 aa）
|
Not recorded | MG MAGNESIUM ION × 307 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.90 Å |
| 11GG Chimeric Escherichia coli 70S ribosome containing an evolved 16S rRNA from Pseudomonas aeruginosa (PA-ST) Deposited 2026-02-22 | 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 K
1–273（273 aa）
|
Not recorded | MG MAGNESIUM ION × 307 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.02 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 conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 55-meric |
Chain c
1–273（273 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 conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 55-meric |
Chain c
1–273（273 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 conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 55-meric |
Chain c
1–273（273 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 conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 55-meric |
Chain c
1–273（273 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 conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 55-meric |
Chain c
1–273（273 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 conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 55-meric |
Chain c
1–273（273 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 conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 55-meric |
Chain c
1–273（273 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 |
| 2RDO 50S subunit with EF-G(GDPNP) and RRF bound Deposited 2007-09-24 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 32 PDB declaration: 34-meric |
Chain C
2–273（272 aa）
|
Not recorded | No recorded non-water small molecule |
ELECTRON MICROSCOPY
cryo-EM buffer
PolyMix；pH 7.5；PolyMix
cryo-EM vitrification conditions
Cryogen ETHANE；Rapid-freezing in liquid ethane by Vitrobot
|
Resolution 9.10 Å |
| 30QZ E. coli 50S ribosome with peptidyl-tRNA and Hsp15 Deposited 2026-05-10 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 30 PDB declaration: 33-meric |
Chain c
1–273（273 aa）
|
Not recorded | MG MAGNESIUM ION × 204 ZN ZINC ION × 1 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 2.23 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 conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 55-meric |
Chain c
1–273（273 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 conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 53-meric |
Chain c
1–273（273 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 |
| 3BBX The Hsp15 protein fitted into the low resolution Cryo-EM map of the 50S.nc-tRNA.Hsp15 complex Deposited 2007-11-11 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 28 PDB declaration: 30-meric |
Chain C
1–273（273 aa）
|
Not recorded | MG MAGNESIUM ION × 110 |
ELECTRON MICROSCOPY
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 10.00 Å |
| 3J5L Structure of the E. coli 50S subunit with ErmBL nascent chain Deposited 2013-10-23 | Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 30 PDB declaration: 34-meric |
Chain C
2–272（271 aa）
|
Not recorded | UNL UNKNOWN LIGAND × 1 ERY ERYTHROMYCIN A × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4
cryo-EM vitrification conditions
Cryogen ETHANE；Plunged into liquid ethane (FEI VITROBOT MARK IV)
|
Resolution 6.60 Å |
| 3J7Z Structure of the E. coli 50S subunit with ErmCL nascent chain Deposited 2014-08-27 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 32 PDB declaration: 35-meric |
Chain C
1–273（273 aa）
|
Not recorded | ERY ERYTHROMYCIN A × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4
cryo-EM vitrification conditions
Cryogen ETHANE；Plunged into liquid ethane (FEI VITROBOT MARK IV).
|
Resolution 3.90 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 conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 53 PDB declaration: 58-meric |
Chain C
1–273（273 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 conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 53 PDB declaration: 58-meric |
Chain LN
2–273（272 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 conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 53 PDB declaration: 58-meric |
Chain LD
2–273（272 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 conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 54-meric |
Chain c
1–273（273 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 conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 56-meric |
Chain c
1–273（273 aa）
Fragment：UNP residues 1-232
|
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 conditions | Assembly 1 Protein–RNA Heteromer；Protein × 51 PDB declaration: 57-meric |
Chain C
1–273（273 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 conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 51 PDB declaration: 58-meric |
Chain C
1–273（273 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 conditions | Assembly 1 Protein–RNA Heteromer；Protein × 51 PDB declaration: 56-meric |
Chain B
1–273（273 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 conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 55-meric |
Chain C
1–273（273 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 |
| 4CSU Cryo-EM structures of the 50S ribosome subunit bound with ObgE Deposited 2014-03-10 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 31 PDB declaration: 33-meric |
Chain C
2–273（272 aa）
|
Not recorded | No recorded non-water small molecule |
ELECTRON MICROSCOPY
cryo-EM buffer
20MM TRIS-HCL, 100MM NH4CL,10MM MGCL2；pH 7.5；20MM TRIS-HCL, 100MM NH4CL,10MM MGCL2
cryo-EM vitrification conditions
Cryogen ETHANE；LIQUID ETHANE
|
Resolution 5.50 Å |
| 4U1U Crystal structure of the E. coli ribosome bound to quinupristin. Deposited 2014-07-16 | 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 BC
2–272（271 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 oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 50 PDB declaration: 53-meric |
Chain DC
2–272（271 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 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 BC
2–272（271 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 oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 50 PDB declaration: 53-meric |
Chain DC
2–272（271 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 oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 53-meric |
Chain BC
2–272（271 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 oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 49 PDB declaration: 52-meric |
Chain DC
2–272（271 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 oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 53-meric |
Chain BC
2–272（271 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 oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 49 PDB declaration: 52-meric |
Chain DC
2–272（271 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 oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 53-meric |
Chain BC
2–272（271 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 oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 49 PDB declaration: 52-meric |
Chain DC
2–272（271 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 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 BC
2–272（271 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 oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 50 PDB declaration: 53-meric |
Chain DC
2–272（271 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 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 BC
2–272（271 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 oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 50 PDB declaration: 53-meric |
Chain DC
2–272（271 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 construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 43 PDB declaration: 46-meric |
Chain AA
1–272（272 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 |
| 4V48 Real space refined coordinates of the 30S and 50S subunits fitted into the low resolution cryo-EM map of the initiation-like state of E. coli 70S ribosome Deposited 2003-05-06 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 44 PDB declaration: 48-meric |
Chain AA
1–272（272 aa）
|
Not recorded | No recorded non-water small molecule |
ELECTRON MICROSCOPY
cryo-EM buffer
hepes；pH 7.5；hepes
cryo-EM vitrification conditions
Rapid-freezing in liquid ethane
|
Resolution 11.50 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 method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 52-meric |
Chain BC
1–273（273 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 method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 49 PDB declaration: 52-meric |
Chain DC
0–272（273 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 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: 52-meric |
Chain BC
0–272（273 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 construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 49 PDB declaration: 52-meric |
Chain DC
0–272（273 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 conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 46 PDB declaration: 52-meric |
Chain BA
38–264（227 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 conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 46 PDB declaration: 52-meric |
Chain BA
39–265（227 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 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 BC
1–272（272 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 construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 49 PDB declaration: 54-meric |
Chain DC
1–272（272 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 method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 52-meric |
Chain BC
2–273（272 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 method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 49 PDB declaration: 52-meric |
Chain DC
2–273（272 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 method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 52-meric |
Chain BC
2–273（272 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 method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 49 PDB declaration: 52-meric |
Chain DC
2–273（272 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 method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 53-meric |
Chain BC
2–273（272 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 method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 50 PDB declaration: 53-meric |
Chain DC
2–273（272 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 method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 53-meric |
Chain BC
2–273（272 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 method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 50 PDB declaration: 53-meric |
Chain DC
2–273（272 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 method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 52-meric |
Chain BC
2–273（272 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 method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 49 PDB declaration: 52-meric |
Chain DC
2–273（272 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 method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 52-meric |
Chain BC
2–273（272 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 method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 49 PDB declaration: 52-meric |
Chain DC
2–273（272 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 |
| 4V5H E.Coli 70s Ribosome Stalled During Translation Of Tnac Leader Peptide. Deposited 2009-10-26 | 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 BC
2–272（271 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 method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 53-meric |
Chain BC
2–273（272 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 method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 50 PDB declaration: 53-meric |
Chain DC
2–273（272 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 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: 52-meric |
Chain BC
1–273（273 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 construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 49 PDB declaration: 52-meric |
Chain DC
1–273（273 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 |
| 4V65 Structure of the E. coli ribosome in the Pre-accommodation state Deposited 2008-08-03 | Different construct Different oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 57-meric |
Chain BN
1–270（270 aa）
|
Not recorded | No recorded non-water small molecule |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 9.00 Å |
| 4V66 Structure of the E. coli ribosome and the tRNAs in Post-accommodation state Deposited 2008-08-03 | Different construct Different oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 57-meric |
Chain BN
1–270（270 aa）
|
Not recorded | No recorded non-water small molecule |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 9.00 Å |
| 4V69 Ternary complex-bound E.coli 70S ribosome. Deposited 2008-12-11 | Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 51 PDB declaration: 58-meric |
Chain BC
2–272（271 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 method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 52-meric |
Chain BC
1–273（273 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 method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 49 PDB declaration: 52-meric |
Chain DC
1–273（273 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 method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 54-meric |
Chain BC
1–273（273 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 method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 49 PDB declaration: 54-meric |
Chain DC
1–273（273 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 method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 55-meric |
Chain BC
1–273（273 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 method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 49 PDB declaration: 55-meric |
Chain DC
1–273（273 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 conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 52 PDB declaration: 58-meric |
Chain AD
1–273（273 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 conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 52 PDB declaration: 58-meric |
Chain BD
1–273（273 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 conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 55 PDB declaration: 60-meric |
Chain B6
2–273（272 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 construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 52 PDB declaration: 58-meric |
Chain AD
1–272（272 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 construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 52 PDB declaration: 58-meric |
Chain BD
1–272（272 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 construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 52 PDB declaration: 58-meric |
Chain BD
1–272（272 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 construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 52 PDB declaration: 58-meric |
Chain BD
1–272（272 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 construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 52 PDB declaration: 58-meric |
Chain BD
1–272（272 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 construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 52 PDB declaration: 57-meric |
Chain AD
1–272（272 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 oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 51 PDB declaration: 56-meric |
Chain BC
2–272（271 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 |
| 4V6V Tetracycline resistance protein Tet(O) bound to the ribosome Deposited 2013-02-25 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 53 PDB declaration: 58-meric |
Chain BD
2–273（272 aa）
|
Not recorded | No recorded non-water small molecule |
ELECTRON MICROSCOPY
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 9.80 Å |
| 4V6Y E. coli 70S-fMetVal-tRNAVal-tRNAfMet complex in classic pre-translocation state (pre1a) Deposited 2013-10-14 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 56-meric |
Chain BC
1–272（272 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | 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 mutation/modification Different oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 56-meric |
Chain BC
1–272（272 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | 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 mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 56-meric |
Chain BC
1–272（272 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | 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 mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 56-meric |
Chain BC
1–272（272 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | 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 mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 56-meric |
Chain BC
1–272（272 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | 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 mutation/modification Different oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 56-meric |
Chain BC
1–272（272 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | 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 mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 56-meric |
Chain BC
1–272（272 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | 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 mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 56-meric |
Chain BC
1–272（272 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | 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 mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 56-meric |
Chain BC
1–272（272 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | 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 mutation/modification Different oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 56-meric |
Chain BC
1–272（272 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | 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 mutation/modification Different oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 56-meric |
Chain BC
1–272（272 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | 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 mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 56-meric |
Chain BC
1–272（272 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | 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 mutation/modification 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 BC
1–272（272 aa）
|
Non-standard monomer：Yes (specific site not provided by mmCIF) | 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 conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 52 PDB declaration: 58-meric |
Chain BC
1–273（273 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 conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 52 PDB declaration: 58-meric |
Chain BD
2–273（272 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 conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 54 PDB declaration: 60-meric |
Chain AD
2–273（272 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 conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 53 PDB declaration: 56-meric |
Chain A6
1–273（273 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 oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 52-meric |
Chain BC
2–272（271 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 oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 49 PDB declaration: 52-meric |
Chain DC
2–272（271 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 oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 52-meric |
Chain BC
2–272（271 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 oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 49 PDB declaration: 52-meric |
Chain DC
2–272（271 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 oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 52-meric |
Chain BC
2–272（271 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 oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 49 PDB declaration: 52-meric |
Chain DC
2–272（271 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 oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 52-meric |
Chain BC
2–272（271 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 oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 49 PDB declaration: 52-meric |
Chain DC
2–272（271 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 method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 54 PDB declaration: 58-meric |
Chain BC
1–273（273 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 method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 54-meric |
Chain BC
1–273（273 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 method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 50 PDB declaration: 55-meric |
Chain DC
1–273（273 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 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 CC
2–272（271 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 oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 49 PDB declaration: 54-meric |
Chain DC
2–272（271 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 method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 53 PDB declaration: 56-meric |
Chain AC
1–273（273 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 method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 52 PDB declaration: 55-meric |
Chain CC
1–273（273 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 method Different experimental conditions Different structure-quality metrics | Assembly 3 Protein–RNA Heteromer；Protein × 52 PDB declaration: 55-meric |
Chain EC
1–273（273 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 method Different experimental conditions Different structure-quality metrics | Assembly 4 Protein–RNA Heteromer；Protein × 51 PDB declaration: 54-meric |
Chain GC
1–273（273 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 method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 52 PDB declaration: 55-meric |
Chain AC
1–273（273 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 method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 51 PDB declaration: 54-meric |
Chain CC
1–273（273 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 method Different experimental conditions Different structure-quality metrics | Assembly 3 Protein–RNA Heteromer；Protein × 52 PDB declaration: 55-meric |
Chain EC
1–273（273 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 method Different experimental conditions Different structure-quality metrics | Assembly 4 Protein–RNA Heteromer；Protein × 50 PDB declaration: 53-meric |
Chain GC
1–273（273 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 oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 53-meric |
Chain BC
2–272（271 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 oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 49 PDB declaration: 52-meric |
Chain DC
2–272（271 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 method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 51 PDB declaration: 56-meric |
Chain BC
1–273（273 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 method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 49 PDB declaration: 54-meric |
Chain CC
1–273（273 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 oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 52-meric |
Chain RC
2–272（271 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 oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 49 PDB declaration: 52-meric |
Chain YC
2–272（271 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 oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 53-meric |
Chain DC
2–272（271 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 oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 49 PDB declaration: 52-meric |
Chain CC
2–272（271 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 |
| 5ADY Cryo-EM structures of the 50S ribosome subunit bound with HflX Deposited 2015-08-25 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 32 PDB declaration: 34-meric |
Chain C
1–273（273 aa）
|
Not recorded | GNP PHOSPHOAMINOPHOSPHONIC ACID-GUANYLATE ESTER × 1 MG MAGNESIUM ION × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
20MM TRIS-HCL, 100MM NH4CL, 10MM MGCL2；pH 7.5；20MM TRIS-HCL, 100MM NH4CL, 10MM MGCL2
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 4.50 Å |
| 5AFI 2.9A Structure of E. coli ribosome-EF-TU complex by cs-corrected cryo-EM Deposited 2015-01-22 | Different construct Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 52 PDB declaration: 59-meric |
Chain C
1–273（273 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 |
| 5AKA EM structure of ribosome-SRP-FtsY complex in closed state Deposited 2015-03-03 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 31 PDB declaration: 34-meric |
Chain C
1–273（273 aa）
|
Not recorded | MG MAGNESIUM ION × 110 |
ELECTRON MICROSCOPY
cryo-EM buffer
50MM HEPES-KOH, 100MM KOAC, 8MM MG(OAC)2, 500UG/ML CHLORAMPHENICO；pH 7.5；50MM HEPES-KOH, 100MM KOAC, 8MM MG(OAC)2, 500UG/ML CHLORAMPHENICO
cryo-EM vitrification conditions
Cryogen ETHANE；LIQUID ETHAN
|
Resolution 5.70 Å |
| 5GAD RNC-SRP-SR complex early state Deposited 2015-11-24 | Different construct Different oligomeric state Different ligand/ion | Assembly 1 Protein–RNA Heteromer；Protein × 33 PDB declaration: 37-meric |
Chain C
1–273（273 aa）
|
Not recorded | MG MAGNESIUM ION × 433 ZN ZINC ION × 1 GNP PHOSPHOAMINOPHOSPHONIC ACID-GUANYLATE ESTER × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.70 Å |
| 5GAE RNC in complex with a translocating SecYEG Deposited 2015-11-25 | Different construct Different oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 33 PDB declaration: 36-meric |
Chain C
1–273（273 aa）
|
Not recorded | MG MAGNESIUM ION × 323 ZN ZINC ION × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.33 Å |
| 5GAF RNC in complex with SRP Deposited 2015-11-25 | Different oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 32 PDB declaration: 36-meric |
Chain C
2–272（271 aa）
|
Not recorded | MG MAGNESIUM ION × 431 ZN ZINC ION × 1 GNP PHOSPHOAMINOPHOSPHONIC ACID-GUANYLATE ESTER × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 4.30 Å |
| 5GAG RNC in complex with SRP-SR in the closed state Deposited 2015-11-26 | Different construct Different oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 32 PDB declaration: 36-meric |
Chain C
1–273（273 aa）
|
Not recorded | MG MAGNESIUM ION × 431 ZN ZINC ION × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.80 Å |
| 5GAH RNC in complex with SRP with detached NG domain Deposited 2015-11-26 | Different construct Different oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 32 PDB declaration: 36-meric |
Chain C
1–273（273 aa）
|
Not recorded | MG MAGNESIUM ION × 431 ZN ZINC ION × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.80 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 conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 52 PDB declaration: 57-meric |
Chain C
2–273（272 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 ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 52 PDB declaration: 59-meric |
Chain B
1–273（273 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 oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 53-meric |
Chain DC
2–272（271 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 oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 49 PDB declaration: 52-meric |
Chain CC
2–272（271 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 oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 53-meric |
Chain DC
2–272（271 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 oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 49 PDB declaration: 52-meric |
Chain CC
2–272（271 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 oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 53-meric |
Chain DC
2–272（271 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 oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 49 PDB declaration: 52-meric |
Chain CC
2–272（271 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 method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 53-meric |
Chain DC
2–273（272 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 method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 49 PDB declaration: 52-meric |
Chain CC
2–273（272 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 method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 53-meric |
Chain DC
2–273（272 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 method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 49 PDB declaration: 52-meric |
Chain CC
2–273（272 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 method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 53-meric |
Chain DC
2–273（272 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 method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 49 PDB declaration: 52-meric |
Chain CC
2–273（272 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 oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 53-meric |
Chain DC
2–272（271 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 oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 49 PDB declaration: 52-meric |
Chain CC
2–272（271 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 conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 58-meric |
Chain BC
1–273（273 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 conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 56-meric |
Chain BC
1–273（273 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 conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 55-meric |
Chain 1D
1–273（273 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 conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 53 PDB declaration: 58-meric |
Chain 1D
1–273（273 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 conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 52 PDB declaration: 58-meric |
Chain B
1–273（273 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 ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 52 PDB declaration: 59-meric |
Chain A
1–273（273 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 ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 52 PDB declaration: 59-meric |
Chain A
1–273（273 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 ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 52 PDB declaration: 59-meric |
Chain A
1–273（273 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 conditions | Assembly 1 Protein–RNA Heteromer；Protein × 52 PDB declaration: 58-meric |
Chain D
1–273（273 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 oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 55-meric |
Chain C
2–272（271 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 oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 51 PDB declaration: 58-meric |
Chain C
2–272（271 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 oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 51 PDB declaration: 58-meric |
Chain C
2–272（271 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 oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 51 PDB declaration: 58-meric |
Chain C
2–272（271 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 oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 57-meric |
Chain C
2–272（271 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 |
| 5LZF Structure of the 70S ribosome with fMetSec-tRNASec in the hybrid pre-translocation state (H) Deposited 2016-09-29 | Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 56-meric |
Chain C
2–272（271 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 4.60 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 conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 53 PDB declaration: 58-meric |
Chain B
1–273（273 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 conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 53 PDB declaration: 58-meric |
Chain B
1–273（273 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 conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 53 PDB declaration: 62-meric |
Chain B
1–273（273 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 conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 51 PDB declaration: 56-meric |
Chain B
1–273（273 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 |
| 5MGP Structural basis for ArfA-RF2 mediated translation termination on stop-codon lacking mRNAs Deposited 2016-11-21 | 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 C
2–272（271 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 |
| 5NCO Quaternary complex between SRP, SR, and SecYEG bound to the translating ribosome Deposited 2017-03-06 | Different oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 36 PDB declaration: 40-meric |
Chain C
2–272（271 aa）
|
Not recorded | ZN ZINC ION × 1 ALF TETRAFLUOROALUMINATE ION × 2 MG MAGNESIUM ION × 2 GDP GUANOSINE-5'-DIPHOSPHATE × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 4.80 Å |
| 5NP6 70S structure prior to bypassing Deposited 2017-04-13 | Different oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 52 PDB declaration: 57-meric |
Chain a
2–272（271 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 conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 51 PDB declaration: 56-meric |
Chain P
1–273（273 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 oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 53 PDB declaration: 58-meric |
Chain C
2–272（271 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 structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 51 PDB declaration: 57-meric |
Chain C
1–273（273 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 oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 53 PDB declaration: 60-meric |
Chain 04
2–272（271 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 oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 53 PDB declaration: 60-meric |
Chain 04
2–272（271 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 oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 53 PDB declaration: 60-meric |
Chain 04
2–272（271 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 oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 53 PDB declaration: 60-meric |
Chain 04
2–272（271 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 oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 53 PDB declaration: 60-meric |
Chain 04
2–272（271 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 oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 53 PDB declaration: 60-meric |
Chain 04
2–272（271 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 ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 52 PDB declaration: 59-meric |
Chain C
2–272（271 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 ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 52 PDB declaration: 59-meric |
Chain C
2–272（271 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 ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 52 PDB declaration: 59-meric |
Chain C
2–272（271 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 ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 52 PDB declaration: 59-meric |
Chain C
2–272（271 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 oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 53 PDB declaration: 60-meric |
Chain 04
2–272（271 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 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 CC
2–272（271 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 oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 2 Protein–RNA Heteromer；Protein × 49 PDB declaration: 55-meric |
Chain DC
2–272（271 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 |
| 6C4H Conformation of methylated GGQ in the peptidyl transferase center during translation termination (PTC region) Deposited 2018-01-12 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 5 PDB declaration: heptameric |
Chain C
1–273（273 aa）
|
Not recorded | MG MAGNESIUM ION × 34 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE；Grids were blotted for 3.5 seconds.
