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sample_name:"23S Ribosomal RNA" AND release_date:[2023-01-01T00:00:00Z TO 2023-12-31T23:59:59Z] AND xref_links:"chembl"
The structure of a hibernating ribosome in the Lyme disease pathogen
Release date: Nov. 8, 2023
Resolution: 2.86 Å
EM Method: Single-particle
Fitted PDBs: 8fmw
Q-score: 0.484
Resolution: 2.86 Å
EM Method: Single-particle
Fitted PDBs: 8fmw
Q-score: 0.484
Sharma MR, Manjari SR, Agrawal EK, Keshavan P, Koripella RK, Majumdar S, Marcinkiewicz AL, Lin YP, Agrawal RK, Banavali NK
Nat Commun (2023) 14 pp. 6961-6961 [ DOI: doi:10.1038/s41467-023-42266-7 Pubmed: 37907464 ]
Sample:
- 30s ribosomal protein s13 (12 kDa, Protein from Borreliella burgdorferi B31)
- 30s ribosomal protein s19 (9 kDa, Protein from Borreliella burgdorferi B31)
- 50s ribosomal protein l32 (6 kDa, Protein from Borreliella burgdorferi B31)
- 50s ribosomal protein l18 (13 kDa, Protein from Borreliella burgdorferi B31)
- 50s ribosomal protein l34 (6 kDa, Protein from Borreliella burgdorferi B31)
- 16s ribosomal rna (495 kDa, RNA from Borreliella burgdorferi B31)
- 50s ribosomal protein l21 (12 kDa, Protein from Borreliella burgdorferi B31)
- 50s ribosomal protein l3 (22 kDa, Protein from Borreliella burgdorferi B31)
- 50s ribosomal protein l14 (13 kDa, Protein from Borreliella burgdorferi B31)
- 50s ribosomal protein l24 (11 kDa, Protein from Borreliella burgdorferi B31)
- 50s ribosomal protein l20 (13 kDa, Protein from Borreliella burgdorferi B31)
- 30s ribosomal protein s17 (9 kDa, Protein from Borreliella burgdorferi B31)
- 30s ribosomal protein s21 (8 kDa, Protein from Borreliella burgdorferi B31)
- 30s ribosomal protein s3 (23 kDa, Protein from Borreliella burgdorferi B31)
- 50s ribosomal protein l16 (15 kDa, Protein from Borreliella burgdorferi B31)
- 50s ribosomal protein l35 (7 kDa, Protein from Borreliella burgdorferi B31)
- 30s ribosomal protein s8 (14 kDa, Protein from Borreliella burgdorferi B31)
- 30s ribosomal protein s14 type z (7 kDa, Protein from Borreliella burgdorferi B31)
- Ribosomal subunit interface protein (11 kDa, Protein from Borreliella burgdorferi B31)
- 30s ribosomal protein bs22 (3 kDa, Protein from Borreliella burgdorferi B31)
- 50s ribosomal protein l4 (23 kDa, Protein from Borreliella burgdorferi B31)
- 50s ribosomal protein l2 (30 kDa, Protein from Borreliella burgdorferi B31)
- 50s ribosomal protein bl38 (5 kDa, Protein from Borreliella burgdorferi B31)
- 30s ribosomal protein s5 (17 kDa, Protein from Borreliella burgdorferi B31)
- 50s ribosomal protein l17 (14 kDa, Protein from Borreliella burgdorferi B31)
- 30s ribosomal protein s12 (13 kDa, Protein from Borreliella burgdorferi B31)
- E-site t-rna (24 kDa, RNA from Borreliella burgdorferi B31)
- 50s ribosomal protein l27 (8 kDa, Protein from Borreliella burgdorferi B31)
- 50s ribosomal protein l5 (20 kDa, Protein from Borreliella burgdorferi B31)
- 30s ribosomal protein s16 (9 kDa, Protein from Borreliella burgdorferi B31)
- 30s ribosomal protein s7 (18 kDa, Protein from Borreliella burgdorferi B31)
- 50s ribosomal protein l9 (17 kDa, Protein from Borreliella burgdorferi B31)
- 50s ribosomal protein l19 (13 kDa, Protein from Borreliella burgdorferi B31)
- 23s ribosomal rna (948 kDa, RNA from Borreliella burgdorferi B31)
- Hibernating 70s ribosome bound to e-trna and hibernation promoting factor protein (2 MDa, Complex from Borreliella burgdorferi)
- 50s ribosomal protein l36 (4 kDa, Protein from Borreliella burgdorferi B31)
