E. coli 50S ribosome bound to compounds 46 and VS1
Resolution: 2.7 Å
EM Method: Single-particle
Fitted PDBs: 6pc5
Q-score: 0.557
Li Q, Pellegrino J, Lee DJ, Tran AA, Chaires HA, Wang R, Park JE, Ji K, Chow D, Zhang N, Brilot AF, Biel JT, van Zundert G, Borrelli K, Shinabarger D, Wolfe C, Murray B, Jacobson MP, Muhle E, Chesneau O, Fraser JS, Seiple IB
Nature (2020) 586 pp. 145-150 [ Pubmed: 32968273 DOI: doi:10.1038/s41586-020-2761-3 ]
- 50s e. coli ribosome (Complex from Escherichia coli)
- 5s ribosomal rna (38 kDa, RNA from Escherichia coli)
- 23s ribosomal rna (941 kDa, RNA from Escherichia coli)
- (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 (717 Da, Ligand)
- 50s ribosomal protein l2 (29 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l4 (22 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l15 (15 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l13 (16 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l3 (22 kDa, Protein from Escherichia coli)
- Virginiamycin s1 (841 Da, Protein from Streptomyces virginiae)
E. coli 50S ribosome bound to compound 47
Resolution: 2.5 Å
EM Method: Single-particle
Fitted PDBs: 6pc6
Q-score: 0.563
Li Q, Pellegrino J, Lee DJ, Tran AA, Chaires HA, Wang R, Park JE, Ji K, Chow D, Zhang N, Brilot AF, Biel JT, van Zundert G, Borrelli K, Shinabarger D, Wolfe C, Murray B, Jacobson MP, Muhle E, Chesneau O, Fraser JS, Seiple IB
Nature (2020) 586 pp. 145-150 [ Pubmed: 32968273 DOI: doi:10.1038/s41586-020-2761-3 ]
- 50s e. coli ribosome (Complex from Escherichia coli)
- 5s ribosomal rna (38 kDa, RNA from Escherichia coli)
- 23s ribosomal rna (941 kDa, RNA from Escherichia coli)
- (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 (557 Da, Ligand)
- 50s ribosomal protein l2 (29 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l4 (22 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l15 (15 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l13 (16 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l3 (22 kDa, Protein from Escherichia coli)
E. coli 50S ribosome bound to compound 46
Resolution: 2.5 Å
EM Method: Single-particle
Fitted PDBs: 6pc7
Q-score: 0.552
Li Q, Pellegrino J, Lee DJ, Tran AA, Chaires HA, Wang R, Park JE, Ji K, Chow D, Zhang N, Brilot AF, Biel JT, van Zundert G, Borrelli K, Shinabarger D, Wolfe C, Murray B, Jacobson MP, Muhle E, Chesneau O, Fraser JS, Seiple IB
Nature (2020) 586 pp. 145-150 [ Pubmed: 32968273 DOI: doi:10.1038/s41586-020-2761-3 ]
- 50s e. coli ribosome (Complex from Escherichia coli)
- 5s ribosomal rna (38 kDa, RNA from Escherichia coli)
- 23s ribosomal rna (941 kDa, RNA from Escherichia coli)
- (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 (717 Da, Ligand)
- 50s ribosomal protein l2 (29 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l4 (22 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l15 (15 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l13 (16 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l3 (22 kDa, Protein from Escherichia coli)
E. coli 50S ribosome bound to compound 21
Resolution: 2.9 Å
EM Method: Single-particle
Fitted PDBs: 6pch
Q-score: 0.488
Li Q, Pellegrino J, Lee DJ, Tran AA, Chaires HA, Wang R, Park JE, Ji K, Chow D, Zhang N, Brilot AF, Biel JT, van Zundert G, Borrelli K, Shinabarger D, Wolfe C, Murray B, Jacobson MP, Muhle E, Chesneau O, Fraser JS, Seiple IB
Nature (2020) 586 pp. 145-150 [ Pubmed: 32968273 DOI: doi:10.1038/s41586-020-2761-3 ]
- 50s e. coli ribosome (Complex from Escherichia coli)
- 5s ribosomal rna (38 kDa, RNA from Escherichia coli)
- 23s ribosomal rna (941 kDa, RNA from Escherichia coli)
- (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 (553 Da, Ligand)
- 50s ribosomal protein l2 (29 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l4 (22 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l15 (15 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l13 (16 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l3 (22 kDa, Protein from Escherichia coli)
E. coli 50S ribosome bound to VM2
Resolution: 2.6 Å
EM Method: Single-particle
Fitted PDBs: 6pcq
Q-score: 0.532
Li Q, Pellegrino J, Lee DJ, Tran AA, Chaires HA, Wang R, Park JE, Ji K, Chow D, Zhang N, Brilot AF, Biel JT, van Zundert G, Borrelli K, Shinabarger D, Wolfe C, Murray B, Jacobson MP, Muhle E, Chesneau O, Fraser JS, Seiple IB
Nature (2020) 586 pp. 145-150 [ Pubmed: 32968273 DOI: doi:10.1038/s41586-020-2761-3 ]
- 50s e. coli ribosome (Complex from Escherichia coli)