|
Resolution 3.10 Å |
| 6ENF Cryo-EM structure of a polyproline-stalled ribosome in the absence of EF-P Deposited 2017-10-04 | Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 48 PDB declaration: 53-meric |
Chain C
2–272（271 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 oligomeric state Different ligand/ion Different experimental conditions | Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 56-meric |
Chain C
2–272（271 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 oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 51 PDB declaration: 56-meric |
Chain C
2–272（271 aa）
|
Not recorded | PRO PROLINE × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.10 Å |
| 6GBZ 50S ribosomal subunit assembly intermediate state 5 Deposited 2018-04-16 | Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 27 PDB declaration: 29-meric |
Chain C
2–272（271 aa）
|
Not recorded | No recorded non-water small molecule |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.6
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.80 Å |
| 6GC0 50S ribosomal subunit assembly intermediate state 4 Deposited 2018-04-16 | Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 26 PDB declaration: 28-meric |
Chain C
2–272（271 aa）
|
Not recorded | No recorded non-water small molecule |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.6
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.80 Å |
| 6GC4 50S ribosomal subunit assembly intermediate state 3 Deposited 2018-04-17 | Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 24 PDB declaration: 26-meric |
Chain C
2–272（271 aa）
|
Not recorded | No recorded non-water small molecule |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.6
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 4.30 Å |
| 6GC6 50S ribosomal subunit assembly intermediate state 2 Deposited 2018-04-17 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 18 PDB declaration: nonadecameric |
Chain C
2–224（223 aa）
|
Not recorded | No recorded non-water small molecule |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.6
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 4.30 Å |
| 6GC8 50S ribosomal subunit assembly intermediate - 50S rec* Deposited 2018-04-17 | Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 27 PDB declaration: 29-meric |
Chain C
2–272（271 aa）
|
Not recorded | ZN ZINC ION × 1 MG MAGNESIUM ION × 5 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.6
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.80 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 oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 53 PDB declaration: 58-meric |
Chain C
2–272（271 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 oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 53 PDB declaration: 58-meric |
Chain C
2–272（271 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 oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 53 PDB declaration: 58-meric |
Chain C
2–272（271 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 oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 53 PDB declaration: 58-meric |
Chain C
2–272（271 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 oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 52 PDB declaration: 55-meric |
Chain C
2–272（271 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 oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 52 PDB declaration: 57-meric |
Chain C
2–272（271 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 conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 104 PDB declaration: 112-meric |
Chain C
2–272（271 aa）
Chain CC
2–272（271 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 oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 51 PDB declaration: 53-meric |
Chain B
2–272（271 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 |
| 6I0Y TnaC-stalled ribosome complex with the titin I27 domain folding close to the ribosomal exit tunnel Deposited 2018-10-26 | Different construct Different oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 33 PDB declaration: 36-meric |
Chain C
1–273（273 aa）
|
Not recorded | MG MAGNESIUM ION × 143 ZN ZINC ION × 1 TRP TRYPTOPHAN × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.20 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 method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 99 PDB declaration: 105-meric |
Chain CC
2–272（271 aa）
Chain DC
2–272（271 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 oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 54-meric |
Chain b
2–272（271 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 oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 55-meric |
Chain b
2–272（271 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 |
| 6OGF 70S termination complex with RF2 bound to the UGA codon. Partially rotated ribosome with RF2 bound (Structure III). Deposited 2019-04-02 | 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 b
1–273（273 aa）
|
Not recorded | No recorded non-water small molecule |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.90 Å |
| 6OGG 70S termination complex with RF2 bound to the UGA codon. Rotated ribosome with RF2 bound (Structure IV). Deposited 2019-04-02 | 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 b
1–273（273 aa）
|
Not recorded | No recorded non-water small molecule |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 4.20 Å |
| 6OGI 70S termination complex with RF2 bound to the UAG codon. Rotated ribosome conformation (Structure V) Deposited 2019-04-02 | 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 b
1–273（273 aa）
|
Not recorded | No recorded non-water small molecule |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.40 Å |
| 6OM6 Structure of trans-translation inhibitor bound to E. coli 70S ribosome with P site tRNA Deposited 2019-04-18 | 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 B
1–273（273 aa）
|
Not recorded | KKL 4-amino-N-[5-(4-ethynylphenyl)-1,3,4-oxadiazol-2-yl]benzamide × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.6
cryo-EM vitrification conditions
Cryogen ETHANE；Blot time: 3.5 seconds
|
Resolution 3.10 Å |
| 6PC5 E. coli 50S ribosome bound to compounds 46 and VS1 Deposited 2019-06-16 | Different oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 6 PDB declaration: octameric |
Chain K
2–272（271 aa）
|
Not recorded | O7V (2R)-2-[(3S,4R,5E,10E,12E,14S,16R,26aR)-16-fluoro-14-hydroxy-4,12-dimethyl-1,7,22-trioxo-4,7,8,9,14,15,16,17,24,25,26,26a-dodecahydro-1H,3H,22H-21,18-(azeno)pyrrolo[2,1-c][1,8,4,19]dioxadiazacyclotetracosin-3-yl]propyl isoquinolin-3-ylcarbamate × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.70 Å |
| 6PC6 E. coli 50S ribosome bound to compound 47 Deposited 2019-06-16 | Different oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 5 PDB declaration: heptameric |
Chain K
2–272（271 aa）
|
Not recorded | O7S (3R,4R,5E,10E,12E,14S,16R,26aR)-16-fluoro-14-hydroxy-12-methyl-3-(propan-2-yl)-4-(prop-2-en-1-yl)-3,4,8,9,14,15,16,17,24,25,26,26a-dodecahydro-1H,7H,22H-21,18-(azeno)pyrrolo[2,1-c][1,8,4,19]dioxadiazacyclotetracosine-1,7,22-trione × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.50 Å |
| 6PC7 E. coli 50S ribosome bound to compound 46 Deposited 2019-06-16 | Different oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 5 PDB declaration: heptameric |
Chain K
2–272（271 aa）
|
Not recorded | O7V (2R)-2-[(3S,4R,5E,10E,12E,14S,16R,26aR)-16-fluoro-14-hydroxy-4,12-dimethyl-1,7,22-trioxo-4,7,8,9,14,15,16,17,24,25,26,26a-dodecahydro-1H,3H,22H-21,18-(azeno)pyrrolo[2,1-c][1,8,4,19]dioxadiazacyclotetracosin-3-yl]propyl isoquinolin-3-ylcarbamate × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.50 Å |
| 6PC8 E. coli 50S ribosome bound to compound 40q Deposited 2019-06-16 | Different oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 5 PDB declaration: heptameric |
Chain K
2–272（271 aa）
|
Not recorded | O7Y (2R)-2-[(3S,4R,5E,10E,12E,14S,26aR)-14-hydroxy-4,12-dimethyl-1,7,16,22-tetraoxo-4,7,8,9,14,15,16,17,24,25,26,26a-dodecahydro-1H,3H,22H-21,18-(azeno)pyrrolo[2,1-c][1,8,4,19]dioxadiazacyclotetracosin-3-yl]propyl isoquinolin-3-ylcarbamate × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.90 Å |
| 6PCH E. coli 50S ribosome bound to compound 21 Deposited 2019-06-17 | Different oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 5 PDB declaration: heptameric |
Chain K
2–272（271 aa）
|
Not recorded | O8D (3R,4R,5E,10E,12E,14S,26aR)-14-hydroxy-12-methyl-3-(propan-2-yl)-4-(prop-2-en-1-yl)-8,9,14,15,24,25,26,26a-octahydro-1H,3H,22H-21,18-(azeno)pyrrolo[2,1-c][1,8,4,19]dioxadiazacyclotetracosine-1,7,16,22(4H,17H)-tetrone × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.90 Å |
| 6PCQ E. coli 50S ribosome bound to VM2 Deposited 2019-06-18 | Different oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 5 PDB declaration: heptameric |
Chain K
2–272（271 aa）
|
Not recorded | O8J (3R,4R,5E,10E,12E,14S,26aR)-14-hydroxy-4,12-dimethyl-3-(propan-2-yl)-8,9,14,15,24,25,26,26a-octahydro-1H,3H,22H-21,18-(azeno)pyrrolo[2,1-c][1,8,4,19]dioxadiazacyclotetracosine-1,7,16,22(4H,17H)-tetrone × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.60 Å |
| 6PCR E. coli 50S ribosome bound to compound 40o Deposited 2019-06-18 | Different oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 5 PDB declaration: heptameric |
Chain K
2–272（271 aa）
|
Not recorded | O8P (2R)-2-[(3S,4R,5E,10E,12E,14S,26aR)-14-hydroxy-4,12-dimethyl-1,7,16,22-tetraoxo-4,7,8,9,14,15,16,17,24,25,26,26a-dodecahydro-1H,3H,22H-21,18-(azeno)pyrrolo[2,1-c][1,8,4,19]dioxadiazacyclotetracosin-3-yl]propyl (2-bromopyridin-4-yl)carbamate × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.50 Å |
| 6PCS E. coli 50S ribosome bound to compound 40e Deposited 2019-06-18 | Different oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 5 PDB declaration: heptameric |
Chain K
2–272（271 aa）
|
Not recorded | O8S (2R)-2-[(3S,4R,5E,10E,12E,14S,26aR)-14-hydroxy-4,12-dimethyl-1,7,16,22-tetraoxo-4,7,8,9,14,15,16,17,24,25,26,26a-dodecahydro-1H,3H,22H-21,18-(azeno)pyrrolo[2,1-c][1,8,4,19]dioxadiazacyclotetracosin-3-yl]propyl [4-(trifluoromethyl)phenyl]carbamate × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.80 Å |
| 6PCT E. coli 50S ribosome bound to compound 41q Deposited 2019-06-18 | Different oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 5 PDB declaration: heptameric |
Chain K
2–272（271 aa）
|
Not recorded | O8V (2S)-2-[(3S,4R,5E,10E,12E,14S,26aR)-14-hydroxy-4,12-dimethyl-1,7,16,22-tetraoxo-4,7,8,9,14,15,16,17,24,25,26,26a-dodecahydro-1H,3H,22H-21,18-(azeno)pyrrolo[2,1-c][1,8,4,19]dioxadiazacyclotetracosin-3-yl]propyl isoquinolin-3-ylcarbamate × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.80 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 conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 53 PDB declaration: 57-meric |
Chain B
1–273（273 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 oligomeric state Different ligand/ion Different experimental conditions | Assembly 1 Protein–RNA Heteromer；Protein × 53 PDB declaration: 58-meric |
Chain B
2–272（271 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 |
| 6QUL Structure of a bacterial 50S ribosomal subunit in complex with the novel quinoxolidinone antibiotic cadazolid Deposited 2019-02-27 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 28 PDB declaration: 31-meric |
Chain C
1–273（273 aa）
|
Not recorded | FME N-FORMYLMETHIONINE × 1 MG MAGNESIUM ION × 382 AMP ADENOSINE MONOPHOSPHATE × 1 JJH cadazolid × 1 ZN ZINC ION × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4
cryo-EM vitrification conditions
Cryogen ETHANE-PROPANE
|
Resolution 3.00 Å |
| 6S0K Ribosome nascent chain in complex with SecA Deposited 2019-06-17 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 32 PDB declaration: 35-meric |
Chain C
1–273（273 aa）
|
Not recorded | MG MAGNESIUM ION × 68 ZN ZINC ION × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4
cryo-EM vitrification conditions
Cryogen ETHANE-PROPANE
|
Resolution 3.10 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 conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 51 PDB declaration: 56-meric |
Chain C
1–273（273 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 structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 55-meric |
Chain L021
1–273（273 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 structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 55-meric |
Chain L021
1–273（273 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 |
| 6VU3 Cryo-EM structure of Escherichia coli transcription-translation complex A (TTC-A) containing mRNA with a 12 nt long spacer Deposited 2020-02-14 | Different oligomeric state Different ligand/ion | Assembly 1 Other combination Heteromer；Protein × 58 PDB declaration: 66-meric |
Chain h
2–272（271 aa）
|
Not recorded | MG MAGNESIUM ION × 1 ZN ZINC ION × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.70 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 structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 48 PDB declaration: 53-meric |
Chain A
1–273（273 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 structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 48 PDB declaration: 53-meric |
Chain A
1–273（273 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 structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 48 PDB declaration: 53-meric |
Chain A
1–273（273 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 |
| 6VYQ Escherichia coli transcription-translation complex A1 (TTC-A1) containing an 15 nt long mRNA spacer, NusG, and fMet-tRNAs at E-site and P-site Deposited 2020-02-27 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions | Assembly 1 Other combination Heteromer；Protein × 58 PDB declaration: 66-meric |
Chain h
1–273（273 aa）
|
Not recorded | MG MAGNESIUM ION × 1 ZN ZINC ION × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.6
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.70 Å |
| 6VYR Escherichia coli transcription-translation complex A1 (TTC-A1) containing an 18 nt long mRNA spacer, NusG, and fMet-tRNAs at E-site and P-site Deposited 2020-02-27 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Other combination Heteromer；Protein × 58 PDB declaration: 66-meric |
Chain h
1–273（273 aa）
|
Not recorded | MG MAGNESIUM ION × 1 ZN ZINC ION × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.6
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.80 Å |
| 6VYS Escherichia coli transcription-translation complex A1 (TTC-A1) containing a 21 nt long mRNA spacer, NusG, and fMet-tRNAs at E-site and P-site Deposited 2020-02-27 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions | Assembly 1 Other combination Heteromer；Protein × 58 PDB declaration: 66-meric |
Chain h
1–273（273 aa）
|
Not recorded | MG MAGNESIUM ION × 1 ZN ZINC ION × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.6
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.70 Å |
| 6VYT Escherichia coli transcription-translation complex A2 (TTC-A2) containing a 15 nt long mRNA spacer, NusG, and fMet-tRNAs at P-site and E-site Deposited 2020-02-27 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Other combination Heteromer；Protein × 55 PDB declaration: 64-meric |
Chain h
1–273（273 aa）
|
Not recorded | MG MAGNESIUM ION × 1 ZN ZINC ION × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.6
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 14.00 Å |
| 6VYU Escherichia coli transcription-translation complex C2 (TTC-C2) containing a 27 nt long mRNA spacer Deposited 2020-02-27 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Other combination Heteromer；Protein × 56 PDB declaration: 65-meric |
Chain h
1–273（273 aa）
|
Not recorded | MG MAGNESIUM ION × 1 ZN ZINC ION × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.6
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 7.00 Å |
| 6VYW Escherichia coli transcription-translation complex C3 (TTC-C3) containing mRNA with a 27 nt long spacer, NusG, and fMet-tRNAs at E-site and P-site Deposited 2020-02-27 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Other combination Heteromer；Protein × 56 PDB declaration: 65-meric |
Chain h
1–273（273 aa）
|
Not recorded | MG MAGNESIUM ION × 1 ZN ZINC ION × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.6
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 7.00 Å |
| 6VYX Escherichia coli transcription-translation complex C4 (TTC-C4) containing mRNA with a 21 nt long spacer, transcription factor NusG, and fMet-tRNAs at P-site and E-site Deposited 2020-02-27 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Other combination Heteromer；Protein × 56 PDB declaration: 65-meric |
Chain h
1–273（273 aa）
|
Not recorded | MG MAGNESIUM ION × 1 ZN ZINC ION × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.6
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 9.90 Å |
| 6VYY Escherichia coli transcription-translation complex C5 (TTC-C5) containing mRNA with a 21 nt long spacer, NusG, and fMet-tRNAs at E-site and P-site Deposited 2020-02-27 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Other combination Heteromer；Protein × 56 PDB declaration: 65-meric |
Chain h
1–273（273 aa）
|
Not recorded | MG MAGNESIUM ION × 1 ZN ZINC ION × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.6
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 9.90 Å |
| 6VYZ Escherichia coli transcription-translation complex C6 (TTC-C6) containing mRNA with a 21 nt long spacer, NusA, and fMet-tRNAs at E-site and P-site Deposited 2020-02-27 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Other combination Heteromer；Protein × 56 PDB declaration: 65-meric |
Chain h
1–273（273 aa）
|
Not recorded | MG MAGNESIUM ION × 1 ZN ZINC ION × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.6
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 9.90 Å |
| 6VZ2 Escherichia coli transcription-translation complex D1 (TTC-D1) containing mRNA with a 27 nt long spacer, NusG, and fMet-tRNAs at E-site and P-site Deposited 2020-02-27 | Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Other combination Heteromer；Protein × 56 PDB declaration: 65-meric |
Chain h
2–272（271 aa）
|
Not recorded | MG MAGNESIUM ION × 1 ZN ZINC ION × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.6
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 10.00 Å |
| 6VZ3 Escherichia coli transcription-translation complex D2 (TTC-D2) containing mRNA with a 27 nt long spacer Deposited 2020-02-27 | Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Other combination Heteromer；Protein × 56 PDB declaration: 65-meric |
Chain h
2–272（271 aa）
|
Not recorded | MG MAGNESIUM ION × 1 ZN ZINC ION × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.6
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 8.90 Å |
| 6VZ5 Escherichia coli transcription-translation complex D3 (TTC-D3) containing mRNA with a 21 nt long spacer, NusG, and fMet-tRNAs at E-site and P-site Deposited 2020-02-27 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Other combination Heteromer；Protein × 56 PDB declaration: 65-meric |
Chain h
1–273（273 aa）
|
Not recorded | MG MAGNESIUM ION × 1 ZN ZINC ION × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.6
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 8.90 Å |
| 6VZ7 Escherichia coli transcription-translation complex C1 (TTC-C1) containing a 27 nt long mRNA spacer, NusG, and fMet-tRNAs at P-site and E-site Deposited 2020-02-27 | Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Other combination Heteromer；Protein × 56 PDB declaration: 65-meric |
Chain h
2–272（271 aa）
|
Not recorded | MG MAGNESIUM ION × 1 ZN ZINC ION × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.6
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 7.00 Å |
| 6VZJ Escherichia coli transcription-translation complex A1 (TTC-A1) containing mRNA with a 15 nt long spacer, fMet-tRNAs at E-site and P-site, and lacking transcription factor NusG Deposited 2020-02-28 | Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Other combination Heteromer；Protein × 57 PDB declaration: 65-meric |
Chain h
2–272（271 aa）
|
Not recorded | MG MAGNESIUM ION × 1 ZN ZINC ION × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.6
