E. coli 50S ribosome bound to compound streptogramin A analog 3142
Resolution: 1.91 Å
EM Method: Single-particle
Fitted PDBs: 8e30
Q-score: 0.629
Li Q, Pellegrino J, Lee DJ, Fraser JS, Seiple IB
To Be Published
- 50s ribosomal protein l22 (12 kDa, Protein from Escherichia coli)
- 5s ribosomal rna (38 kDa, RNA from Escherichia coli)
- 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 (698 Da, Ligand)
- 50s ribosomal protein l2 (29 kDa, Protein from Escherichia coli)
- 50s e. coli ribosome (Complex from Escherichia coli)
- 50s ribosomal protein l13 (16 kDa, Protein from Escherichia coli)
- 23s ribosomal rna (941 kDa, RNA from Escherichia coli)
- 50s ribosomal protein l4 (22 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l34 (5 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l3 (22 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l15 (15 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l32 (6 kDa, Protein from Escherichia coli)
E. coli 50S ribosome bound to compound streptogramin analogs SA1 and SB1
Resolution: 2.35 Å
EM Method: Single-particle
Fitted PDBs: 8e32
Q-score: 0.609
Takahashi Y, Pellegrino J, Lee DJ, Fraser JS, Seiple IB
To Be Published
- (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 (555 Da, Ligand)
- 50s ribosomal protein l22 (12 kDa, Protein from Escherichia coli)
- 5s ribosomal rna (38 kDa, RNA from Escherichia coli)
- 50s ribosomal protein l2 (29 kDa, Protein from Escherichia coli)
- 50s e. coli ribosome (Complex from Escherichia coli)
- ~{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 (867 Da, Ligand)
- 50s ribosomal protein l13 (16 kDa, Protein from Escherichia coli)
- 23s ribosomal rna (941 kDa, RNA from Escherichia coli)
- 50s ribosomal protein l4 (22 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l34 (5 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l3 (22 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l15 (15 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l32 (6 kDa, Protein from Escherichia coli)
- Water (18 Da, Ligand)
E. coli 50S ribosome bound to compound streptogramin analog SAB001
Resolution: 2.23 Å
EM Method: Single-particle
Fitted PDBs: 8e33
Q-score: 0.602
Takahashi Y, Pellegrino J, Lee DJ, Fraser JS, Seiple IB
To Be Published
- 50s ribosomal protein l13 (16 kDa, Protein from Escherichia coli)
- 50s e. coli ribosome (Complex from Escherichia coli)
- 50s ribosomal protein l4 (22 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l32 (6 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l2 (29 kDa, Protein from Escherichia coli)
- 5s ribosomal rna (38 kDa, RNA from Escherichia coli)
- 23s ribosomal rna (941 kDa, RNA from Escherichia coli)
- 50s ribosomal protein l3 (22 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l22 (12 kDa, Protein from Escherichia coli)
- 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 kDa, Ligand)
- Water (18 Da, Ligand)
- 50s ribosomal protein l34 (5 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l15 (15 kDa, Protein from Escherichia coli)
E. coli 50S ribosome bound to compound SAB002
Resolution: 2.27 Å
EM Method: Single-particle
Fitted PDBs: 8e35
Q-score: 0.569
Takahashi Y, Pellegrino J, Lee DJ, Fraser JS, Seiple IB
To Be Published
- 50s ribosomal protein l22 (12 kDa, Protein from Escherichia coli)
- 5s ribosomal rna (38 kDa, RNA from Escherichia coli)
- 50s ribosomal protein l2 (29 kDa, Protein from Escherichia coli)
- 50s e. coli ribosome (Complex from Escherichia coli)
- 50s ribosomal protein l13 (16 kDa, Protein from Escherichia coli)
- 23s ribosomal rna (941 kDa, RNA from Escherichia coli)
- 50s ribosomal protein l4 (22 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l34 (5 kDa, Protein from Escherichia coli)
- 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 kDa, Ligand)
- 50s ribosomal protein l3 (22 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l15 (15 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l32 (6 kDa, Protein from Escherichia coli)
- Water (18 Da, Ligand)
E. coli 50S ribosome bound to compound streptogramin A analog 3146
Resolution: 2.38 Å
EM Method: Single-particle
Fitted PDBs: 8e36
Q-score: 0.57
Li Q, Pellegrino J, Lee DJ, Seiple IB, Fraser JS
To Be Published
- 50s ribosomal protein l22 (12 kDa, Protein from Escherichia coli)
- 5s ribosomal rna (38 kDa, RNA from Escherichia coli)
- 50s ribosomal protein l2 (29 kDa, Protein from Escherichia coli)
- 50s e. coli ribosome (Complex from Escherichia coli)
- 50s ribosomal protein l13 (16 kDa, Protein from Escherichia coli)
- 23s ribosomal rna (941 kDa, RNA from Escherichia coli)
- 50s ribosomal protein l4 (22 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l34 (5 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l3 (22 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l15 (15 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l32 (6 kDa, Protein from Escherichia coli)