- 5s ribosomal rna (38 kDa, RNA from Escherichia coli)
- 23s ribosomal rna (941 kDa, RNA from Escherichia coli)
- 50s ribosomal protein l2 (29 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l4 (22 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l15 (15 kDa, Protein from Escherichia coli)
- (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 (527 Da, Ligand)
- 50s ribosomal protein l13 (16 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l3 (22 kDa, Protein from Escherichia coli)
E. coli 50S ribosome bound to compound 40o
Resolution: 2.5 Å
EM Method: Single-particle
Fitted PDBs: 6pcr
Q-score: 0.567
Li Q, Pellegrino J, Lee DJ, Tran AA, Chaires HA, Wang R, Park JE, Ji K, Chow D, Zhang N, Brilot AF, Biel JT, van Zundert G, Borrelli K, Shinabarger D, Wolfe C, Murray B, Jacobson MP, Muhle E, Chesneau O, Fraser JS, Seiple IB
Nature (2020) 586 pp. 145-150 [ DOI: doi:10.1038/s41586-020-2761-3 Pubmed: 32968273 ]
- 23s ribosomal rna (941 kDa, RNA from Escherichia coli)
- 50s ribosomal protein l15 (15 kDa, Protein from Escherichia coli)
- 50s e. coli ribosome (Complex from Escherichia coli)
- (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 (742 Da, Ligand)
- 50s ribosomal protein l13 (16 kDa, Protein from Escherichia coli)
- 5s ribosomal rna (38 kDa, RNA from Escherichia coli)
- 50s ribosomal protein l4 (22 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l2 (29 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l3 (22 kDa, Protein from Escherichia coli)
E. coli 50S ribosome bound to compound 40e
Resolution: 2.8 Å
EM Method: Single-particle
Fitted PDBs: 6pcs
Q-score: 0.525
Li Q, Pellegrino J, Lee DJ, Tran AA, Chaires HA, Wang R, Park JE, Ji K, Chow D, Zhang N, Brilot AF, Biel JT, van Zundert G, Borrelli K, Shinabarger D, Wolfe C, Murray B, Jacobson MP, Muhle E, Chesneau O, Fraser JS, Seiple IB
Nature (2020) 586 pp. 145-150 [ Pubmed: 32968273 DOI: doi:10.1038/s41586-020-2761-3 ]
- 50s e. coli ribosome (Complex from Escherichia coli)
- 5s ribosomal rna (38 kDa, RNA from Escherichia coli)
- 23s ribosomal rna (941 kDa, RNA from Escherichia coli)
- 50s ribosomal protein l2 (29 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l4 (22 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l15 (15 kDa, Protein from Escherichia coli)
- (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 (730 Da, Ligand)
- 50s ribosomal protein l13 (16 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l3 (22 kDa, Protein from Escherichia coli)
E. coli 50S ribosome bound to compound 41q
Resolution: 2.8 Å
EM Method: Single-particle
Fitted PDBs: 6pct
Q-score: 0.552
Li Q, Pellegrino J, Lee DJ, Tran AA, Chaires HA, Wang R, Park JE, Ji K, Chow D, Zhang N, Brilot AF, Biel JT, van Zundert G, Borrelli K, Shinabarger D, Wolfe C, Murray B, Jacobson MP, Muhle E, Chesneau O, Fraser JS, Seiple IB
Nature (2020) 586 pp. 145-150 [ Pubmed: 32968273 DOI: doi:10.1038/s41586-020-2761-3 ]
- 50s e. coli ribosome (Complex from Escherichia coli)
- 5s ribosomal rna (38 kDa, RNA from Escherichia coli)
- 23s ribosomal rna (941 kDa, RNA from Escherichia coli)
- (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 (713 Da, Ligand)
- 50s ribosomal protein l2 (29 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l4 (22 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l15 (15 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l13 (16 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l3 (22 kDa, Protein from Escherichia coli)
E. coli 50S ribosome bound to compounds 47 and VS1
Resolution: 2.75 Å
EM Method: Single-particle
Fitted PDBs: 6wyv
Q-score: 0.497
Li Q, Pellegrino J, Lee DJ, Tran AA, Chaires HA, Wang R, Park JE, Ji K, Chow D, Zhang N, Brilot AF, Biel JT, van Zundert G, Borrelli K, Shinabarger D, Wolfe C, Murray B, Jacobson MP, Muhle E, Chesneau O, Fraser JS, Seiple IB
Nature (2020) 586 pp. 145-150 [ Pubmed: 32968273 DOI: doi:10.1038/s41586-020-2761-3 ]
- 50s e. coli ribosome (Complex from Escherichia coli)
- 5s ribosomal rna (38 kDa, RNA from Escherichia coli)
- 23s ribosomal rna (941 kDa, RNA from Escherichia coli)
- (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 (557 Da, Ligand)
- 50s ribosomal protein l2 (29 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l4 (22 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l15 (15 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l13 (16 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l3 (22 kDa, Protein from Escherichia coli)
- Virginiamycin s1 (841 Da, Protein from Streptomyces virginiae)