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 4.10 Å |
| 6WD0 Cryo-EM of elongating ribosome with EF-Tu*GTP elucidates tRNA proofreading (Cognate Structure I-A) Deposited 2020-03-31 | Different oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 51 PDB declaration: 57-meric |
Chain b
2–272（271 aa）
|
Not recorded | FME N-FORMYLMETHIONINE × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.00 Å |
| 6WD1 Cryo-EM of elongating ribosome with EF-Tu*GTP elucidates tRNA proofreading (Cognate Structure I-B) Deposited 2020-03-31 | Different oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 51 PDB declaration: 56-meric |
Chain b
2–272（271 aa）
|
Not recorded | No recorded non-water small molecule |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.30 Å |
| 6WD2 Cryo-EM of elongating ribosome with EF-Tu*GTP elucidates tRNA proofreading (Cognate Structure II-A) Deposited 2020-03-31 | Different ligand/ion Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 52 PDB declaration: 59-meric |
Chain b
2–272（271 aa）
|
Not recorded | FME N-FORMYLMETHIONINE × 1 PHE PHENYLALANINE × 1 GTP GUANOSINE-5'-TRIPHOSPHATE × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.60 Å |
| 6WD3 Cryo-EM of elongating ribosome with EF-Tu*GTP elucidates tRNA proofreading (Cognate Structure II-B1) Deposited 2020-03-31 | Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 52 PDB declaration: 59-meric |
Chain b
2–272（271 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 3.60 Å |
| 6WD4 Cryo-EM of elongating ribosome with EF-Tu*GTP elucidates tRNA proofreading (Cognate Structure II-B2) Deposited 2020-03-31 | Parsed fields agree | Assembly 1 Protein–RNA Heteromer；Protein × 52 PDB declaration: 59-meric |
Chain b
2–272（271 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 |
| 6WD5 Cryo-EM of elongating ribosome with EF-Tu*GTP elucidates tRNA proofreading (Cognate Structure II-C1) Deposited 2020-03-31 | Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 52 PDB declaration: 59-meric |
Chain b
2–272（271 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 3.60 Å |
| 6WD6 Cryo-EM of elongating ribosome with EF-Tu*GTP elucidates tRNA proofreading (Cognate Structure II-C2) Deposited 2020-03-31 | Parsed fields agree | Assembly 1 Protein–RNA Heteromer；Protein × 52 PDB declaration: 59-meric |
Chain b
2–272（271 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 |
| 6WD7 Cryo-EM of elongating ribosome with EF-Tu*GTP elucidates tRNA proofreading (Cognate Structure II-D) Deposited 2020-03-31 | Different ligand/ion Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 52 PDB declaration: 59-meric |
Chain b
2–272（271 aa）
|
Not recorded | FME N-FORMYLMETHIONINE × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.90 Å |
| 6WD8 Cryo-EM of elongating ribosome with EF-Tu*GTP elucidates tRNA proofreading (Cognate Structure III-A) Deposited 2020-03-31 | Different ligand/ion | Assembly 1 Protein–RNA Heteromer；Protein × 52 PDB declaration: 59-meric |
Chain b
2–272（271 aa）
|
Not recorded | FME N-FORMYLMETHIONINE × 1 PHE PHENYLALANINE × 1 GTP GUANOSINE-5'-TRIPHOSPHATE × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.70 Å |
| 6WDA Cryo-EM of elongating ribosome with EF-Tu*GTP elucidates tRNA proofreading (Cognate Structure III-C) Deposited 2020-03-31 | Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 52 PDB declaration: 59-meric |
Chain b
2–272（271 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 3.80 Å |
| 6WDB Cryo-EM of elongating ribosome with EF-Tu*GTP elucidates tRNA proofreading (Cognate Structure IV-A) Deposited 2020-03-31 | Different oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 51 PDB declaration: 58-meric |
Chain b
2–272（271 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 oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 51 PDB declaration: 58-meric |
Chain b
2–272（271 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 oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 51 PDB declaration: 58-meric |
Chain b
2–272（271 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 oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 51 PDB declaration: 58-meric |
Chain b
2–272（271 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 oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 51 PDB declaration: 57-meric |
Chain b
2–272（271 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 oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 51 PDB declaration: 57-meric |
Chain b
2–272（271 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 oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 51 PDB declaration: 58-meric |
Chain b
2–272（271 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 oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 51 PDB declaration: 58-meric |
Chain b
2–272（271 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 oligomeric state Different ligand/ion | Assembly 1 Protein–RNA Heteromer；Protein × 51 PDB declaration: 58-meric |
Chain b
2–272（271 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 oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 51 PDB declaration: 58-meric |
Chain b
2–272（271 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 oligomeric state Different ligand/ion | Assembly 1 Protein–RNA Heteromer；Protein × 51 PDB declaration: 58-meric |
Chain b
2–272（271 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 oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 51 PDB declaration: 58-meric |
Chain b
2–272（271 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 |
| 6WNT 50S ribosomal subunit without free 5S rRNA and perturbed PTC Deposited 2020-04-23 | Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 30 PDB declaration: 31-meric |
Chain b
2–272（271 aa）
|
Not recorded | No recorded non-water small molecule |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.10 Å |
| 6WNV 70S ribosome without free 5S rRNA and with a perturbed PTC Deposited 2020-04-23 | Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 52-meric |
Chain b
2–272（271 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 oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 52 PDB declaration: 57-meric |
Chain b
2–272（271 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 |
| 6WYV E. coli 50S ribosome bound to compounds 47 and VS1 Deposited 2020-05-13 | Different oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 6 PDB declaration: octameric |
Chain K
2–272（271 aa）
|
Not recorded | O7S (3R,4R,5E,10E,12E,14S,16R,26aR)-16-fluoro-14-hydroxy-12-methyl-3-(propan-2-yl)-4-(prop-2-en-1-yl)-3,4,8,9,14,15,16,17,24,25,26,26a-dodecahydro-1H,7H,22H-21,18-(azeno)pyrrolo[2,1-c][1,8,4,19]dioxadiazacyclotetracosine-1,7,22-trione × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.75 Å |
| 6X6T Cryo-EM structure of an Escherichia coli coupled transcription-translation complex B1 (TTC-B1) containing an mRNA with a 24 nt long spacer, transcription factors NusA and NusG, and fMet-tRNAs at P-site and E-site Deposited 2020-05-29 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Other combination Heteromer；Protein × 60 PDB declaration: 68-meric |
Chain h
1–273（273 aa）
|
Not recorded | MG MAGNESIUM ION × 1 ZN ZINC ION × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.6
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.20 Å |
| 6X7F Cryo-EM structure of an Escherichia coli coupled transcription-translation complex B2 (TTC-B2) containing an mRNA with a 24 nt long spacer, transcription factors NusA and NusG, and fMet-tRNAs at P-site and E-site Deposited 2020-05-29 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Other combination Heteromer；Protein × 60 PDB declaration: 68-meric |
Chain h
1–273（273 aa）
|
Not recorded | MG MAGNESIUM ION × 1 ZN ZINC ION × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.6
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.50 Å |
| 6X7K Cryo-EM structure of an Escherichia coli coupled transcription-translation complex B3 (TTC-B3) containing an mRNA with a 24 nt long spacer, transcription factors NusA and NusG, and fMet-tRNAs at P-site and E-site Deposited 2020-05-30 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Other combination Heteromer；Protein × 60 PDB declaration: 68-meric |
Chain h
1–273（273 aa）
|
Not recorded | MG MAGNESIUM ION × 1 ZN ZINC ION × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.6
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.10 Å |
| 6X9Q Cryo-EM structure of an Escherichia coli coupled transcription-translation complex B3 (TTC-B3) containing an mRNA with a 27 nt long spacer, transcription factors NusA and NusG, and fMet-tRNAs at P-site and E-site Deposited 2020-06-03 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Other combination Heteromer；Protein × 60 PDB declaration: 68-meric |
Chain h
1–273（273 aa）
|
Not recorded | MG MAGNESIUM ION × 1 ZN ZINC ION × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.6
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 4.80 Å |
| 6XDQ Cryo-EM structure of an Escherichia coli coupled transcription-translation complex B3 (TTC-B3) containing an mRNA with a 30 nt long spacer, transcription factors NusA and NusG, and fMet-tRNAs at P-site and E-site Deposited 2020-06-11 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions | Assembly 1 Other combination Heteromer；Protein × 60 PDB declaration: 68-meric |
Chain h
1–273（273 aa）
|
Not recorded | MG MAGNESIUM ION × 1 ZN ZINC ION × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.6
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.70 Å |
| 6XDR Escherichia coli transcription-translation complex B (TTC-B) containing an 27 nt long mRNA spacer, NusG, and fMet-tRNAs at E-site and P-site Deposited 2020-06-11 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Other combination Heteromer；Protein × 59 PDB declaration: 67-meric |
Chain h
1–273（273 aa）
|
Not recorded | MG MAGNESIUM ION × 1 ZN ZINC ION × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.6
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 4.70 Å |
| 6XGF Escherichia coli transcription-translation complex B (TTC-B) containing an 30 nt long mRNA spacer, NusG, and fMet-tRNAs at E-site and P-site Deposited 2020-06-17 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Other combination Heteromer；Protein × 59 PDB declaration: 67-meric |
Chain h
1–273（273 aa）
|
Not recorded | MG MAGNESIUM ION × 1 ZN ZINC ION × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.6
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 5.00 Å |
| 6XII Escherichia coli transcription-translation complex B (TTC-B) containing an 24 nt long mRNA spacer, NusG, and fMet-tRNAs at E-site and P-site Deposited 2020-06-20 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Other combination Heteromer；Protein × 59 PDB declaration: 67-meric |
Chain h
1–273（273 aa）
|
Not recorded | MG MAGNESIUM ION × 1 ZN ZINC ION × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.6
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 7.00 Å |
| 6XIJ Escherichia coli transcription-translation complex A (TTC-A) containing an 24 nt long mRNA spacer, NusG, and fMet-tRNAs at E-site and P-site Deposited 2020-06-20 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Other combination Heteromer；Protein × 58 PDB declaration: 66-meric |
Chain h
1–273（273 aa）
|
Not recorded | MG MAGNESIUM ION × 1 ZN ZINC ION × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.6
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 8.00 Å |
| 6XZ7 E. coli 50S ribosomal subunit in complex with dirithromycin, fMet-Phe-tRNA(Phe) and deacylated tRNA(iMet). Deposited 2020-02-03 | Different oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 29 PDB declaration: 33-meric |
Chain C
2–272（271 aa）
|
Not recorded | MG MAGNESIUM ION × 178 DI0 Dirithromycin × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.10 Å |
| 6XZA E. coli 70S ribosome in complex with dirithromycin, and deacylated tRNA(iMet) (focused classification). Deposited 2020-02-03 | Different oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 53-meric |
Chain C2
2–272（271 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 oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 54-meric |
Chain C2
2–272（271 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 oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 54-meric |
Chain C
2–272（271 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 |
| 6YSR Structure of the P+9 stalled ribosome complex Deposited 2020-04-23 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 52 PDB declaration: 57-meric |
Chain C
1–273（273 aa）
|
Not recorded | MG MAGNESIUM ION × 332 ZN ZINC ION × 2 CL CHLORIDE ION × 1 NA SODIUM ION × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4；50 mM HEPES, 30 mM KCl, 7 mM MgCl2
cryo-EM vitrification conditions
Cryogen ETHANE；Manual blotting & plunge-freezing
|
Resolution 3.10 Å |
| 6YSS Structure of the P+9 ArfB-ribosome complex in the post-hydrolysis state Deposited 2020-04-23 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 53 PDB declaration: 58-meric |
Chain C
1–273（273 aa）
|
Not recorded | MG MAGNESIUM ION × 387 ZN ZINC ION × 2 NA SODIUM ION × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4；50 mM HEPES, 30 mM KCl, 7 mM MgCl2
cryo-EM vitrification conditions
Cryogen ETHANE；Manual blotting & plunge-freezing
|
Resolution 2.60 Å |
| 6YST Structure of the P+9 ArfB-ribosome complex with P/E hybrid tRNA in the post-hydrolysis state Deposited 2020-04-23 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 53 PDB declaration: 58-meric |
Chain C
1–273（273 aa）
|
Not recorded | MG MAGNESIUM ION × 253 ZN ZINC ION × 2 NA SODIUM ION × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4；50 mM HEPES, 30 mM KCl, 7 mM MgCl2
cryo-EM vitrification conditions
Cryogen ETHANE；Manual blotting & plunge-freezing
|
Resolution 3.20 Å |
| 6YSU Structure of the P+0 ArfB-ribosome complex in the post-hydrolysis state Deposited 2020-04-23 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions | Assembly 1 Protein–RNA Heteromer；Protein × 52 PDB declaration: 57-meric |
Chain C
1–273（273 aa）
|
Not recorded | MG MAGNESIUM ION × 356 ZN ZINC ION × 1 NA SODIUM ION × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4；50 mM HEPES, 30 mM KCl, 7 mM MgCl2, 0.1 % w/v DDM
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.70 Å |
| 6ZTJ E. coli 70S-RNAP expressome complex in NusG-coupled state (38 nt intervening mRNA) Deposited 2020-07-20 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Other combination Heteromer；Protein × 58 PDB declaration: 66-meric |
Chain BC
1–273（273 aa）
|
Not recorded | MG MAGNESIUM ION × 479 PHE PHENYLALANINE × 1 ZN ZINC ION × 4 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 8
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.40 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 conditions Different structure-quality metrics | Assembly 1 Other combination Heteromer；Protein × 54 PDB declaration: 62-meric |
Chain BC
1–273（273 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 |
| 6ZTM E. coli 70S-RNAP expressome complex in collided state without NusG Deposited 2020-07-20 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Other combination Heteromer；Protein × 52 PDB declaration: 60-meric |
Chain BC
1–273（273 aa）
|
Not recorded | MG MAGNESIUM ION × 421 PHE PHENYLALANINE × 1 ZN ZINC ION × 3 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 8
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.30 Å |
| 6ZTN E. coli 70S-RNAP expressome complex in NusG-coupled state (42 nt intervening mRNA) Deposited 2020-07-20 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Other combination Heteromer；Protein × 54 PDB declaration: 63-meric |
Chain BC
1–273（273 aa）
|
Not recorded | MG MAGNESIUM ION × 487 PHE PHENYLALANINE × 1 ZN ZINC ION × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 8
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.90 Å |
| 6ZTO E. coli 70S-RNAP expressome complex in uncoupled state 1 Deposited 2020-07-20 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Other combination Heteromer；Protein × 54 PDB declaration: 62-meric |
Chain BC
1–273（273 aa）
|
Not recorded | MG MAGNESIUM ION × 487 PHE PHENYLALANINE × 1 ZN ZINC ION × 4 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 8
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.00 Å |
| 6ZTP E. coli 70S-RNAP expressome complex in uncoupled state 6 Deposited 2020-07-20 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Other combination Heteromer；Protein × 54 PDB declaration: 62-meric |
Chain BC
1–273（273 aa）
|
Not recorded | MG MAGNESIUM ION × 487 PHE PHENYLALANINE × 1 ZN ZINC ION × 4 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 8
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.00 Å |
| 6ZU1 E. coli 70S-RNAP expressome complex in uncoupled state 2 Deposited 2020-07-21 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Other combination Heteromer；Protein × 54 PDB declaration: 62-meric |
Chain BC
1–273（273 aa）
|
Not recorded | MG MAGNESIUM ION × 487 PHE PHENYLALANINE × 1 ZN ZINC ION × 4 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 8
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.00 Å |
| 7ABZ Structure of pre-accomodated trans-translation complex on E. coli stalled ribosome. Deposited 2020-09-09 | Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 52 PDB declaration: 58-meric |
Chain B
2–272（271 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 oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 52 PDB declaration: 58-meric |
Chain B
2–272（271 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 oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 51 PDB declaration: 55-meric |
Chain B
2–272（271 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 oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 51 PDB declaration: 55-meric |
Chain B
2–272（271 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 oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 57-meric |
Chain C
2–272（271 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 |
| 7BL2 pre-50S-ObgE particle state 1 Deposited 2021-01-18 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions | Assembly 1 Protein–RNA Heteromer；Protein × 29 PDB declaration: 31-meric |
Chain C
1–273（273 aa）
|
Not recorded | MG MAGNESIUM ION × 1 ZN ZINC ION × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.6
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.70 Å |
| 7BL3 pre-50S-ObgE particle state 2 Deposited 2021-01-18 | Different construct Different oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 29 PDB declaration: 31-meric |
Chain C
1–273（273 aa）
|
Not recorded | ZN ZINC ION × 1 MG MAGNESIUM ION × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.50 Å |
| 7BL4 in vitro reconstituted 50S-ObgE-GMPPNP-RsfS particle Deposited 2021-01-18 | Different construct Different oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 31 PDB declaration: 33-meric |
Chain C
1–273（273 aa）
|
Not recorded | ZN ZINC ION × 2 MG MAGNESIUM ION × 6 GNP PHOSPHOAMINOPHOSPHONIC ACID-GUANYLATE ESTER × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.40 Å |
| 7BL5 pre-50S-ObgE particle Deposited 2021-01-18 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 33 PDB declaration: 35-meric |
Chain C
1–273（273 aa）
|
Not recorded | GDP GUANOSINE-5'-DIPHOSPHATE × 1 MG MAGNESIUM ION × 2 ZN ZINC ION × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.6
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.30 Å |
| 7BL6 50S-ObgE-GMPPNP particle Deposited 2021-01-18 | Different construct Different oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 30 PDB declaration: 32-meric |
Chain C
1–273（273 aa）
|
Not recorded | ZN ZINC ION × 2 MG MAGNESIUM ION × 2 GNP PHOSPHOAMINOPHOSPHONIC ACID-GUANYLATE ESTER × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 4.00 Å |
| 7BV8 Mature 50S ribosomal subunit from RrmJ knock out E.coli strain Deposited 2020-04-09 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 30 PDB declaration: 32-meric |
Chain C
1–273（273 aa）
|
Not recorded | No recorded non-water small molecule |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5；Solutions were made fresh form concentrated to avoid microbial contamination.