- 30s ribosomal protein s15 (10 kDa, Protein from Borreliella burgdorferi B31)
- 50s ribosomal protein l1 (25 kDa, Protein from Borreliella burgdorferi B31)
- 50s ribosomal protein l10 (18 kDa, Protein from Borreliella burgdorferi B31)
- 50s ribosomal protein ul30 (11 kDa, Protein from Borreliella burgdorferi B31)
- 50s ribosomal protein l6 (19 kDa, Protein from Borreliella burgdorferi B31)
- Zinc ion (65 Da, Ligand)
- 50s ribosomal protein l23 (11 kDa, Protein from Borreliella burgdorferi B31)
- 30s ribosomal protein s20 (9 kDa, Protein from Borreliella burgdorferi B31)
- 30s ribosomal protein s4 (24 kDa, Protein from Borreliella burgdorferi B31)
- 5s ribosomal rna (36 kDa, RNA from Borreliella burgdorferi B31)
- 50s ribosomal protein l11 (14 kDa, Protein from Borreliella burgdorferi B31)
- 50s ribosomal protein l31 type b (9 kDa, Protein from Borreliella burgdorferi B31)
- 50s ribosomal protein l29 (7 kDa, Protein from Borreliella burgdorferi B31)
- 30s ribosomal protein s9 (14 kDa, Protein from Borreliella burgdorferi B31)
- 30s ribosomal protein s18 (7 kDa, Protein from Borreliella burgdorferi B31)
- 50s ribosomal protein l15 (16 kDa, Protein from Borreliella burgdorferi B31)
- 30s ribosomal protein s6 (11 kDa, Protein from Borreliella burgdorferi B31)
- 30s ribosomal protein s11 (12 kDa, Protein from Borreliella burgdorferi B31)
- 30s ribosomal protein s10 (11 kDa, Protein from Borreliella burgdorferi B31)
- 50s ribosomal protein l25 (20 kDa, Protein from Borreliella burgdorferi B31)
- 50s ribosomal protein l33 (6 kDa, Protein from Borreliella burgdorferi B31)
- 50s ribosomal protein l22 (13 kDa, Protein from Borreliella burgdorferi B31)
- 50s ribosomal protein l28 (10 kDa, Protein from Borreliella burgdorferi B31)
- 50s ribosomal protein l13 (16 kDa, Protein from Borreliella burgdorferi B31)
The structure of a 50S ribosomal subunit in the Lyme disease pathogen Borreliella burgdorferi
Release date: Nov. 8, 2023
Resolution: 3.4 Å
EM Method: Single-particle
Fitted PDBs: 8fn2
Q-score: 0.379
Resolution: 3.4 Å
EM Method: Single-particle
Fitted PDBs: 8fn2
Q-score: 0.379
Sharma MR, Manjari SR, Agrawal EK, Keshavan P, Koripella RK, Majumdar S, Marcinkiewicz AL, Lin YP, Agrawal RK, Banavali NK
Nat Commun (2023) 14 pp. 6961-6961 [ DOI: doi:10.1038/s41467-023-42266-7 Pubmed: 37907464 ]
Sample:
- 50s ribosomal protein l32 (6 kDa, Protein from Borreliella burgdorferi B31)
- 50s ribosomal protein l18 (13 kDa, Protein from Borreliella burgdorferi B31)
- 50s ribosomal protein l34 (6 kDa, Protein from Borreliella burgdorferi B31)
- 50s ribosomal protein l21 (12 kDa, Protein from Borreliella burgdorferi B31)
- 50s ribosomal protein l3 (22 kDa, Protein from Borreliella burgdorferi B31)
- 50s ribosomal protein l14 (13 kDa, Protein from Borreliella burgdorferi B31)
- 50s ribosomal protein l13 (16 kDa, Protein from Borreliella burgdorferi B31)
- 50s ribosomal protein l24 (11 kDa, Protein from Borreliella burgdorferi B31)
- 50s ribosomal protein l16 (15 kDa, Protein from Borreliella burgdorferi B31)
- 50s ribosomal protein l35 (7 kDa, Protein from Borreliella burgdorferi B31)
- 50s ribosomal protein l4 (23 kDa, Protein from Borreliella burgdorferi B31)
- 50s ribosomal protein l2 (30 kDa, Protein from Borreliella burgdorferi B31)
- 50s ribosomal protein bl38 (5 kDa, Protein from Borreliella burgdorferi B31)
- 50s ribosomal protein l17 (14 kDa, Protein from Borreliella burgdorferi B31)
- 50s ribosomal subunit (Complex from Borreliella burgdorferi)
- 50s ribosomal protein l27 (8 kDa, Protein from Borreliella burgdorferi B31)