- 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 (746 Da, Ligand)
E. coli 50S ribosome bound to D-linker solithromycin conjugate
Resolution: 2.35 Å
EM Method: Single-particle
Fitted PDBs: 8e3l
Q-score: 0.601
Boyce JH, Pellegrino J, Lee DJ, Ecker AK, Seiple IB, Fraser JS
To Be Published
- 50s ribosomal protein l22 (12 kDa, Protein from Escherichia coli)
- 50s ribosomal rna (941 kDa, RNA from Escherichia coli)
- 5s ribosomal rna (38 kDa, RNA from Escherichia coli)
- 50s ribosomal protein l2 (29 kDa, Protein from Escherichia coli)
- 50s e. coli ribosome (Complex from Escherichia coli)
- 50s ribosomal protein l13 (16 kDa, Protein from Escherichia coli)
- (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 (2 kDa, Ligand)
- 50s ribosomal protein l4 (22 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l34 (5 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l3 (22 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l15 (15 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l32 (6 kDa, Protein from Escherichia coli)
E. coli 50S ribosome bound to L-linker solithromycin conjugate
Resolution: 2.25 Å
EM Method: Single-particle
Fitted PDBs: 8e3m
Q-score: 0.604
Boyce JH, Pellegrino J, Lee DJ, Ecker AK, Seiple IB, Fraser JS
To Be Published
- 50s ribosomal rna (941 kDa, RNA from Escherichia coli)
- 5s ribosomal rna (38 kDa, RNA from Escherichia coli)
- 50s ribosomal protein l2 (29 kDa, Protein from Escherichia coli)
- 50s e. coli ribosome (Complex from Escherichia coli)
- 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 kDa, Ligand)
- 50s ribosomal protein l13 (16 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l4 (22 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l34 (5 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l3 (22 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l15 (15 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l32 (6 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l22 (12 kDa, Protein from Escherichia coli K-12)
E. coli 50S ribosome bound to solithromycin and VM1
Resolution: 1.99 Å
EM Method: Single-particle
Fitted PDBs: 8e3o
Q-score: 0.618
Boyce JH, Pellegrino J, Lee DJ, Ecker AK, Seiple IB, Fraser JS
To Be Published
- 50s ribosomal protein l13 (16 kDa, Protein from Escherichia coli)
- 50s e. coli ribosome (Complex from Escherichia coli)
- 50s ribosomal protein l4 (22 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l32 (6 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l2 (29 kDa, Protein from Escherichia coli)
- 5s ribosomal rna (38 kDa, RNA from Escherichia coli)
- 23s ribosomal rna (941 kDa, RNA from Escherichia coli)
- (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 (845 Da, Ligand)
- 50s ribosomal protein l3 (22 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l22 (12 kDa, Protein from Escherichia coli)
- Virginiamycin m1 (525 Da, Ligand)
- 50s ribosomal protein l34 (5 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l15 (15 kDa, Protein from Escherichia coli)
E. coli 50S ribosome bound to tiamulin and VS1
Resolution: 2.13 Å
EM Method: Single-particle
Fitted PDBs: 8e41
Q-score: 0.611
Edmonson Q, Pellegrino J, Lee DJ, Seiple IB, Fraser JS
To Be Published
- 50s ribosomal rna (941 kDa, RNA from Escherichia coli)
- 50s ribosomal protein l13 (16 kDa, Protein from Escherichia coli)
- Virginiamycin s1 (841 Da, Protein from Streptomyces virginiae)
- 50s e. coli ribosome (Complex from Escherichia coli)
- 50s ribosomal protein l4 (22 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l32 (6 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l2 (29 kDa, Protein from Escherichia coli)
- 5s ribosomal rna (38 kDa, RNA from Escherichia coli)
- 50s ribosomal protein l3 (22 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l22 (12 kDa, Protein from Escherichia coli)
- Tiamulin (493 Da, Ligand)
- 50s ribosomal protein l34 (5 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l15 (15 kDa, Protein from Escherichia coli)
E. coli 50S ribosome bound to tiamulin and azithromycin
Resolution: 2.29 Å
EM Method: Single-particle
Fitted PDBs: 8e42
Q-score: 0.604
Edmonson Q, Pellegrino J, Lee DJ, Seiple IB, Fraser JS
To Be Published
- 50s ribosomal protein l22 (12 kDa, Protein from Escherichia coli)
- 50s ribosomal rna (941 kDa, RNA from Escherichia coli)
- 5s ribosomal rna (38 kDa, RNA from Escherichia coli)
- 50s ribosomal protein l2 (29 kDa, Protein from Escherichia coli)
- 50s e. coli ribosome (Complex from Escherichia coli)
- Azithromycin (748 Da, Ligand)
- 50s ribosomal protein l13 (16 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l4 (22 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l34 (5 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l3 (22 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l15 (15 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l32 (6 kDa, Protein from Escherichia coli)
- Tiamulin (493 Da, Ligand)