cryo-EM vitrification conditions
Cryogen ETHANE；blot for 2 seconds before plunging
|
Resolution 3.14 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 conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 52 PDB declaration: 58-meric |
Chain C
1–273（273 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 conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 51 PDB declaration: 57-meric |
Chain b
1–273（273 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 oligomeric state Different ligand/ion Different experimental conditions | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 54-meric |
Chain b
2–272（271 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 oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 54-meric |
Chain b
2–272（271 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 oligomeric state Different ligand/ion Different experimental conditions | Assembly 1 Protein–RNA Heteromer；Protein × 52 PDB declaration: 57-meric |
Chain b
2–272（271 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 oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 55-meric |
Chain b
2–272（271 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 oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 55-meric |
Chain b
2–272（271 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 oligomeric state Different ligand/ion Different experimental conditions | Assembly 1 Protein–RNA Heteromer；Protein × 53 PDB declaration: 58-meric |
Chain b
2–272（271 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 |
| 7K00 Structure of the Bacterial Ribosome at 2 Angstrom Resolution Deposited 2020-09-02 | Different construct Different oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 56-meric |
Chain c
1–273（273 aa）
|
Not recorded | PAR PAROMOMYCIN × 1 MG MAGNESIUM ION × 309 SPD SPERMIDINE × 16 SPM SPERMINE × 1 ZN ZINC ION × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 1.98 Å |
| 7K50 Pre-translocation non-frameshifting(CCA-A) complex (Structure I) Deposited 2020-09-16 | Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 52 PDB declaration: 59-meric |
Chain b
2–272（271 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 oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 53 PDB declaration: 59-meric |
Chain b
2–272（271 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 oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 53 PDB declaration: 59-meric |
Chain b
2–272（271 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 ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 52 PDB declaration: 59-meric |
Chain b
2–272（271 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 oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 53 PDB declaration: 59-meric |
Chain b
2–272（271 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 oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 53 PDB declaration: 59-meric |
Chain b
2–272（271 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 oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 52 PDB declaration: 58-meric |
Chain b
2–272（271 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 |
| 7LVK Cfr-modified 50S subunit from Escherichia coli Deposited 2021-02-25 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 28 PDB declaration: 30-meric |
Chain K
1–273（273 aa）
|
Not recorded | MG MAGNESIUM ION × 179 NA SODIUM ION × 1 ZN ZINC ION × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5；Buffer A
cryo-EM vitrification conditions
Cryogen ETHANE；Blot Force 5
Blot Time 10sec
Hum 95%
Temperature 10C
Waiting time 1 min
|
Resolution 2.20 Å |
| 7M5D Cryo-EM structure of a non-rotated E.coli 70S ribosome in complex with RF3-GTP, RF1 and P-tRNA (state I) Deposited 2021-03-23 | Different oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 54 PDB declaration: 59-meric |
Chain B
2–272（271 aa）
|
Not recorded | ZN ZINC ION × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.80 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 structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 52 PDB declaration: 58-meric |
Chain LB
1–273（273 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 structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 55 PDB declaration: 61-meric |
Chain LB
1–273（273 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 structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 56-meric |
Chain LB
1–273（273 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 structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 53 PDB declaration: 59-meric |
Chain LB
1–273（273 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 structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 56-meric |
Chain LB
1–273（273 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 structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 56-meric |
Chain LB
1–273（273 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 |
| 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 oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Insufficient information Heteromer；Protein × 50 PDB declaration: 56-meric |
Chain c
2–272（271 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 |
| 7NSO Structure of ErmDL-Erythromycin-stalled 70S E. coli ribosomal complex with P-tRNA Deposited 2021-03-08 | 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 C
2–272（271 aa）
|
Not recorded | ERY ERYTHROMYCIN A × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE-PROPANE
|
Resolution 2.90 Å |
| 7NSP Structure of ErmDL-Erythromycin-stalled 70S E. coli ribosomal complex with A and P-tRNA Deposited 2021-03-08 | Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 56-meric |
Chain C
2–272（271 aa）
|
Not recorded | ERY ERYTHROMYCIN A × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE-PROPANE
|
Resolution 3.50 Å |
| 7NSQ Structure of ErmDL-Telithromycin-stalled 70S E. coli ribosomal complex with A and P-tRNA Deposited 2021-03-08 | Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 56-meric |
Chain C
2–272（271 aa）
|
Not recorded | TEL TELITHROMYCIN × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE-PROPANE
|
Resolution 3.10 Å |
| 7NWT Initiated 70S ribosome in complex with 2A protein from encephalomyocarditis virus (EMCV) Deposited 2021-03-17 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 54 PDB declaration: 59-meric |
Chain B
1–273（273 aa）
|
Not recorded | MG MAGNESIUM ION × 437 FME N-FORMYLMETHIONINE × 1 ZN ZINC ION × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5；Initiated 70S ribosomes in 50 mM Tris-HCl pH 7.5, 70 mM NH4Cl, 30 mM KCl, 7 mM MgCl2 were diluted tenfold into 20 mM HEPES pH 7.5, 100 mM potassium acetate, 1.5 mM MgCl2, 2.0 mM DTT. 2A protein was dialysed (3K MWCO, 277K, 16 h) into the same buffer.
Crosslinking reactions of 50 microliters comprising 75 nM ribosomes, 3.0 micromolar 2A and 2.0 mM bis(sulfosuccinimidyl)suberate (BS3) were performed on ice (30 min) immediately prior to grid preparation.
cryo-EM vitrification conditions
Cryogen ETHANE；Quantifoil R 2/2 400-mesh copper supports were coated with an additional ~ 60 angstrom layer of amorphous, evaporated carbon by flotation and thoroughly dried before use. Grids were made hydrophilic by glow-discharge in air for 30 s. Three microliters of crosslinking reaction was applied to grids which were then blotted for 4.5 s and vitrified by plunging into liquid ethane using a Vitrobot MK IV (FEI) at 277K, 100% relative humidity.
|
Resolution 2.66 Å |
| 7NWW CspA-27 cotranslational folding intermediate 1 Deposited 2021-03-17 | 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 C
2–272（271 aa）
|
Not recorded | MG MAGNESIUM ION × 413 ZN ZINC ION × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5；50 mM Tris-HCl, 70 mM NH4Cl, 30 mM KCl, 3.5 mM MgCl2, 8 mM putrescine, 0.5 mM spermidine, 1 mM DTT, 1 mM GTP, pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.05 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 conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 55-meric |
Chain BC
1–273（273 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 conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 55-meric |
Chain BC
1–273（273 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 conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 51 PDB declaration: 56-meric |
Chain BC
1–273（273 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 |
| 7ODE E. coli 50S ribosome LiCl core particle Deposited 2021-04-29 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 15 PDB declaration: hexadecameric |
Chain K
1–273（273 aa）
|
Not recorded | No recorded non-water small molecule |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE；continuous carbon, 3 microL of sample, incubate for 30 seconds, blot for 3.5 seconds
|
Resolution 2.84 Å |
| 7OIF CspA-27 cotranslational folding intermediate 2 Deposited 2021-05-11 | 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 C
2–272（271 aa）
|
Not recorded | MG MAGNESIUM ION × 416 ZN ZINC ION × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5；50 mM Tris-HCl, 70 mM NH4Cl, 30 mM KCl, 3.5 mM MgCl2, 8 mM putrescine, 0.5 mM spermidine, 1 mM DTT, 1 mM GTP, pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.00 Å |
| 7OIG CspA-27 cotranslational folding intermediate 3 Deposited 2021-05-11 | 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 C
2–272（271 aa）
|
Not recorded | MG MAGNESIUM ION × 400 ZN ZINC ION × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5；50 mM Tris-HCl, 70 mM NH4Cl, 30 mM KCl, 3.5 mM MgCl2, 8 mM putrescine, 0.5 mM spermidine, 1 mM DTT, 1 mM GTP, pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.20 Å |
| 7OII CspA-70 cotranslational folding intermediate 2 Deposited 2021-05-11 | 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 C
2–272（271 aa）
|
Not recorded | MG MAGNESIUM ION × 422 ZN ZINC ION × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5；50 mM Tris-HCl, 70 mM NH4Cl, 30 mM KCl, 3.5 mM MgCl2, 8 mM putrescine, 0.5 mM spermidine, 1 mM DTT, 1 mM GTP, pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.00 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 conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 55-meric |
Chain c
1–273（273 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 conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 54 PDB declaration: 59-meric |
Chain c
1–273（273 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 |
| 7OT5 CspA-70 cotranslational folding intermediate 1 Deposited 2021-06-09 | 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 C
2–272（271 aa）
|
Not recorded | MG MAGNESIUM ION × 394 ZN ZINC ION × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5；50 mM Tris-HCl, 70 mM NH4Cl, 30 mM KCl, 3.5 mM MgCl2, 8 mM putrescine, 0.5 mM spermidine, 1 mM DTT, 1 mM GTP, pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.90 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 structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 54-meric |
Chain c
1–273（273 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 |
| 7PJS Structure of the 70S ribosome with tRNAs in the classical pre-translocation state and apramycin (C) Deposited 2021-08-24 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 52 PDB declaration: 58-meric |
Chain C
1–273（273 aa）
|
Not recorded | MG MAGNESIUM ION × 363 ZN ZINC ION × 2 NA SODIUM ION × 2 AM2 APRAMYCIN × 4 |
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 2.35 Å |
| 7PJT Structure of the 70S ribosome with tRNAs in hybrid state 1 (H1) Deposited 2021-08-24 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 52 PDB declaration: 58-meric |
Chain C
1–273（273 aa）
|
Not recorded | ZN ZINC ION × 2 AM2 APRAMYCIN × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE；Manual blotting & plunge-freezing
|
Resolution 6.00 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 conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 53 PDB declaration: 59-meric |
Chain C
1–273（273 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 |
| 7PJW Structure of the 70S-EF-G-GDP-Pi ribosome complex with tRNAs in hybrid state 2 (H2-EF-G-GDP-Pi) Deposited 2021-08-24 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 53 PDB declaration: 59-meric |
Chain C
1–273（273 aa）
|
Not recorded | AM2 APRAMYCIN × 1 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 4.00 Å |
| 7PJX Structure of the 70S-EF-G-GDP ribosome complex with tRNAs in hybrid state 1 (H1-EF-G-GDP) Deposited 2021-08-24 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 53 PDB declaration: 59-meric |
Chain C
1–273（273 aa）
|
Not recorded | AM2 APRAMYCIN × 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 6.50 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 conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 53 PDB declaration: 59-meric |
Chain C
1–273（273 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 |
| 7PJZ Structure of the 70S-EF-G-GDP ribosome complex with tRNAs in chimeric state 2 (CHI2-EF-G-GDP) Deposited 2021-08-24 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 53 PDB declaration: 59-meric |
Chain C
1–273（273 aa）
|
Not recorded | ZN ZINC ION × 1 AM2 APRAMYCIN × 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 6.00 Å |
| 7Q4K Erythromycin-stalled Escherichia coli 70S ribosome with streptococcal MsrDL nascent chain Deposited 2021-10-31 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 56-meric |
Chain BC
1–273（273 aa）
|
Not recorded | MG MAGNESIUM ION × 172 ERY ERYTHROMYCIN A × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.00 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 structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 52 PDB declaration: 57-meric |
Chain P
1–273（273 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 |
| 7QGN Structure of the SmrB-bound E. coli disome - stalled 70S ribosome Deposited 2021-12-09 | Different construct Different oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 53 PDB declaration: 58-meric |
Chain P
1–273（273 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 3.37 Å |
| 7QGR Structure of the SmrB-bound E. coli disome - collided 70S ribosome Deposited 2021-12-09 | Different construct Different oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 53 PDB declaration: 59-meric |
Chain P
1–273（273 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 5.70 Å |
| 7QQ3 Cryo-EM structure of the E.coli 50S ribosomal subunit in complex with the antibiotic Myxovalargin A. Deposited 2022-01-06 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 27 PDB declaration: 29-meric |
Chain K
1–273（273 aa）
|
Not recorded | MG MAGNESIUM ION × 145 ZN ZINC ION × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5；Solutions were made fresh, pH was adjusted with potassium hydroxide at 4 degrees celcius and sterile filtered.
cryo-EM vitrification conditions
Cryogen ETHANE-PROPANE；2 seconds blotting before plunging.
|
Resolution 2.10 Å |
| 7S1G wild-type Escherichia coli stalled ribosome with antibiotic linezolid Deposited 2021-09-02 | Different construct Different oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 55-meric |
Chain K
1–273（273 aa）
|
Not recorded | MG MAGNESIUM ION × 196 ZLD N-{[(5S)-3-(3-fluoro-4-morpholin-4-ylphenyl)-2-oxo-1,3-oxazolidin-5-yl]methyl}acetamide × 1 ZN ZINC ION × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.48 Å |
| 7S1H Wild-type Escherichia coli ribosome with antibiotic linezolid Deposited 2021-09-02 | Different construct Different oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 52-meric |
Chain K
1–273（273 aa）
|
Not recorded | MG MAGNESIUM ION × 206 ZLD N-{[(5S)-3-(3-fluoro-4-morpholin-4-ylphenyl)-2-oxo-1,3-oxazolidin-5-yl]methyl}acetamide × 1 ZN ZINC ION × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.35 Å |
| 7S1I Wild-type Escherichia coli stalled ribosome with antibiotic radezolid Deposited 2021-09-02 | Different construct Different oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 55-meric |
Chain K
1–273（273 aa）
|
Not recorded | MG MAGNESIUM ION × 209 RD8 Radezolid × 1 ZN ZINC ION × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.48 Å |
| 7S1J Wild-type Escherichia coli ribosome with antibiotic radezolid Deposited 2021-09-02 | Different construct Different oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 52-meric |
Chain K
1–273（273 aa）
|
Not recorded | MG MAGNESIUM ION × 199 RD8 Radezolid × 1 ZN ZINC ION × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.47 Å |
| 7S1K Cfr-modified Escherichia coli stalled ribosome with antibiotic radezolid Deposited 2021-09-02 | Different construct Different oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 55-meric |
Chain K
1–273（273 aa）
|
Not recorded | MG MAGNESIUM ION × 207 RD8 Radezolid × 1 ZN ZINC ION × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.42 Å |
| 7SA4 Damaged 70S ribosome with PrfH bound Deposited 2021-09-22 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 52 PDB declaration: 58-meric |
Chain B
1–273（273 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 2.55 Å |
| 7SS9 Late translocation intermediate with EF-G partially dissociated (Structure V) Deposited 2021-11-10 | Different oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 51 PDB declaration: 57-meric |
Chain b
2–272（271 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 oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 52 PDB declaration: 58-meric |
Chain b
2–272（271 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 oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 52 PDB declaration: 58-meric |
Chain b
2–272（271 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 oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 48 PDB declaration: 54-meric |
Chain b
2–272（271 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 oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 52 PDB declaration: 58-meric |
Chain b
2–272（271 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 oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 56-meric |
Chain b
2–272（271 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 oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 52 PDB declaration: 58-meric |
Chain b
2–272（271 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 oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 57-meric |
Chain b
2–272（271 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 oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 53 PDB declaration: 59-meric |
Chain b
2–272（271 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 |
| 7TOS E. coli 70S ribosomes bound with the ALS/FTD-associated dipeptide repeat protein PR20 Deposited 2022-01-24 | Different oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 53 PDB declaration: 56-meric |
Chain L02
2–272（271 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 |
| 7UG7 70S ribosome complex in an intermediate state of translocation bound to EF-G(GDP) stalled by Argyrin B Deposited 2022-03-24 | Different construct Different oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 54 PDB declaration: 60-meric |
Chain LB
1–273（273 aa）
|
Not recorded | PUT 1,4-DIAMINOBUTANE × 11 MG MAGNESIUM ION × 404 SPD SPERMIDINE × 2 ZN ZINC ION × 2 GDP GUANOSINE-5'-DIPHOSPHATE × 1 FME N-FORMYLMETHIONINE × 1 PHE PHENYLALANINE × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.58 Å |
| 7UPH Structure of a ribosome with tethered subunits Deposited 2022-04-15 | Different oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 47 PDB declaration: 49-meric |
Chain K
2–272（271 aa）
|
Not recorded | No recorded non-water small molecule |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 4.18 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 conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 55-meric |
Chain c
1–273（273 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 conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 55-meric |
Chain c
1–273（273 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 conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 55-meric |
Chain c
1–273（273 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 conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 55-meric |
Chain c
1–273（273 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 conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 55-meric |
Chain c
1–273（273 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 conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 55-meric |
Chain c
1–273（273 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 |
| 7Z20 70S E. coli ribosome with an extended uL23 loop from Candidatus marinimicrobia and a stalled filamin domain 5 nascent chain Deposited 2022-02-25 | Different construct Different oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 29 PDB declaration: 32-meric |
Chain c
1–273（273 aa）
|
Not recorded | No recorded non-water small molecule |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.29 Å |
| 7ZOD 70S E. coli ribosome with an extended uL23 loop from Candidatus marinimicrobia Deposited 2022-04-25 | Different construct Different oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 28 PDB declaration: 31-meric |
Chain c
1–273（273 aa）
|
Not recorded | No recorded non-water small molecule |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.56 Å |
| 7ZP8 70S E. coli ribosome with a stalled filamin domain 5 nascent chain Deposited 2022-04-26 | Different construct Different oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 29 PDB declaration: 32-meric |
Chain c
1–273（273 aa）
|
Not recorded | No recorded non-water small molecule |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.20 Å |
| 7ZQ5 70S E. coli ribosome with truncated uL23 and uL24 loops Deposited 2022-04-29 | Different construct Different oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 28 PDB declaration: 30-meric |
Chain c
1–273（273 aa）
|
Not recorded | No recorded non-water small molecule |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.70 Å |
| 7ZQ6 70S E. coli ribosome with truncated uL23 and uL24 loops and a stalled filamin domain 5 nascent chain Deposited 2022-04-29 | Different construct Different oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 29 PDB declaration: 32-meric |
Chain c
1–273（273 aa）
|
Not recorded | No recorded non-water small molecule |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.75 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 oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 57-meric |
Chain L021
2–272（271 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 structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 56-meric |
Chain c
1–273（273 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 |
| 8AP4 Structure of Escherischia coli heat shock protein Hsp15 in complex with ribosomal 50S subunits bearing peptidyl-tRNA Deposited 2022-08-09 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 30 PDB declaration: 33-meric |
Chain c
1–273（273 aa）
|
Not recorded | No recorded non-water small molecule |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.46
cryo-EM vitrification conditions
Cryogen ETHANE-PROPANE
|
Resolution 3.00 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 structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 55-meric |
Chain c
1–273（273 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 conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 48 PDB declaration: 53-meric |
Chain c
1–273（273 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 conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 47 PDB declaration: 52-meric |
Chain K
1–273（273 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 conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 56-meric |
Chain A
1–273（273 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 conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 48 PDB declaration: 53-meric |
Chain A
1–273（273 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 conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 54-meric |
Chain A
1–273（273 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 conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 55-meric |
Chain A
1–273（273 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 conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 55-meric |
Chain A
1–273（273 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 conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 48 PDB declaration: 53-meric |
Chain A
1–273（273 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 conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 56-meric |
Chain A
1–273（273 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 conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 54-meric |
Chain A
1–273（273 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 conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 54-meric |
Chain A
1–273（273 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 conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 54-meric |
Chain A
1–273（273 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 |
| 8C8X Cryo-EM captures early ribosome assembly in action Deposited 2023-01-21 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 26 PDB declaration: 28-meric |
Chain C
1–273（273 aa）
|
Not recorded | No recorded non-water small molecule |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.6
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.93 Å |
| 8C8Y Cryo-EM captures early ribosome assembly in action Deposited 2023-01-21 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 23 PDB declaration: 25-meric |
Chain C
1–273（273 aa）
|
Not recorded | No recorded non-water small molecule |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.6
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.03 Å |
| 8C91 Cryo-EM captures early ribosome assembly in action Deposited 2023-01-21 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 17 PDB declaration: octadecameric |
Chain C
1–273（273 aa）
|
Not recorded | No recorded non-water small molecule |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.6
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 4.19 Å |
| 8CAM Evernimicin bound to the 50S subunit Deposited 2023-01-24 | Different construct Different oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 26 PDB declaration: 28-meric |
Chain c
1–273（273 aa）
|
Not recorded | ZN ZINC ION × 1 ACT ACETATE ION × 1 MG MAGNESIUM ION × 246 K POTASSIUM ION × 72 6O1 Evernimicin × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 1.86 Å |
| 8CEU Retapamulin and Capreomycin bound to the 50S subunit Deposited 2023-02-02 | Different construct Different oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 36 PDB declaration: 38-meric |
Chain c
1–273（273 aa）
|
Not recorded | ZN ZINC ION × 1 G34 Retapamulin × 1 MG MAGNESIUM ION × 220 K POTASSIUM ION × 81 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 1.83 Å |
| 8CGD Clindamycin bound to the 50S subunit Deposited 2023-02-03 | Different construct Different oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 28 PDB declaration: 30-meric |
Chain c
1–273（273 aa）
|
Not recorded | ZN ZINC ION × 2 ACT ACETATE ION × 1 CLY CLINDAMYCIN × 1 AM2 APRAMYCIN × 1 MG MAGNESIUM ION × 254 K POTASSIUM ION × 85 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 1.98 Å |
| 8CGK Lincomycin and Avilamycin bound to the 50S subunit Deposited 2023-02-05 | Different construct Different oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 26 PDB declaration: 28-meric |
Chain c
1–273（273 aa）
|
Not recorded | ZN ZINC ION × 1 ACT ACETATE ION × 1 3QB LINCOMYCIN × 1 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 MG MAGNESIUM ION × 260 K POTASSIUM ION × 81 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 1.64 Å |
| 8CGV Tiamulin bound to the 50S subunit Deposited 2023-02-06 | Different construct Different oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 27 PDB declaration: 29-meric |
Chain c
1–273（273 aa）
|
Not recorded | ZN ZINC ION × 1 P8F Pentacycline × 2 MUL TIAMULIN × 1 MG MAGNESIUM ION × 219 K POTASSIUM ION × 83 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 1.66 Å |
| 8E30 E. coli 50S ribosome bound to compound streptogramin A analog 3142 Deposited 2022-08-16 | Different oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 8 PDB declaration: decameric |
Chain K
2–272（271 aa）
|
Not recorded | UE6 N-{2-[4-(aminomethyl)-1H-1,2,3-triazol-1-yl]ethyl}-2-[(3R,4R,5E,10E,12E,14S,16R,23S,26aR)-16-fluoro-14-hydroxy-12-methyl-1,7,22-trioxo-3-(propan-2-yl)-4,7,8,9,14,15,16,17,24,25,26,26a-dodecahydro-1H,3H,22H-21,18-(azeno)pyrrolo[2,1-c][1,8,4,19]dioxadiazacyclotetracosin-4-yl]acetamide × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 1.91 Å |
| 8E32 E. coli 50S ribosome bound to compound streptogramin analogs SA1 and SB1 Deposited 2022-08-16 | Different oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 8 PDB declaration: decameric |
Chain K
2–272（271 aa）
|
Not recorded | UCX (3R,4R,5E,10E,12E,14S,16R,23S,26aR)-16-fluoro-14-hydroxy-12-methyl-3-(propan-2-yl)-4-(prop-2-yn-1-yl)-3,4,8,9,14,15,16,17,24,25,26,26a-dodecahydro-1H,7H,22H-21,18-(azeno)pyrrolo[2,1-c][1,8,4,19]dioxadiazacyclotetracosine-1,7,22-trione × 1 UDF ~{N}-[(3~{S},6~{S},12~{R},15~{S},16~{R},19~{S},22~{S},24~{R})-12-[2-[(azanylidene-$l^{4}-azanylidene)amino]ethyl]-4,16-dimethyl-24-oxidanyl-2,5,11,14,18,21-hexakis(oxidanylidene)-19-phenyl-3-(phenylmethyl)-17-oxa-1,4,10,13,20-pentazatricyclo[20.4.0.0^{6,10}]hexacosan-15-yl]-3-oxidanyl-pyridine-2-carboxamide × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.35 Å |
| 8E33 E. coli 50S ribosome bound to compound streptogramin analog SAB001 Deposited 2022-08-16 | Different oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 8 PDB declaration: decameric |
Chain K
2–272（271 aa）
|
Not recorded | UDU N-{(4R,6R,9S,10R,13S,15aS,17R,20R,22S,24aS)-22-benzyl-6-[2-(4-{[(3R,4R,5E,10E,12E,14S,16R,23S,26aR)-16-fluoro-14-hydroxy-12-methyl-1,7,22-trioxo-3-(propan-2-yl)-4,7,8,9,14,15,16,17,24,25,26,26a-dodecahydro-1H,3H,22H-21,18-(azeno)pyrrolo[2,1-c][1,8,4,19]dioxadiazacyclotetracosin-4-yl]methyl}-1H-1,2,3-triazol-1-yl)ethyl]-17-hydroxy-10,23-dimethyl-5,8,12,15,21,24-hexaoxo-13-phenyldocosahydro-12H-pyrido[2,1-f]pyrrolo[2,1-l][1,4,7,10,13,16]oxapentaazacyclononadecin-9-yl}-3-hydroxypyridine-2-carboxamide × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.23 Å |
| 8E35 E. coli 50S ribosome bound to compound SAB002 Deposited 2022-08-16 | Different oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 8 PDB declaration: decameric |
Chain K
2–272（271 aa）
|
Not recorded | UCR N-{(4R,6R,9S,10R,13S,15aS,17R,20R,22S,24aS)-22-benzyl-6-[3-(4-{[(3R,4R,5E,10E,12E,14S,16R,23R,26aR)-16-fluoro-14-hydroxy-12-methyl-1,7,22-trioxo-3-(propan-2-yl)-4,7,8,9,14,15,16,17,24,25,26,26a-dodecahydro-1H,3H,22H-21,18-(azeno)pyrrolo[2,1-c][1,8,4,19]dioxadiazacyclotetracosin-4-yl]methyl}-1H-1,2,3-triazol-1-yl)propyl]-17-hydroxy-10,23-dimethyl-5,8,12,15,21,24-hexaoxo-13-phenyldocosahydro-12H-pyrido[2,1-f]pyrrolo[2,1-l][1,4,7,10,13,16]oxapentaazacyclononadecin-9-yl}-3-hydroxypyridine-2-carboxamide × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.27 Å |
| 8E36 E. coli 50S ribosome bound to compound streptogramin A analog 3146 Deposited 2022-08-16 | Different oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 8 PDB declaration: decameric |
Chain K
2–272（271 aa）
|
Not recorded | UEC 2-[(3R,4R,5E,10E,12E,14S,16R,23S,26aR)-16-fluoro-14-hydroxy-12-methyl-1,7,22-trioxo-3-(propan-2-yl)-4,7,8,9,14,15,16,17,24,25,26,26a-dodecahydro-1H,3H,22H-21,18-(azeno)pyrrolo[2,1-c][1,8,4,19]dioxadiazacyclotetracosin-4-yl]-N-{2-[4-(pyridin-4-yl)-1H-1,2,3-triazol-1-yl]ethyl}acetamide × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.38 Å |
| 8E3L E. coli 50S ribosome bound to D-linker solithromycin conjugate Deposited 2022-08-17 | Different oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 8 PDB declaration: decameric |
Chain K
2–272（271 aa）
|
Not recorded | UK3 (2~{R})-~{N}-[(2~{R})-6-azanyl-1-[[(2~{R})-1-[[(2~{R})-1-[[3-[1-[4-[(1~{S},2~{R},5~{S},7~{R},8~{R},9~{R},11~{R},13~{R},14~{R})-8-[(2~{S},3~{R},4~{S},6~{R})-4-(dimethylamino)-6-methyl-3-oxidanyl-oxan-2-yl]oxy-2-ethyl-5-fluoranyl-9-methoxy-1,5,7,11,13-pentamethyl-4,6,12,16-tetrakis(oxidanylidene)-3,17-dioxa-15-azabicyclo[12.3.0]heptadecan-15-yl]butyl]-1,2,3-triazol-4-yl]phenyl]amino]-4-methylsulfanyl-1-oxidanylidene-butan-2-yl]amino]-3-(4-hydroxyphenyl)-1-oxidanylidene-propan-2-yl]amino]-1-oxidanylidene-hexan-2-yl]-1-[(2~{R})-2-[[(2~{R})-2-[2-[[2,3-bis(oxidanyl)phenyl]carbonyl-[4-[[2,3-bis(oxidanyl)phenyl]carbonylamino]butyl]amino]ethanoylamino]-3-(1~{H}-indol-3-yl)propanoyl]amino]-3-oxidanyl-propanoyl]pyrrolidine-2-carboxamide × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.35 Å |
| 8E3M E. coli 50S ribosome bound to L-linker solithromycin conjugate Deposited 2022-08-17 | Different oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 8 PDB declaration: decameric |
Chain K
2–272（271 aa）
|
Not recorded | UIU N-acetyl-L-tyrosyl-N-[(3M)-3-(1-{4-[(3aS,4R,7S,9R,10R,11R,13R,15R,15aR)-4-ethyl-7-fluoro-11-methoxy-3a,7,9,11,13,15-hexamethyl-2,6,8,14-tetraoxo-10-{[3,4,6-trideoxy-3-(dimethylamino)-beta-D-xylo-hexopyranosyl]oxy}dodecahydro-2H-oxacyclotetradecino[4,3-d][1,3]oxazol-1(4H)-yl]butyl}-1H-1,2,3-triazol-4-yl)phenyl]-L-methioninamide × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.25 Å |
| 8E3O E. coli 50S ribosome bound to solithromycin and VM1 Deposited 2022-08-17 | Different oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 8 PDB declaration: decameric |
Chain K
2–272（271 aa）
|
Not recorded | 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 VIR VIRGINIAMYCIN M1 × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 1.99 Å |
| 8E41 E. coli 50S ribosome bound to tiamulin and VS1 Deposited 2022-08-17 | Different oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 9 PDB declaration: undecameric |
Chain K
2–272（271 aa）
|
Not recorded | MUL TIAMULIN × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.13 Å |
| 8E42 E. coli 50S ribosome bound to tiamulin and azithromycin Deposited 2022-08-17 | Different oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 8 PDB declaration: decameric |
Chain K
2–272（271 aa）
|
Not recorded | MUL TIAMULIN × 1 ZIT AZITHROMYCIN × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.29 Å |
| 8E43 E. coli 50S ribosome bound to compound streptogramin A analog 3336 Deposited 2022-08-17 | Different oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 8 PDB declaration: decameric |
Chain K
2–272（271 aa）
|
Not recorded | UI0 (2R)-2-[(3S,4R,5E,10E,12E,14S,16R,23S,26aR)-16-fluoro-14-hydroxy-12-methyl-1,7,22-trioxo-4-(prop-2-en-1-yl)-4,7,8,9,14,15,16,17,24,25,26,26a-dodecahydro-1H,3H,22H-21,18-(azeno)pyrrolo[2,1-c][1,8,4,19]dioxadiazacyclotetracosin-3-yl]propyl isoquinolin-3-ylcarbamate × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.09 Å |
| 8E44 E. coli 50S ribosome bound to antibiotic analog SLC09 Deposited 2022-08-17 | Different oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 8 PDB declaration: decameric |
Chain K
2–272（271 aa）
|
Not recorded | UI9 2-chloro-N-{[(5S)-3-{(4M)-3-fluoro-4-[(6P)-6-(2-methyl-2H-tetrazol-5-yl)pyridin-3-yl]phenyl}-2-oxo-1,3-oxazolidin-5-yl]methyl}acetamide × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.53 Å |
| 8E45 E. coli 50S ribosome bound to antibiotic analog SLC17 Deposited 2022-08-17 | Different oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 8 PDB declaration: decameric |
Chain K
2–272（271 aa）
|
Not recorded | UI6 2-{[(2S,3R,4S,6R)-2-{[(2R,3S,4R,5R,8R,10R,11R,12S,13S,14R)-2-ethyl-3,4,10-trihydroxy-13-{[(2R,4R,5S,6S)-5-hydroxy-4-methoxy-4,6-dimethyloxan-2-yl]oxy}-3,5,6,8,10,12,14-heptamethyl-15-oxo-1-oxa-6-azacyclopentadecan-11-yl]oxy}-3-hydroxy-6-methyloxan-4-yl](methyl)amino}-N-{[(5S)-3-{(4M)-3-fluoro-4-[(6P)-6-(2-methyl-2H-tetrazol-5-yl)pyridin-3-yl]phenyl}-2-oxo-1,3-oxazolidin-5-yl]methyl}acetamide (non-preferred name) × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.30 Å |
| 8E46 E. coli 50S ribosome bound to antibiotic analog SLC21 Deposited 2022-08-17 | Different oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 8 PDB declaration: decameric |
Chain K
2–272（271 aa）
|
Not recorded | UHP (2R,3S,4R,5R,8R,10R,11R,12S,13S,14R)-2-ethyl-3,4,10-trihydroxy-3,5,6,8,10,12,14-heptamethyl-15-oxo-11-({3,4,6-trideoxy-3-[{[1-(2-{[(1R,2R)-1,3-dihydroxy-1-(4-nitrophenyl)propan-2-yl]amino}-2-oxoethyl)-1H-1,2,3-triazol-4-yl]methyl}(methyl)amino]-beta-D-xylo-hexopyranosyl}oxy)-1-oxa-6-azacyclopentadecan-13-yl 2,6-dideoxy-3-C-methyl-3-O-methyl-alpha-L-ribo-hexopyranoside × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.32 Å |
| 8E47 E. coli 50S ribosome bound to antibiotic analog SLC26 Deposited 2022-08-17 | Different oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 8 PDB declaration: decameric |
Chain K
2–272（271 aa）
|
Not recorded | UH6 (2R,3S,4R,5R,8R,10R,11R,12S,13S,14R)-2-ethyl-3,4,10-trihydroxy-3,5,6,8,10,12,14-heptamethyl-15-oxo-11-({3,4,6-trideoxy-3-[(2-{[2-({[(5S)-3-{(4M)-3-fluoro-4-[(6P)-6-(2-methyl-2H-tetrazol-5-yl)pyridin-3-yl]phenyl}-2-oxo-1,3-oxazolidin-5-yl]methyl}amino)-2-oxoethyl]sulfanyl}ethyl)(methyl)amino]-beta-D-xylo-hexopyranosyl}oxy)-1-oxa-6-azacyclopentadecan-13-yl 2,6-dideoxy-3-C-methyl-3-O-methyl-alpha-L-ribo-hexopyranoside × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.32 Å |
| 8E48 E. coli 50S ribosome bound to antibiotic analog SLC30 Deposited 2022-08-17 | Different oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 8 PDB declaration: decameric |
Chain K
2–272（271 aa）
|
Not recorded | UIF [(2~{S},3~{S},4~{R},6~{R})-4-[[2-[[(5~{S})-3-[3-fluoranyl-4-[6-(2-methyl-1,2,3,4-tetrazol-5-yl)pyridin-3-yl]phenyl]-2-oxidanylidene-1,3-oxazolidin-5-yl]methylamino]-2-oxidanylidene-ethyl]-methyl-amino]-6-methyl-2-(phenylcarbonyloxy)oxan-3-yl] benzoate × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.27 Å |
| 8E49 E. coli 50S ribosome bound to antibiotic analog SLC31 Deposited 2022-08-17 | Different oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 8 PDB declaration: decameric |
Chain K
2–272（271 aa）
|
Not recorded | UH0 ~{N}-[[(5~{S})-3-[3-fluoranyl-4-[6-(2-methyl-1,2,3,4-tetrazol-5-yl)pyridin-3-yl]phenyl]-2-oxidanylidene-1,3-oxazolidin-5-yl]methyl]-2-[methyl-[(2~{R},3~{R},4~{S},6~{R})-6-methyl-2,3-bis(oxidanyl)oxan-4-yl]amino]ethanamide × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.05 Å |
| 8EIU E. coli 70S ribosome with A-loop mutations U2554C and U2555C Deposited 2022-09-15 | Different construct Different oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 55-meric |
Chain c
1–273（273 aa）
|
Not recorded | ZN ZINC ION × 2 PAR PAROMOMYCIN × 1 MG MAGNESIUM ION × 268 SPD SPERMIDINE × 16 8AN 3'-amino-3'-deoxyadenosine 5'-(dihydrogen phosphate) × 2 SPM SPERMINE × 1 MET METHIONINE × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.24 Å |
| 8EKC Escherichia coli 70S ribosome bound to thermorubin, deacylated P-site tRNAfMet and aminoacylated A-site Phe-tRNA Deposited 2022-09-20 | 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 C
1–273（273 aa）
|
Not recorded | MG MAGNESIUM ION × 714 T8B Thermorubin × 1 PHE PHENYLALANINE × 1 ZN ZINC ION × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.70 Å |
| 8EMM Composite 70S ribosome structure for "Atomistic simulations of the E. coli ribosome provide selection criteria for translationally active substrates Deposited 2022-09-28 | Different construct Different oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 55-meric |
Chain c
1–273（273 aa）
|
Not recorded | MG MAGNESIUM ION × 321 SPD SPERMIDINE × 17 SPM SPERMINE × 1 K POTASSIUM ION × 10 ZN ZINC ION × 2 MET METHIONINE × 2 PAR PAROMOMYCIN × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.10 Å |
| 8FIZ Cryo-EM structure of E. coli 70S Ribosome containing mRNA and tRNA (in the transcription-translation complex) Deposited 2022-12-18 | Different construct Different oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 51 PDB declaration: 56-meric |
Chain BD
1–273（273 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 |
| 8FTO E. coli 70S ribosome with an improved MS2 tag inserted in H98 Deposited 2023-01-12 | Different construct Different oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 54-meric |
Chain c
1–273（273 aa）
|
Not recorded | MG MAGNESIUM ION × 284 FME N-FORMYLMETHIONINE × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 1.85 Å |
| 8FZD Cryo-EM structure of an E. coli non-rotated ribosome termination complex bound with apoRF3, RF1, P- and E-site tRNAPhe (Composite state I-B) Deposited 2023-01-28 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 53 PDB declaration: 59-meric |
Chain C
1–273（273 aa）
|
Not recorded | MG MAGNESIUM ION × 581 ZN ZINC ION × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4；5 mM Tris-HCl, 60 mM NH4Cl, 10 mM MgCl2, 6 mM B-mercaptoethanol
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.10 Å |
| 8FZE Cryo-EM structure of an E. coli non-rotated ribosome termination complex bound with RF1, P- and E-site tRNAPhe (State I-A) Deposited 2023-01-28 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 52 PDB declaration: 58-meric |
Chain C
1–273（273 aa）
|
Not recorded | MG MAGNESIUM ION × 570 ZN ZINC ION × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4；5 mM Tris-HCl, 60 mM NH4Cl, 10 mM MgCl2, 6 mM B-mercaptoethanol
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.00 Å |
| 8FZF Cryo-EM structure of an E. coli rotated ribosome complex bound with RF3-ppGpp and p/E-tRNAPhe (Composite state I-C) Deposited 2023-01-28 | 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 C
1–273（273 aa）
|
Not recorded | MG MAGNESIUM ION × 384 G4P GUANOSINE-5',3'-TETRAPHOSPHATE × 1 ZN ZINC ION × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4；5 mM Tris-HCl, 60 mM NH4Cl, 10 mM MgCl2, 6 mM B-mercaptoethanol
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.20 Å |
| 8FZG Cryo-EM structure of an E. coli non-rotated ribosome termination complex bound with RF3-GDPCP, RF1, P- and E-site tRNAPhe (Composite state II-A) Deposited 2023-01-28 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 53 PDB declaration: 59-meric |
Chain C
1–273（273 aa）
|
Not recorded | MG MAGNESIUM ION × 428 GCP PHOSPHOMETHYLPHOSPHONIC ACID GUANYLATE ESTER × 1 ZN ZINC ION × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4；5 mM Tris-HCl, 60 mM NH4Cl, 10 mM MgCl2, 6 mM B-mercaptoethanol
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.10 Å |
| 8FZH Cryo-EM structure of an E. coli non-rotated ribosome termination complex bound with RF1, P- and E-site tRNAPhe (State II-D) Deposited 2023-01-28 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 52 PDB declaration: 58-meric |
Chain C
1–273（273 aa）
|
Not recorded | MG MAGNESIUM ION × 595 ZN ZINC ION × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4；5 mM Tris-HCl, 60 mM NH4Cl, 10 mM MgCl2, 6 mM B-mercaptoethanol
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.90 Å |
| 8FZI Cryo-EM structure of an E. coli rotated ribosome bound with RF3-GDPCP and p/E-tRNAPhe (Composite state II-B) Deposited 2023-01-28 | 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 C
1–273（273 aa）
|
Not recorded | MG MAGNESIUM ION × 737 GCP PHOSPHOMETHYLPHOSPHONIC ACID GUANYLATE ESTER × 1 ZN ZINC ION × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4；5 mM Tris-HCl, 60 mM NH4Cl, 10 mM MgCl2, 6 mM B-mercaptoethanol
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.10 Å |
| 8FZJ Cryo-EM structure of an E. coli rotated ribosome bound with RF3-GDPCP and p/E-tRNAPhe (Composite state II-C) Deposited 2023-01-28 | 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 C
1–273（273 aa）
|
Not recorded | MG MAGNESIUM ION × 757 GCP PHOSPHOMETHYLPHOSPHONIC ACID GUANYLATE ESTER × 1 ZN ZINC ION × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4；5 mM Tris-HCl, 60 mM NH4Cl, 10 mM MgCl2, 6 mM B-mercaptoethanol
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.00 Å |
| 8G6W Structure of WT E.coli 70S ribosome complexed with mRNA, P-site fMet-NH-tRNAfMet and A-site ortho-aminobenzoic acid charged NH-tRNAPhe Deposited 2023-02-16 | Different construct Different oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 55-meric |
Chain c
1–273（273 aa）
|
Not recorded | ZN ZINC ION × 2 PAR PAROMOMYCIN × 1 MG MAGNESIUM ION × 320 2AE 2-AMINO-BENZAMIDE × 1 8AN 3'-amino-3'-deoxyadenosine 5'-(dihydrogen phosphate) × 1 FME N-FORMYLMETHIONINE × 1 K POTASSIUM ION × 14 SPD SPERMIDINE × 8 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.02 Å |
| 8G6X Structure of WT E.coli ribosome 50S subunit with complexed with mRNA, P-site fMet-NH-tRNAfMet and A-site meta-aminobenzoic acid charged NH-tRNAPhe Deposited 2023-02-16 | Different construct Different oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 29 PDB declaration: 34-meric |
Chain c
1–273（273 aa）
|
Not recorded | MG MAGNESIUM ION × 223 SPD SPERMIDINE × 17 SPM SPERMINE × 1 K POTASSIUM ION × 7 FME N-FORMYLMETHIONINE × 1 ZN ZINC ION × 2 3AB 3-aminobenzamide × 1 8AN 3'-amino-3'-deoxyadenosine 5'-(dihydrogen phosphate) × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.31 Å |
| 8G6Y Structure of WT E.coli ribosome 50S subunit with complexed with mRNA, P-site fMet-NH-tRNAfMet and A-site 3-aminopyridine-4-carboxylic acid charged NH-tRNAPhe Deposited 2023-02-16 | Different construct Different oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 29 PDB declaration: 34-meric |
Chain c
1–273（273 aa）
|
Not recorded | ZN ZINC ION × 2 YRW 3-aminopyridine-4-carboxamide × 1 8AN 3'-amino-3'-deoxyadenosine 5'-(dihydrogen phosphate) × 1 FME N-FORMYLMETHIONINE × 1 MG MAGNESIUM ION × 231 K POTASSIUM ION × 15 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.09 Å |
| 8G7P Structure of the Escherichia coli 70S ribosome in complex with EF-Tu and Ile-tRNAIle(LAU) bound to the cognate AUA codon (Structure I) Deposited 2023-02-16 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 51 PDB declaration: 58-meric |
Chain C
1–273（273 aa）
|
Not recorded | MG MAGNESIUM ION × 876 K POTASSIUM ION × 2 ILE ISOLEUCINE × 2 GCP PHOSPHOMETHYLPHOSPHONIC ACID GUANYLATE ESTER × 1 ZN ZINC ION × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.90 Å |
| 8G7Q Structure of the Escherichia coli 70S ribosome in complex with EF-Tu and Ile-tRNAIle(LAU) bound to the near-cognate AUG codon (Structure II) Deposited 2023-02-16 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 51 PDB declaration: 58-meric |
Chain C
1–273（273 aa）
|
Not recorded | PAR PAROMOMYCIN × 1 MG MAGNESIUM ION × 950 ILE ISOLEUCINE × 2 GCP PHOSPHOMETHYLPHOSPHONIC ACID GUANYLATE ESTER × 1 ZN ZINC ION × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.10 Å |
| 8G7R Structure of the Escherichia coli 70S ribosome in complex with A-site tRNAIle(LAU) bound to the cognate AUA codon (Structure III) Deposited 2023-02-16 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 56-meric |
Chain C
1–273（273 aa）
|
Not recorded | PAR PAROMOMYCIN × 1 MG MAGNESIUM ION × 734 K POTASSIUM ION × 2 ILE ISOLEUCINE × 1 ZN ZINC ION × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.80 Å |
| 8G7S Structure of the Escherichia coli 70S ribosome in complex with P-site tRNAIle(LAU) bound to the cognate AUA codon (Structure IV) Deposited 2023-02-16 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 55-meric |
Chain C
1–273（273 aa）
|
Not recorded | MG MAGNESIUM ION × 564 ILE ISOLEUCINE × 1 ZN ZINC ION × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.10 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 conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 55-meric |
Chain c
1–273（273 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 conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 55-meric |
Chain c
1–273（273 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 conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 55-meric |
Chain c
1–273（273 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 conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 55-meric |
Chain c
1–273（273 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 conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 55-meric |
Chain c
1–273（273 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 |
| 8J1Z The global structure of pre50S related to DbpA in state3 Deposited 2023-04-13 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 25 PDB declaration: 27-meric |
Chain c
1–273（273 aa）
|
Not recorded | MG MAGNESIUM ION × 210 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5；20mM HEPES-KOH,pH7.5;140mM NH4Cl;10mM Mg2+,1mM DTT
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.60 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 conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 51 PDB declaration: 56-meric |
Chain B
1–273（273 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 conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 51 PDB declaration: 56-meric |
Chain B
1–273（273 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 conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 51 PDB declaration: 56-meric |
Chain B
1–273（273 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 conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 54 PDB declaration: 61-meric |
Chain b
1–273（273 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 structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 54 PDB declaration: 61-meric |
Chain c
1–273（273 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 conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 53 PDB declaration: 60-meric |
Chain b
1–273（273 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 structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 56-meric |
Chain c
1–273（273 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 conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 45 PDB declaration: 52-meric |
Chain C
1–273（273 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 conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 51 PDB declaration: 56-meric |
Chain B
1–273（273 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 conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 57-meric |
Chain c
1–273（273 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 oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 54 PDB declaration: 65-meric |
Chain b2
1–273（273 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 conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 57-meric |
Chain c
1–273（273 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 conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 56-meric |
Chain c
1–273（273 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 oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 54 PDB declaration: 65-meric |
Chain b2
1–273（273 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 oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 54 PDB declaration: 65-meric |
Chain b2
1–273（273 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 oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 55 PDB declaration: 65-meric |
Chain b2
1–273（273 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 oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 55 PDB declaration: 65-meric |
Chain b2
1–273（273 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 |
| 8RPY Escherichia coli 50S subunit in complex with the antimicrobial peptide Api137 Deposited 2024-01-17 | Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 31 PDB declaration: 33-meric |
Chain C
2–272（271 aa）
|
Not recorded | No recorded non-water small molecule |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.6
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.64 Å |
| 8RPZ Escherichia coli 50S subunit in complex with the antimicrobial peptide Api88 - conformation I Deposited 2024-01-17 | Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 32 PDB declaration: 34-meric |
Chain C
2–272（271 aa）
|
Not recorded | No recorded non-water small molecule |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.6
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.44 Å |
| 8RQ0 Escherichia coli 50S subunit in complex with the antimicrobial peptide Api88 - conformation II Deposited 2024-01-17 | Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 32 PDB declaration: 34-meric |
Chain C
2–272（271 aa）
|
Not recorded | No recorded non-water small molecule |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.6
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.44 Å |
| 8RQ2 Escherichia coli 50S subunit in complex with the antimicrobial peptide Api88 - conformation III Deposited 2024-01-17 | Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 32 PDB declaration: 34-meric |
Chain C
2–272（271 aa）
|
Not recorded | No recorded non-water small molecule |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.6
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.44 Å |
| 8SYL Cryo-EM structure of the Escherichia coli 70S ribosome in complex with amikacin, mRNA, and A-, P-, and E-site tRNAs Deposited 2023-05-25 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 56-meric |
Chain C
1–273（273 aa）
|
Not recorded | MG MAGNESIUM ION × 474 AKN (2S)-N-[(1R,2S,3S,4R,5S)-4-[(2R,3R,4S,5S,6R)-6-(aminomethyl)-3,4,5-tris(oxidanyl)oxan-2-yl]oxy-5-azanyl-2-[(2S,3R,4S,5S ,6R)-4-azanyl-6-(hydroxymethyl)-3,5-bis(oxidanyl)oxan-2-yl]oxy-3-oxidanyl-cyclohexyl]-4-azanyl-2-oxidanyl-butanamide × 2 PHE PHENYLALANINE × 1 ZN ZINC ION × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.90 Å |
| 8UPO Escherichia coli transcription-translation coupled complex class A (TTC-A) containing RfaH bound to ops signal, mRNA with a 21 nt long spacer, and fMet-tRNAs in E-site and P-site of the ribosome Deposited 2023-10-23 | Different construct Different oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Other combination Heteromer；Protein × 58 PDB declaration: 66-meric |
Chain h
1–273（273 aa）
|
Not recorded | MG MAGNESIUM ION × 1 ZN ZINC ION × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 5.50 Å |
| 8UPR Escherichia coli transcription-translation coupled complex class A (TTC-A) containing RfaH bound to ops signal, mRNA with a 21 nt long spacer, and fMet-tRNAs in E-site and P-site of the ribosome Deposited 2023-10-23 | Different construct Different oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Other combination Heteromer；Protein × 59 PDB declaration: 67-meric |
Chain h
1–273（273 aa）
|
Not recorded | MG MAGNESIUM ION × 1 ZN ZINC ION × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 5.30 Å |
| 8UQL Escherichia coli transcription-translation coupled complex class B (TTC-B) containing RfaH in loaded state, mRNA with a 24 nt long spacer, and fMet-tRNAs in E-site and P-site of the ribosome Deposited 2023-10-24 | Different construct Different oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Other combination Heteromer；Protein × 59 PDB declaration: 67-meric |
Chain h
1–273（273 aa）
|
Not recorded | MG MAGNESIUM ION × 1 ZN ZINC ION × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.20 Å |
| 8UQM Escherichia coli transcription-translation coupled complex class B (TTC-B) containing RfaH in loaded state, NusA, mRNA with a 24 nt long spacer, and fMet-tRNAs in E-site and P-site of the ribosome Deposited 2023-10-24 | Different construct Different oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Other combination Heteromer；Protein × 60 PDB declaration: 68-meric |
Chain h
1–273（273 aa）
|
Not recorded | MG MAGNESIUM ION × 1 ZN ZINC ION × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 5.30 Å |
| 8UQP Escherichia coli transcription-translation coupled complex class B (TTC-B) containing RfaH bound to ops signal, mRNA with a 24 nt long spacer, and fMet-tRNAs in E-site and P-site of the ribosome Deposited 2023-10-24 | Different construct Different oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Other combination Heteromer；Protein × 59 PDB declaration: 67-meric |
Chain h
1–273（273 aa）
|
Not recorded | MG MAGNESIUM ION × 1 ZN ZINC ION × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.80 Å |
| 8UR0 Escherichia coli transcription-translation coupled complex class B (TTC-B) containing RfaH bound to ops signal, NusA, mRNA with a 24 nt long spacer, and fMet-tRNAs in E-site and P-site of the ribosome Deposited 2023-10-25 | Different construct Different oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Other combination Heteromer；Protein × 60 PDB declaration: 68-meric |
Chain h
1–273（273 aa）
|
Not recorded | MG MAGNESIUM ION × 1 ZN ZINC ION × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.40 Å |
| 8URH Escherichia coli transcription-translation coupled complex class B (TTC-B) containing RfaH bound to ops signal, mRNA with a 27 nt long spacer, and fMet-tRNAs in E-site and P-site of the ribosome Deposited 2023-10-26 | Different construct Different oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Other combination Heteromer；Protein × 59 PDB declaration: 67-meric |
Chain h
1–273（273 aa）
|
Not recorded | MG MAGNESIUM ION × 1 ZN ZINC ION × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 5.70 Å |
| 8URI Escherichia coli transcription-translation coupled complex class B (TTC-B) containing RfaH bound to ops signal, NusA, mRNA with a 27 nt long spacer, and fMet-tRNAs in E-site and P-site of the ribosome Deposited 2023-10-26 | Different construct Different oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Other combination Heteromer；Protein × 60 PDB declaration: 68-meric |
Chain h
1–273（273 aa）
|
Not recorded | MG MAGNESIUM ION × 1 ZN ZINC ION × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 5.30 Å |
| 8URM E. coli 70S ribosome with unmodified tRNAPro(GGG) bound to slippery P-site CCC-C codon and tRNAVal(UAC) in the A site Deposited 2023-10-26 | 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 B
1–273（273 aa）
|
Not recorded | MG MAGNESIUM ION × 395 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.6
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.00 Å |
| 8URX Escherichia coli transcription-translation coupled complex class B (TTC-B) containing RfaH bound to ops signal, mRNA with a 30 nt long spacer, and fMet-tRNAs in E-site and P-site of the ribosome Deposited 2023-10-27 | Different construct Different oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Other combination Heteromer；Protein × 59 PDB declaration: 67-meric |
Chain h
1–273（273 aa）
|
Not recorded | MG MAGNESIUM ION × 1 ZN ZINC ION × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 6.60 Å |
| 8URY Escherichia coli transcription-translation coupled complex class B (TTC-B) containing RfaH bound to ops signal, NusA, mRNA with a 30 nt long spacer, and fMet-tRNA in E-site and P-site of the ribosome Deposited 2023-10-27 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Other combination Heteromer；Protein × 60 PDB declaration: 68-meric |
Chain h
1–273（273 aa）
|
Not recorded | MG MAGNESIUM ION × 1 ZN ZINC ION × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.6
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.10 Å |
| 8UTJ E. coli 70S ribosome with unmodified lys-tRNAPro(GGG) bound to slippery P-site CCC-C codon in the 0 frame Deposited 2023-10-31 | 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 B
1–273（273 aa）
|
Not recorded | MG MAGNESIUM ION × 530 LYS LYSINE × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.6
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.50 Å |
| 8UX8 E. coli 70S ribosome with unmodified Lys-tRNAPro(GGG) bound to slippery P-site CCC-C codon in the +1 mRNA reading frame Deposited 2023-11-09 | 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 B
1–273（273 aa）
|
Not recorded | MG MAGNESIUM ION × 395 LYS LYSINE × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.6
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.60 Å |
| 8UXB E. coli 70S ribosome with unmodified P/E-tRNAPro(GGG) bound to slippery P-site CCC-C codon Deposited 2023-11-09 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 48 PDB declaration: 53-meric |
Chain B
1–273（273 aa）
|
Not recorded | MG MAGNESIUM ION × 287 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.6
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.90 Å |
| 8UZ3 E. coli 70S ribosome with unmodified e*/E-tRNAPro(GGG) bound to slippery P-site CCC-C codon Deposited 2023-11-14 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 48 PDB declaration: 53-meric |
Chain B
1–273（273 aa）
|
Not recorded | MG MAGNESIUM ION × 415 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.6
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.20 Å |
| 8UZG E. coli 70S ribosome with unmodified e*/E-tRNAPro(GGG) bound to slippery P-site CCC-C codon Deposited 2023-11-15 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions | Assembly 1 Protein–RNA Heteromer；Protein × 48 PDB declaration: 53-meric |
Chain B
1–273（273 aa）
|
Not recorded | MG MAGNESIUM ION × 398 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.6
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.70 Å |
| 8V03 E. coli 70S ribosome with unmodified P/E-tRNAPro(GGG) bound to slippery P-site CCC-C codon Deposited 2023-11-16 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 48 PDB declaration: 53-meric |
Chain B
1–273（273 aa）
|
Not recorded | MG MAGNESIUM ION × 281 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.6
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 4.00 Å |
| 8VKV Escherichia coli transcription-translation coupled complex (TTC-B) containing mRNA with a 33 nt long spacer, ops signal, RfaH, NusA, and fMet-tRNAs in E-site and P-site Deposited 2024-01-10 | Different construct Different oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Other combination Heteromer；Protein × 60 PDB declaration: 68-meric |
Chain h
1–273（273 aa）
|
Not recorded | MG MAGNESIUM ION × 1 ZN ZINC ION × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.60 Å |
| 8VL1 Escherichia coli transcription-translation loosely coupled complex (TTC-LC) containing mRNA with a 36 nt long spacer, ops signal, RfaH, NusA, and fMet-tRNAs in E-site and P-site Deposited 2024-01-11 | Different construct Different oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Other combination Heteromer；Protein × 60 PDB declaration: 68-meric |
Chain h
1–273（273 aa）
|
Not recorded | MG MAGNESIUM ION × 1 ZN ZINC ION × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 5.30 Å |
| 8VOO Escherichia coli transcription-translation loosely coupled complex (TTC-LC) containing mRNA with a 39 nt long spacer, ops signal, RfaH, NusA, and fMet-tRNAs in E-site and P-site Deposited 2024-01-15 | Different construct Different oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Other combination Heteromer；Protein × 60 PDB declaration: 68-meric |
Chain h
1–273（273 aa）
|
Not recorded | MG MAGNESIUM ION × 1 ZN ZINC ION × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.40 Å |
| 8VOP Escherichia coli transcription-translation coupled complex (TTC-B) containing mRNA with a 36 nt long spacer, NusG, NusA, and fMet-tRNAs in E-site and P-site Deposited 2024-01-15 | Different construct Different oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Other combination Heteromer；Protein × 60 PDB declaration: 68-meric |
Chain h
1–273（273 aa）
|
Not recorded | MG MAGNESIUM ION × 1 ZN ZINC ION × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 6.00 Å |
| 8VOQ Escherichia coli transcription-translation loosely coupled complex (TTC-LC) containing mRNA with a 39 nt long spacer, NusG, NusA, and fMet-tRNAs in E-site and P-site Deposited 2024-01-15 | Different construct Different oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Other combination Heteromer；Protein × 60 PDB declaration: 68-meric |
Chain h
1–273（273 aa）
|
Not recorded | MG MAGNESIUM ION × 1 ZN ZINC ION × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 9.30 Å |
| 8VOR Escherichia coli transcription-translation loosely coupled complex (TTC-LC) containing mRNA with a 51 nt long spacer, NusG, NusA, and fMet-tRNAs in E-site and P-site Deposited 2024-01-15 | Different construct Different oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Other combination Heteromer；Protein × 60 PDB declaration: 68-meric |
Chain h
1–273（273 aa）
|
Not recorded | MG MAGNESIUM ION × 1 ZN ZINC ION × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.60 Å |
| 8VOS Escherichia coli transcription-translation loosely coupled complex (TTC-LC) containing mRNA with a 60 nt long spacer, NusG, NusA, and fMet-tRNAs in E-site and P-site Deposited 2024-01-15 | Different construct Different oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Other combination Heteromer；Protein × 60 PDB declaration: 68-meric |
Chain h
1–273（273 aa）
|
Not recorded | MG MAGNESIUM ION × 1 ZN ZINC ION × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 4.60 Å |
| 8VS9 Endogenous trans-translation complex with tmRNA*SmpB in the P site and alanyl-tRNA in the A site and deacyl-tRNA in the E site of E. coli 70S ribosome Deposited 2024-01-23 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 53 PDB declaration: 59-meric |
Chain L02
1–273（273 aa）
|
Not recorded | No recorded non-water small molecule |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.90 Å |
| 8VSA Endogenous trans-translation complex with tmRNA*SmpB in the P site and alanyl-tRNA in the A site of E. coli 70S ribosome Deposited 2024-01-23 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions | Assembly 1 Protein–RNA Heteromer；Protein × 53 PDB declaration: 58-meric |
Chain L02
1–273（273 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 |
| 8VUP E. coli 70S ribosome with unmodified tRNAPro(GGG) in the e*/E conformation on a slippery CCC-C codon Deposited 2024-01-29 | Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 48 PDB declaration: 53-meric |
Chain B
2–272（271 aa）
|
Not recorded | MG MAGNESIUM ION × 239 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.6
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.40 Å |
| 8VV4 E. coli 70S ribosome with unmodified Lys-tRNAPro(GGG) in the P/P conformation on a slippery CCC-C codon Deposited 2024-01-30 | 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 B
1–273（273 aa）
|
Not recorded | MG MAGNESIUM ION × 424 LYS LYSINE × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.6
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.40 Å |
| 8VWQ E. coli 70S ribosome with unmodified Lys-tRNAPro(GGG) in the P/P conformation on a slippery CCC-C codon and Elongation Factor P bound (uL1 in the closed conformation) Deposited 2024-02-02 | 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 B
1–273（273 aa）
|
Not recorded | MG MAGNESIUM ION × 586 LYS LYSINE × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.6
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.10 Å |
| 8W2N E. coli 70S ribosome with unmodified Lys-tRNAPro(GGG) in the P/P conformation on a slippery CCC-C codon and Elongation Factor P bound (uL1 in the open conformation) Deposited 2024-02-20 | 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 B
1–273（273 aa）
|
Not recorded | MG MAGNESIUM ION × 481 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.6
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.20 Å |
| 8W51 Structure of YchF(H114A) on E.coli 50S ribosomal subunit Deposited 2023-08-25 | Different construct Different oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 30 PDB declaration: 32-meric |
Chain C
1–273（273 aa）
|
Not recorded | MG MAGNESIUM ION × 104 ZN ZINC ION × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.40 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 conditions Different structure-quality metrics | Assembly 1 Other combination Heteromer；Protein × 59 PDB declaration: 67-meric |
Chain b
1–273（273 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 conditions | Assembly 1 Other combination Heteromer；Protein × 58 PDB declaration: 67-meric |
Chain b
1–273（273 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 conditions Different structure-quality metrics | Assembly 1 Other combination Heteromer；Protein × 60 PDB declaration: 68-meric |
Chain b
1–273（273 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 conditions Different structure-quality metrics | Assembly 1 Other combination Heteromer；Protein × 59 PDB declaration: 67-meric |
Chain b
1–273（273 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 conditions Different structure-quality metrics | Assembly 1 Other combination Heteromer；Protein × 60 PDB declaration: 68-meric |
Chain b
1–273（273 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 conditions Different structure-quality metrics | Assembly 1 Other combination Heteromer；Protein × 60 PDB declaration: 67-meric |
Chain b
1–273（273 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 conditions Different structure-quality metrics | Assembly 1 Other combination Heteromer；Protein × 59 PDB declaration: 66-meric |
Chain b
1–273（273 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 conditions Different structure-quality metrics | Assembly 1 Other combination Heteromer；Protein × 58 PDB declaration: 66-meric |
Chain b
1–273（273 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 conditions Different structure-quality metrics | Assembly 1 Other combination Heteromer；Protein × 58 PDB declaration: 66-meric |
Chain b
1–273（273 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 conditions Different structure-quality metrics | Assembly 1 Other combination Heteromer；Protein × 58 PDB declaration: 66-meric |
Chain b
1–273（273 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 conditions Different structure-quality metrics | Assembly 1 Other combination Heteromer；Protein × 58 PDB declaration: 67-meric |
Chain b
1–273（273 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 conditions Different structure-quality metrics | Assembly 1 Other combination Heteromer；Protein × 58 PDB declaration: 67-meric |
Chain b
1–273（273 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 conditions Different structure-quality metrics | Assembly 1 Other combination Heteromer；Protein × 60 PDB declaration: 68-meric |
Chain b
1–273（273 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 conditions Different structure-quality metrics | Assembly 1 Other combination Heteromer；Protein × 58 PDB declaration: 67-meric |
Chain b
1–273（273 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 conditions Different structure-quality metrics | Assembly 1 Other combination Heteromer；Protein × 58 PDB declaration: 67-meric |
Chain b
1–273（273 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 conditions Different structure-quality metrics | Assembly 1 Other combination Heteromer；Protein × 60 PDB declaration: 68-meric |
Chain b
1–273（273 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 conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 55-meric |
Chain c
1–273（273 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 conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 55-meric |
Chain c
1–273（273 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 conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 55-meric |
Chain c
1–273（273 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 conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 55-meric |
Chain c
1–273（273 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 conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 55-meric |
Chain c
1–273（273 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 conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 56-meric |
Chain c
1–273（273 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 conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 54-meric |
Chain c
1–273（273 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 conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 54-meric |
Chain c
1–273（273 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 conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 57-meric |
Chain c
1–273（273 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 conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 56-meric |
Chain c
1–273（273 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 conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 51 PDB declaration: 57-meric |
Chain c
1–273（273 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 |
| 9AX7 70S initiation complex (tRNA-fMet M1 + CUG start codon) Deposited 2024-03-06 | Different construct Different oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 54-meric |
Chain c
1–273（273 aa）
|
Not recorded | ZN ZINC ION × 2 MG MAGNESIUM ION × 309 IAS BETA-L-ASPARTIC ACID × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.63 Å |
| 9AX8 70S initiation complex (tRNA-fMet M1, initiation factor 2 + CUG start codon) Deposited 2024-03-06 | Different oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 48 PDB declaration: 53-meric |
Chain 9
2–272（271 aa）
|
Not recorded | MG MAGNESIUM ION × 287 GCP PHOSPHOMETHYLPHOSPHONIC ACID GUANYLATE ESTER × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.60 Å |
| 9B4Z E. coli 70S ribosome complex (N1-methylated 16S A1408 + arbekacin) Deposited 2024-03-21 | Different construct Different oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 56-meric |
Chain BC
1–273（273 aa）
|
Not recorded | MG MAGNESIUM ION × 309 84G Arbekacin × 2 ZN ZINC ION × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.20 Å |
| 9B50 E. coli 70S ribosome complex (unmethylated 16S A1408 + arbekacin) Deposited 2024-03-21 | Different construct Different oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 52-meric |
Chain BC
1–273（273 aa）
|
Not recorded | MG MAGNESIUM ION × 309 84G Arbekacin × 2 ZN ZINC ION × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.70 Å |
| 9B51 E. coli 70S ribosome complex (N1-methylated 16S A1408 + G418) Deposited 2024-03-21 | Different construct Different oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 56-meric |
Chain BC
1–273（273 aa）
|
Not recorded | MG MAGNESIUM ION × 309 GET GENETICIN × 2 ZN ZINC ION × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.40 Å |
| 9CG5 70S initiation complex (tRNA-fMet M1 + UUG start codon) Deposited 2024-06-28 | Different construct Different oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 54-meric |
Chain c
1–273（273 aa）
|
Not recorded | ZN ZINC ION × 2 MG MAGNESIUM ION × 309 IAS BETA-L-ASPARTIC ACID × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.59 Å |
| 9CG6 70S initiation complex (tRNA-fMet M1 + GUG start codon) Deposited 2024-06-28 | Different construct Different oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 54-meric |
Chain c
1–273（273 aa）
|
Not recorded | ZN ZINC ION × 2 MG MAGNESIUM ION × 309 IAS BETA-L-ASPARTIC ACID × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.61 Å |
| 9CG7 70S initiation complex (tRNA-fMet M1 + AUG start codon) Deposited 2024-06-28 | Different construct Different oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 54-meric |
Chain c
1–273（273 aa）
|
Not recorded | ZN ZINC ION × 2 MG MAGNESIUM ION × 309 IAS BETA-L-ASPARTIC ACID × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.75 Å |
| 9D89 E. coli 50S ribosomal subunit in complex with PrAMP rumicidin-2 (focused refinement) Deposited 2024-08-19 | Different construct Different oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 29 PDB declaration: 31-meric |
Chain F
1–273（273 aa）
|
Not recorded | ZN ZINC ION × 1 MG MAGNESIUM ION × 204 K POTASSIUM ION × 93 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 1.95 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 conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 54-meric |
Chain c
1–273（273 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 |
| 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 structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 105 PDB declaration: 116-meric |
Chain AX
1–273（273 aa）
Chain P
1–273（273 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 structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 106 PDB declaration: 117-meric |
Chain AX
1–273（273 aa）
Chain P
1–273（273 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 structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 55-meric |
Chain c
1–273（273 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 structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 55-meric |
Chain c
1–273（273 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 structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 51 PDB declaration: 56-meric |
Chain c
1–273（273 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 structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 51 PDB declaration: 56-meric |
Chain c
1–273（273 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 structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 55-meric |
Chain c
1–273（273 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 structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 55-meric |
Chain c
1–273（273 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 |
| 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 conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 56-meric |
Chain c
1–273（273 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 conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 56-meric |
Chain c
1–273（273 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 |
| 9H3T 50S subunit precursor C_L2 Deposited 2024-10-17 | Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 19 PDB declaration: 20-meric |
Chain C
2–272（271 aa）
|
Not recorded | No recorded non-water small molecule |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.6
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.85 Å |
| 9H3U 50S subunit precursor C_H68 Deposited 2024-10-17 | Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 19 PDB declaration: 20-meric |
Chain C
2–272（271 aa）
|
Not recorded | No recorded non-water small molecule |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.6
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.47 Å |
| 9H3V 50S subunit precursor C-CP_L2-L28 Deposited 2024-10-17 | Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 23 PDB declaration: 25-meric |
Chain C
2–272（271 aa）
|
Not recorded | No recorded non-water small molecule |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.6
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.55 Å |
| 9H3W 50S subunit precursor C-CP_H68 Deposited 2024-10-17 | Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 23 PDB declaration: 25-meric |
Chain C
2–272（271 aa）
|
Not recorded | No recorded non-water small molecule |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.6
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 5.38 Å |
| 9H3X 50S subunit precursor C-CP_H68_L35 Deposited 2024-10-17 | Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 25 PDB declaration: 27-meric |
Chain C
2–272（271 aa）
|
Not recorded | No recorded non-water small molecule |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.6
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 4.12 Å |
| 9H3Y 50S subunit precursor 50S_(L16)- Deposited 2024-10-17 | Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 26 PDB declaration: 28-meric |
Chain C
2–272（271 aa）
|
Not recorded | No recorded non-water small molecule |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.6
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.09 Å |
| 9H3Z mature 50S subunit Deposited 2024-10-17 | Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 28 PDB declaration: 30-meric |
Chain C
2–272（271 aa）
|
Not recorded | No recorded non-water small molecule |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.6
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.98 Å |
| 9HA5 Pooled 50S subunit C_L2 precursor states supplemented with Api137 Deposited 2024-11-01 | Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 18 PDB declaration: 19-meric |
Chain C
2–272（271 aa）
|
Not recorded | No recorded non-water small molecule |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.6
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.30 Å |
| 9HA6 mature 50S subunit supplemented with Api137 Deposited 2024-11-01 | Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 30 PDB declaration: 32-meric |
Chain C
2–272（271 aa）
|
Not recorded | No recorded non-water small molecule |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.6
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.08 Å |
| 9HUQ Structure of WT E.coli ribosome with complexed filament nascent chain at length 47, with P-site tRNA Deposited 2024-12-23 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 29 PDB declaration: 32-meric |
Chain c
1–273（273 aa）
|
Not recorded | No recorded non-water small molecule |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.49 Å |
| 9HUS Structure of WT E.coli ribosome with complexed filament nascent chain at length 31, with P-site tRNAs Deposited 2024-12-23 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 29 PDB declaration: 32-meric |
Chain c
1–273（273 aa）
|
Not recorded | No recorded non-water small molecule |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.40 Å |
| 9HY6 Structure of E.coli ribosome with nascent chain at linker length of 31 amino acids, with mRNA, P-site and A-site tRNAs Deposited 2025-01-09 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 29 PDB declaration: 34-meric |
Chain c
1–273（273 aa）
|
Not recorded | No recorded non-water small molecule |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.60 Å |
| 9HYM Structure of WT E.coli ribosome with complexed filament nascent chain at length 34, with mRNA, P-site and A-site tRNAs, and mRNA Deposited 2025-01-10 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 29 PDB declaration: 34-meric |
Chain c
1–273（273 aa）
|
Not recorded | No recorded non-water small molecule |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.20 Å |
| 9I3L Structure of E.coli ribosome with filamin mutant Y719E nascent chain at linker length of 47 amino acids, with tRNA Deposited 2025-01-23 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 29 PDB declaration: 32-meric |
Chain c
1–273（273 aa）
|
Not recorded | No recorded non-water small molecule |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.10 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 conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 53 PDB declaration: 56-meric |
Chain D
1–273（273 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 |
| 9JMK 50S Ribosomal Subunit precursor state III Deposited 2024-09-20 | Different construct Different oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 26 PDB declaration: 28-meric |
Chain C
1–273（273 aa）
|
Not recorded | No recorded non-water small molecule |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 4.00 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 conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 55-meric |
Chain c
1–273（273 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 conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 55-meric |
Chain c
1–273（273 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 conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 55-meric |
Chain c
1–273（273 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 conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 55-meric |
Chain c
1–273（273 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 |
| 9MKK Structure of arbekacin bound Escherichia coli 70S ribosome Deposited 2024-12-17 | Different construct Different oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 47 PDB declaration: 52-meric |
Chain c
1–273（273 aa）
|
Not recorded | 84G Arbekacin × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.20 Å |
| 9MOR Damaged 70S ribosome with PrfH bound Deposited 2024-12-27 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 52 PDB declaration: 58-meric |
Chain B
1–273（273 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 2.65 Å |
| 9MQ4 Damaged 70S ribosome with PrfH bound Deposited 2025-01-01 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 52 PDB declaration: 58-meric |
Chain B
1–273（273 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 2.78 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 structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 54-meric |
Chain LB
1–273（273 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 structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 54-meric |
Chain LB
1–273（273 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 |
| 9NJF E. coli pre-elongation complex without an A-site tRNA with EQ2-YbiT in Non-hydrolytic 1/PtIM(a) conformation Deposited 2025-02-27 | Different oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 53 PDB declaration: 58-meric |
Chain 2
2–272（271 aa）
|
Not recorded | MG MAGNESIUM ION × 124 ZN ZINC ION × 1 ATP ADENOSINE-5'-TRIPHOSPHATE × 2 NA SODIUM ION × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.40 Å |
| 9NJV E. coli 70S initiation complex (bL33 absent) Deposited 2025-02-28 | Different oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 48 PDB declaration: 53-meric |
Chain 2
2–272（271 aa）
|
Not recorded | MG MAGNESIUM ION × 152 FME N-FORMYLMETHIONINE × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.10 Å |
| 9NKL E. coli 70S initiation complex Deposited 2025-03-01 | Different oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 54-meric |
Chain 2
2–272（271 aa）
|
Not recorded | MG MAGNESIUM ION × 161 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.30 Å |
| 9NL5 E. coli pre-elongation complex without an A-site tRNA with EQ2-EttA in Hydrolytic 1 conformation Deposited 2025-03-02 | Different oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 51 PDB declaration: 56-meric |
Chain 2
2–272（271 aa）
|
Not recorded | MG MAGNESIUM ION × 125 ZN ZINC ION × 1 ATP ADENOSINE-5'-TRIPHOSPHATE × 2 NA SODIUM ION × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.00 Å |
| 9NL6 E. coli initiation complex with EQ2-YbiT in Non-hydrolytic 1/PtIM(a) conformation Deposited 2025-03-02 | Different oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 55-meric |
Chain 2
2–272（271 aa）
|
Not recorded | MG MAGNESIUM ION × 252 FME N-FORMYLMETHIONINE × 1 ATP ADENOSINE-5'-TRIPHOSPHATE × 2 NA SODIUM ION × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.20 Å |
| 9NL7 E. coli initiation complex with EQ2-YbiT in Non-hydrolytic 2/PtIM(b) conformation Deposited 2025-03-02 | Different oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 51 PDB declaration: 56-meric |
Chain 2
2–272（271 aa）
|
Not recorded | MG MAGNESIUM ION × 250 FME N-FORMYLMETHIONINE × 1 ATP ADENOSINE-5'-TRIPHOSPHATE × 2 NA SODIUM ION × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.30 Å |
| 9NLB E. coli initiation complex with EQ2-EttA in Hydrolytic 2 conformation Deposited 2025-03-03 | Different oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 51 PDB declaration: 56-meric |
Chain 2
2–272（271 aa）
|
Not recorded | MG MAGNESIUM ION × 279 ATP ADENOSINE-5'-TRIPHOSPHATE × 2 NA SODIUM ION × 2 FME N-FORMYLMETHIONINE × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.20 Å |
| 9NLE E. coli initiation complex with EQ2-EttA in Hydrolytic 1 conformation Deposited 2025-03-03 | Different oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 51 PDB declaration: 56-meric |
Chain 2
2–272（271 aa）
|
Not recorded | MG MAGNESIUM ION × 298 ATP ADENOSINE-5'-TRIPHOSPHATE × 2 NA SODIUM ION × 2 FME N-FORMYLMETHIONINE × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.20 Å |
| 9NLF E. coli initiation complex with EQ2-YbiT in Hydrolytic 2/PtIM(a) conformation Deposited 2025-03-03 | Different oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 51 PDB declaration: 56-meric |
Chain 2
2–272（271 aa）
|
Not recorded | MG MAGNESIUM ION × 245 FME N-FORMYLMETHIONINE × 1 ATP ADENOSINE-5'-TRIPHOSPHATE × 2 NA SODIUM ION × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.20 Å |
| 9NLH E.coli Initiation complex with YheS-EQ2 Deposited 2025-03-03 | Different oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 55-meric |
Chain 2
2–272（271 aa）
|
Not recorded | MG MAGNESIUM ION × 263 ATP ADENOSINE-5'-TRIPHOSPHATE × 2 NA SODIUM ION × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.10 Å |
| 9NLJ E.coli Initiation complex with Uup-EQ2 Deposited 2025-03-03 | Different oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 51 PDB declaration: 56-meric |
Chain 2
2–272（271 aa）
|
Not recorded | MG MAGNESIUM ION × 277 ATP ADENOSINE-5'-TRIPHOSPHATE × 2 NA SODIUM ION × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.10 Å |
| 9NLQ E. coli initiation complex with EQ2-YbiT in Hydrolytic 1/PtIM(a) conformation Deposited 2025-03-03 | Different oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 51 PDB declaration: 56-meric |
Chain 2
2–272（271 aa）
|
Not recorded | MG MAGNESIUM ION × 241 FME N-FORMYLMETHIONINE × 1 ATP ADENOSINE-5'-TRIPHOSPHATE × 2 NA SODIUM ION × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.30 Å |
| 9NLS E. coli initiation complex with EQ2-YbiT in Intermediate/PtIM(b) conformation Deposited 2025-03-03 | Different oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 51 PDB declaration: 56-meric |
Chain 2
2–272（271 aa）
|
Not recorded | MG MAGNESIUM ION × 248 ZN ZINC ION × 1 FME N-FORMYLMETHIONINE × 1 ATP ADENOSINE-5'-TRIPHOSPHATE × 2 NA SODIUM ION × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.30 Å |
| 9O2X Structure of WT E.coli ribosome 70S subunit with complexed with mRNA, P-site fMet-NH-tRNAfMet and A-site (S)-betahydroxyBocK charged NH-tRNAPyl Deposited 2025-04-04 | Different construct Different oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 55-meric |
Chain c
1–273（273 aa）
|
Not recorded | ZN ZINC ION × 2 MG MAGNESIUM ION × 320 FME N-FORMYLMETHIONINE × 1 K POTASSIUM ION × 10 PAR PAROMOMYCIN × 1 SPD SPERMIDINE × 14 SPM SPERMINE × 1 A1B71 (2S)-6-[(tert-butoxycarbonyl)amino]-2-(hydroxymethyl)hexanoic acid × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.29 Å |
| 9O2Y Structure of WT E.coli ribosome 70S subunit with complexed with mRNA, P-site fMet-NH-tRNAfMet and A-site (R) beta-2-hydroxy-BocLysine acid charged NH-tRNAPyl Deposited 2025-04-04 | Different construct Different oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 55-meric |
Chain c
1–273（273 aa）
|
Not recorded | PAR PAROMOMYCIN × 1 MG MAGNESIUM ION × 320 SPD SPERMIDINE × 13 FME N-FORMYLMETHIONINE × 1 SPM SPERMINE × 1 K POTASSIUM ION × 10 ZN ZINC ION × 2 A1B70 (2R)-6-[(tert-butoxycarbonyl)amino]-2-(hydroxymethyl)hexanoic acid × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.14 Å |
| 9PIH E. coli 70S ribosome bound to Doxycycline Deposited 2025-07-10 | Different construct Different oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 54-meric |
Chain c
1–273（273 aa）
|
Not recorded | ZN ZINC ION × 1 MG MAGNESIUM ION × 276 K POTASSIUM ION × 92 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 × 6 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.40 Å |
| 9PII E. coli 70S ribosome bound to Sarecycline Deposited 2025-07-10 | Different construct Different oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 54-meric |
Chain c
1–273（273 aa）
|
Not recorded | ZN ZINC ION × 1 MG MAGNESIUM ION × 281 K POTASSIUM ION × 100 V7A Sarecycline × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.40 Å |
| 9PIJ E. coli 70S ribosome bound to Minocycline Deposited 2025-07-10 | Different construct Different oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 54-meric |
Chain c
1–273（273 aa）
|
Not recorded | ZN ZINC ION × 1 MG MAGNESIUM ION × 340 K POTASSIUM ION × 148 MIY (4S,4AS,5AR,12AS)-4,7-BIS(DIMETHYLAMINO)-3,10,12,12A-TETRAHYDROXY-1,11-DIOXO-1,4,4A,5,5A,6,11,12A-OCTAHYDROTETRACENE-2- CARBOXAMIDE × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.20 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 conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 55-meric |
Chain c
1–273（273 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 conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 55-meric |
Chain c
1–273（273 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 conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 55-meric |
Chain c
1–273（273 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 conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 56-meric |
Chain c
1–273（273 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 conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 54 PDB declaration: 61-meric |
Chain c
1–273（273 aa）
|
Not recorded | No recorded non-water small molecule | ELECTRON MICROSCOPY mmCIF provides none of the parsed conditions | Resolution 2.44 Å |
| 9RFW Manikomycin bound to the Escherichia coli 50S ribosomal subunit Deposited 2025-06-05 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 31 PDB declaration: 35-meric |
Chain c
1–273（273 aa）
|
Not recorded | ZN ZINC ION × 2 MG MAGNESIUM ION × 213 K POTASSIUM ION × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4
cryo-EM vitrification conditions
Cryogen ETHANE-PROPANE
|
Resolution 2.40 Å |
| 9RJA Manikomycin bound to the Escherichia coli 70S ribosome Deposited 2025-06-12 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 51 PDB declaration: 57-meric |
Chain c
1–273（273 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 conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 53 PDB declaration: 59-meric |
Chain C
1–273（273 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 conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 53 PDB declaration: 59-meric |
Chain C
1–273（273 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 conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 51 PDB declaration: 54-meric |
Chain c
1–273（273 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 conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 48 PDB declaration: 54-meric |
Chain c
1–273（273 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 |
| 9SS4 pre-50S ribosomal subunit in rimM-KO with RsfS (-H68) Deposited 2025-09-25 | Different construct Different oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 33 PDB declaration: 35-meric |
Chain BB
1–273（273 aa）
|
Not recorded | No recorded non-water small molecule |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.70 Å |
| 9SS5 50S ribosomal subunit in rimM-KO with RsfS (+H68) Deposited 2025-09-25 | Different construct Different oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 32 PDB declaration: 34-meric |
Chain BB
1–273（273 aa）
|
Not recorded | No recorded non-water small molecule |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.70 Å |
| 9SS6 70S ribosome from RimM-KO Deposited 2025-09-25 | Different construct Different oligomeric state Different ligand/ion Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 52 PDB declaration: 55-meric |
Chain BB
1–273（273 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 conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 56-meric |
Chain c
1–273（273 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 conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 56-meric |
Chain c
1–273（273 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 |
| 9T19 E. coli 70S ribosome from delta-RlmE strain, PTC class 0 Deposited 2025-10-21 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 10 PDB declaration: 14-meric |
Chain c
1–273（273 aa）
|
Not recorded | SR0 N~1~-(3-azaniumylpropyl)butane-1,4-diaminium × 2 PUT 1,4-DIAMINOBUTANE × 1 MG MAGNESIUM ION × 99 K POTASSIUM ION × 42 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5；HEPES-polymix buffer (pH-7.5)
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.41 Å |
| 9T1A E. coli 70S ribosome from delta-RlmE strain, PTC class 1 Deposited 2025-10-21 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 10 PDB declaration: 14-meric |
Chain c
1–273（273 aa）
|
Not recorded | SR0 N~1~-(3-azaniumylpropyl)butane-1,4-diaminium × 2 PUT 1,4-DIAMINOBUTANE × 1 MG MAGNESIUM ION × 102 K POTASSIUM ION × 43 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5；HEPES-polymix buffer (pH-7.5)
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.39 Å |
| 9T1B E. coli 70S ribosome from delta-RlmE strain, PTC class 2 Deposited 2025-10-21 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 10 PDB declaration: 14-meric |
Chain c
1–273（273 aa）
|
Not recorded | SR0 N~1~-(3-azaniumylpropyl)butane-1,4-diaminium × 2 PUT 1,4-DIAMINOBUTANE × 1 MG MAGNESIUM ION × 102 K POTASSIUM ION × 43 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5；HEPES-polymix buffer (pH-7.5)
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.32 Å |
| 9T1C E. coli 70S ribosome from delta-RlmE strain, PTC class 3 Deposited 2025-10-21 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 10 PDB declaration: 13-meric |
Chain c
1–273（273 aa）
|
Not recorded | MG MAGNESIUM ION × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5；HEPES-polymix buffer (pH-7.5)
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.07 Å |
| 9T1E E. coli 70S ribosome from delta-RlmE strain, PTC class 4 Deposited 2025-10-21 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 10 PDB declaration: 14-meric |
Chain c
1–273（273 aa）
|
Not recorded | SR0 N~1~-(3-azaniumylpropyl)butane-1,4-diaminium × 2 PUT 1,4-DIAMINOBUTANE × 1 MG MAGNESIUM ION × 101 K POTASSIUM ION × 43 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5；HEPES-polymix buffer (pH-7.5)
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.28 Å |
| 9T1F E. coli 70S ribosome from delta-RlmE strain, PTC class 5 Deposited 2025-10-21 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 10 PDB declaration: 14-meric |
Chain c
1–273（273 aa）
|
Not recorded | SR0 N~1~-(3-azaniumylpropyl)butane-1,4-diaminium × 2 PUT 1,4-DIAMINOBUTANE × 1 MG MAGNESIUM ION × 102 K POTASSIUM ION × 40 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5；HEPES-polymix buffer (pH-7.5)
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.32 Å |
| 9T1G E. coli 70S ribosome from delta-RlmE strain, PTC class 6 Deposited 2025-10-21 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 10 PDB declaration: 13-meric |
Chain c
1–273（273 aa）
|
Not recorded | SR0 N~1~-(3-azaniumylpropyl)butane-1,4-diaminium × 2 PUT 1,4-DIAMINOBUTANE × 1 MG MAGNESIUM ION × 100 K POTASSIUM ION × 42 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5；HEPES-polymix buffer (pH-7.5)
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.29 Å |
| 9T1H E. coli 70S ribosome from delta-RlmE strain, PTC class 7 Deposited 2025-10-21 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 10 PDB declaration: 14-meric |
Chain c
1–273（273 aa）
|
Not recorded | SR0 N~1~-(3-azaniumylpropyl)butane-1,4-diaminium × 2 PUT 1,4-DIAMINOBUTANE × 1 MG MAGNESIUM ION × 102 K POTASSIUM ION × 43 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5；HEPES-polymix buffer (pH-7.5)
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.33 Å |
| 9T1I E. coli 70S ribosome from delta-RlmE strain, PTC class 8 Deposited 2025-10-21 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 10 PDB declaration: 13-meric |
Chain c
1–273（273 aa）
|
Not recorded | SR0 N~1~-(3-azaniumylpropyl)butane-1,4-diaminium × 2 PUT 1,4-DIAMINOBUTANE × 1 MG MAGNESIUM ION × 102 K POTASSIUM ION × 43 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5；HEPES-polymix buffer (pH-7.5)
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.30 Å |
| 9T1J E. coli 70S ribosome from delta-RlmE strain, PTC class 9 Deposited 2025-10-21 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 10 PDB declaration: 14-meric |
Chain c
1–273（273 aa）
|
Not recorded | SR0 N~1~-(3-azaniumylpropyl)butane-1,4-diaminium × 2 PUT 1,4-DIAMINOBUTANE × 1 MG MAGNESIUM ION × 102 K POTASSIUM ION × 43 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5；HEPES-polymix buffer (pH-7.5)
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.23 Å |
| 9T2J E. coli 70S ribosome from delta-9 strain, PTC class 0 Deposited 2025-10-23 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 10 PDB declaration: 12-meric |
Chain c
1–273（273 aa）
|
Not recorded | SR0 N~1~-(3-azaniumylpropyl)butane-1,4-diaminium × 2 PUT 1,4-DIAMINOBUTANE × 1 MG MAGNESIUM ION × 101 K POTASSIUM ION × 39 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5；HEPES-polymix buffer (pH-7.5)
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.02 Å |
| 9T2K E. coli 70S ribosome from delta-9 strain, PTC class 1 Deposited 2025-10-23 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 10 PDB declaration: 14-meric |
Chain c
1–273（273 aa）
|
Not recorded | SR0 N~1~-(3-azaniumylpropyl)butane-1,4-diaminium × 2 PUT 1,4-DIAMINOBUTANE × 1 MG MAGNESIUM ION × 101 K POTASSIUM ION × 40 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5；HEPES-polymix buffer (pH-7.5)
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.06 Å |
| 9T2L E. coli 70S ribosome from delta-9 strain, PTC class 2 Deposited 2025-10-23 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 10 PDB declaration: 14-meric |
Chain c
1–273（273 aa）
|
Not recorded | SR0 N~1~-(3-azaniumylpropyl)butane-1,4-diaminium × 2 PUT 1,4-DIAMINOBUTANE × 1 MG MAGNESIUM ION × 101 K POTASSIUM ION × 40 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5；HEPES-polymix buffer (pH-7.5)
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.07 Å |
| 9T2M E. coli 70S ribosome from delta-9 strain, PTC class 3 Deposited 2025-10-23 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 10 PDB declaration: 13-meric |
Chain c
1–273（273 aa）
|
Not recorded | SR0 N~1~-(3-azaniumylpropyl)butane-1,4-diaminium × 2 PUT 1,4-DIAMINOBUTANE × 1 MG MAGNESIUM ION × 101 K POTASSIUM ION × 39 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5；HEPES-polymix buffer (pH-7.5)
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.06 Å |
| 9T2N E. coli 70S ribosome from delta-9 strain, PTC class 4 Deposited 2025-10-23 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 10 PDB declaration: 14-meric |
Chain c
1–273（273 aa）
|
Not recorded | SR0 N~1~-(3-azaniumylpropyl)butane-1,4-diaminium × 2 PUT 1,4-DIAMINOBUTANE × 1 MG MAGNESIUM ION × 101 K POTASSIUM ION × 36 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5；HEPES-polymix buffer (pH-7.5)
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.06 Å |
| 9T2O E. coli 70S ribosome from delta-9 strain, PTC class 5 Deposited 2025-10-23 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 10 PDB declaration: 13-meric |
Chain c
1–273（273 aa）
|
Not recorded | SR0 N~1~-(3-azaniumylpropyl)butane-1,4-diaminium × 2 PUT 1,4-DIAMINOBUTANE × 1 MG MAGNESIUM ION × 101 K POTASSIUM ION × 39 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5；HEPES-polymix buffer (pH-7.5)
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.07 Å |
| 9T2P E. coli 70S ribosome from delta-9 strain, PTC class 6 Deposited 2025-10-23 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 10 PDB declaration: 14-meric |
Chain c
1–273（273 aa）
|
Not recorded | SR0 N~1~-(3-azaniumylpropyl)butane-1,4-diaminium × 2 PUT 1,4-DIAMINOBUTANE × 1 MG MAGNESIUM ION × 101 K POTASSIUM ION × 36 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5；HEPES-polymix buffer (pH-7.5)
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.08 Å |
| 9T2Q E. coli 70S ribosome from delta-9 strain, PTC class 7 Deposited 2025-10-23 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 10 PDB declaration: 14-meric |
Chain c
1–273（273 aa）
|
Not recorded | SR0 N~1~-(3-azaniumylpropyl)butane-1,4-diaminium × 2 PUT 1,4-DIAMINOBUTANE × 1 MG MAGNESIUM ION × 101 K POTASSIUM ION × 40 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5；HEPES-polymix buffer (pH-7.5)
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.08 Å |
| 9T2R E. coli 70S ribosome from delta-9 strain, PTC class 8 Deposited 2025-10-23 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 10 PDB declaration: 13-meric |
Chain c
1–273（273 aa）
|
Not recorded | SR0 N~1~-(3-azaniumylpropyl)butane-1,4-diaminium × 2 PUT 1,4-DIAMINOBUTANE × 1 MG MAGNESIUM ION × 101 K POTASSIUM ION × 40 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5；HEPES-polymix buffer (pH-7.5)
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.22 Å |
| 9T2S E. coli 70S ribosome from delta-9 strain, PTC class 9 Deposited 2025-10-23 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 10 PDB declaration: 14-meric |
Chain c
1–273（273 aa）
|
Not recorded | SR0 N~1~-(3-azaniumylpropyl)butane-1,4-diaminium × 2 PUT 1,4-DIAMINOBUTANE × 1 MG MAGNESIUM ION × 100 K POTASSIUM ION × 39 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5；HEPES-polymix buffer (pH-7.5)
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.07 Å |
| 9T6M E. coli 70S ribosome from delta-10 strain Deposited 2025-11-07 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 56-meric |
Chain c
1–273（273 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 |
| 9T8K E. coli 70S ribosome from delta-10 strain, PTC class 0 Deposited 2025-11-13 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 9 PDB declaration: 11-meric |
Chain c
1–273（273 aa）
|
Not recorded | SR0 N~1~-(3-azaniumylpropyl)butane-1,4-diaminium × 2 MG MAGNESIUM ION × 34 K POTASSIUM ION × 21 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5；HEPES-polymix buffer (pH-7.5)
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.18 Å |
| 9T8L E. coli 70S ribosome from delta-10 strain, PTC class 1 Deposited 2025-11-13 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 9 PDB declaration: 11-meric |
Chain c
1–273（273 aa）
|
Not recorded | SR0 N~1~-(3-azaniumylpropyl)butane-1,4-diaminium × 2 MG MAGNESIUM ION × 34 K POTASSIUM ION × 21 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5；HEPES-polymix buffer (pH-7.5)
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.21 Å |
| 9T8M E. coli 70S ribosome from delta-10 strain, PTC class 2 Deposited 2025-11-13 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 9 PDB declaration: 11-meric |
Chain c
1–273（273 aa）
|
Not recorded | SR0 N~1~-(3-azaniumylpropyl)butane-1,4-diaminium × 2 MG MAGNESIUM ION × 34 K POTASSIUM ION × 21 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5；HEPES-polymix buffer (pH-7.5)
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.20 Å |
| 9T8N E. coli 70S ribosome from delta-10 strain, PTC class 3 Deposited 2025-11-13 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 9 PDB declaration: 13-meric |
Chain c
1–273（273 aa）
|
Not recorded | SR0 N~1~-(3-azaniumylpropyl)butane-1,4-diaminium × 2 MG MAGNESIUM ION × 33 K POTASSIUM ION × 21 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5；HEPES-polymix buffer (pH-7.5)
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.22 Å |
| 9T8O E. coli 70S ribosome from delta-10 strain, PTC class 4 Deposited 2025-11-13 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 9 PDB declaration: 11-meric |
Chain c
1–273（273 aa）
|
Not recorded | SR0 N~1~-(3-azaniumylpropyl)butane-1,4-diaminium × 2 MG MAGNESIUM ION × 34 K POTASSIUM ION × 21 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5；HEPES-polymix buffer (pH-7.5)
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.19 Å |
| 9T8P E. coli 70S ribosome from delta-10 strain, PTC class 5 Deposited 2025-11-13 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 9 PDB declaration: 12-meric |
Chain c
1–273（273 aa）
|
Not recorded | SR0 N~1~-(3-azaniumylpropyl)butane-1,4-diaminium × 2 MG MAGNESIUM ION × 34 K POTASSIUM ION × 21 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5；HEPES-polymix buffer (pH-7.5)
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.22 Å |
| 9T8Q E. coli 70S ribosome from delta-10 strain, PTC class 6 Deposited 2025-11-13 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 9 PDB declaration: 12-meric |
Chain c
1–273（273 aa）
|
Not recorded | SR0 N~1~-(3-azaniumylpropyl)butane-1,4-diaminium × 2 MG MAGNESIUM ION × 34 K POTASSIUM ION × 21 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5；HEPES-polymix buffer (pH-7.5)
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.23 Å |
| 9T8R E. coli 70S ribosome from delta-10 strain, PTC class 7 Deposited 2025-11-13 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 9 PDB declaration: 12-meric |
Chain c
1–273（273 aa）
|
Not recorded | SR0 N~1~-(3-azaniumylpropyl)butane-1,4-diaminium × 2 MG MAGNESIUM ION × 34 K POTASSIUM ION × 21 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5；HEPES-polymix buffer (pH-7.5)
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.22 Å |
| 9T8S E. coli 70S ribosome from delta-10 strain, PTC class 8 Deposited 2025-11-13 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 9 PDB declaration: 12-meric |
Chain c
1–273（273 aa）
|
Not recorded | SR0 N~1~-(3-azaniumylpropyl)butane-1,4-diaminium × 2 MG MAGNESIUM ION × 34 K POTASSIUM ION × 21 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5；HEPES-polymix buffer (pH-7.5)
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.22 Å |
| 9T8T E. coli 70S ribosome from delta-10 strain, PTC class 9 Deposited 2025-11-13 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 9 PDB declaration: 13-meric |
Chain c
1–273（273 aa）
|
Not recorded | SR0 N~1~-(3-azaniumylpropyl)butane-1,4-diaminium × 1 MG MAGNESIUM ION × 34 K POTASSIUM ION × 21 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5；HEPES-polymix buffer (pH-7.5)
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.23 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 conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 55-meric |
Chain c
1–273（273 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 conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 55-meric |
Chain c
1–273（273 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 |
| 9TEZ DalDroS bound to the Escherichia coli 50S ribosomal subunit Deposited 2025-11-26 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 31 PDB declaration: 34-meric |
Chain c
1–273（273 aa）
|
Not recorded | ZN ZINC ION × 2 SPM SPERMINE × 1 MG MAGNESIUM ION × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4
cryo-EM vitrification conditions
Cryogen ETHANE-PROPANE
|
Resolution 2.88 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 conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 55-meric |
Chain c
1–273（273 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 conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 55-meric |
Chain c
1–273（273 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 conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 55-meric |
Chain c
1–273（273 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 conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 49 PDB declaration: 56-meric |
Chain c
1–273（273 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 conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 57-meric |
Chain c
1–273（273 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 |
| 9XFK In situ structure of bacterial 50S ribosomes Deposited 2025-10-29 | Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 29 PDB declaration: 31-meric |
Chain K
2–272（271 aa）
|
Not recorded | MG MAGNESIUM ION × 166 NA SODIUM ION × 1 ZN ZINC ION × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.98 Å |
| 9XFL In vitro structure of bacterial 50S ribosomes Deposited 2025-10-29 | Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 29 PDB declaration: 31-meric |
Chain K
2–272（271 aa）
|
Not recorded | MG MAGNESIUM ION × 176 NA SODIUM ION × 1 ZN ZINC ION × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.7
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 3.16 Å |
| 9Y79 Escherichia coli transcription-translation loosely coupled complex (TTC-LC^walked) containing mRNA with a 39 nt long spacer, NusG, NusA, and fMet-tRNAs in E-site and P-site Deposited 2025-09-09 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Other combination Heteromer；Protein × 60 PDB declaration: 68-meric |
Chain h
1–273（273 aa）
|
Not recorded | No recorded non-water small molecule | ELECTRON MICROSCOPY mmCIF provides none of the parsed conditions | Resolution 3.20 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 conditions Different structure-quality metrics | Assembly 1 Protein–RNA Heteromer；Protein × 50 PDB declaration: 55-meric |
Chain c
1–273（273 aa）
|
Not recorded | ZN ZINC ION × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.91 Å |
624 other PDB entries and 669 assemblies. Open the comparison page and filter oligomeric states
View Construct and Data Evidence
| UniProt name | RL2_ECOLI |
| Isoform | — |
| PDB entities | 1 |
| Chains and sequence ranges | Author chain b； PDBConstruct 1–271； UniProt 2–272 |