- 50s ribosomal protein l5 (20 kDa, Protein from Borreliella burgdorferi B31)
- 50s ribosomal protein l9 (17 kDa, Protein from Borreliella burgdorferi B31)
- 50s ribosomal protein l19 (13 kDa, Protein from Borreliella burgdorferi B31)
- 23s ribosomal rna (948 kDa, RNA from Borreliella burgdorferi B31)
- 50s ribosomal protein l36 (4 kDa, Protein from Borreliella burgdorferi B31)
- 50s ribosomal protein l10 (18 kDa, Protein from Borreliella burgdorferi B31)
- 50s ribosomal protein ul30 (11 kDa, Protein from Borreliella burgdorferi B31)
- 50s ribosomal protein l6 (19 kDa, Protein from Borreliella burgdorferi B31)
- Zinc ion (65 Da, Ligand)
- 50s ribosomal protein l23 (11 kDa, Protein from Borreliella burgdorferi B31)
- 5s ribosomal rna (36 kDa, RNA from Borreliella burgdorferi B31)
- 50s ribosomal protein l31 type b (9 kDa, Protein from Borreliella burgdorferi B31)
- 50s ribosomal protein l11 (14 kDa, Protein from Borreliella burgdorferi B31)
- 50s ribosomal protein l29 (7 kDa, Protein from Borreliella burgdorferi B31)
- 50s ribosomal protein l15 (16 kDa, Protein from Borreliella burgdorferi B31)
- 50s ribosomal protein l25 (20 kDa, Protein from Borreliella burgdorferi B31)
- 50s ribosomal protein l33 (6 kDa, Protein from Borreliella burgdorferi B31)
- 50s ribosomal protein l22 (13 kDa, Protein from Borreliella burgdorferi B31)
- 50s ribosomal protein l28 (10 kDa, Protein from Borreliella burgdorferi B31)
- 50s ribosomal protein l20 (13 kDa, Protein from Borreliella burgdorferi B31)
Release date: Aug. 9, 2023
Resolution: 2.9 Å
EM Method: Single-particle
Fitted PDBs: 8syl
Q-score: 0.544
Resolution: 2.9 Å
EM Method: Single-particle
Fitted PDBs: 8syl
Q-score: 0.544
Seely SM, Parajuli NP, De Tarafder A, Ge X, Sanyal S, Gagnon MG
Nat Commun (2023) 14 pp. 4666-4666 [ DOI: doi:10.1038/s41467-023-40416-5 Pubmed: 37537169 ]
Sample:
- 30s ribosomal protein s10 (11 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l20 (13 kDa, Protein from Escherichia coli)
- Phenylalanine trna (24 kDa, RNA from Escherichia coli)
- 30s ribosomal protein s17 (9 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l23 (11 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l22 (12 kDa, Protein from Escherichia coli)
- 23s ribosomal rna (941 kDa, RNA from Escherichia coli)
- (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 (585 Da, Ligand)
- 30s ribosomal protein s11 (13 kDa, Protein from Escherichia coli)
- 30s ribosomal protein s5 (17 kDa, Protein from Escherichia coli)
- 30s ribosomal protein s21 (8 kDa, Protein from Escherichia coli)
- 30s ribosomal protein s20 (9 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l36 (4 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l15 (14 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l13 (16 kDa, Protein from Escherichia coli)
- 30s ribosomal protein s2 (26 kDa, Protein from Escherichia coli)
- 30s ribosomal protein s12 (13 kDa, Protein from Escherichia coli)
- 30s ribosomal protein s19 (10 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l14 (13 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l27 (9 kDa, Protein from Escherichia coli)
- Ribosomal protein l21 (11 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l4 (22 kDa, Protein from Escherichia coli)
- Escherichia coli 70s ribosome in complex with amikacin, mrna, and a-, p-, and e-site trnas (2 MDa, Complex from Escherichia coli)
- 50s ribosomal protein l5 (20 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l17 (14 kDa, Protein from Escherichia coli)
- Phenylalanine (165 Da, Ligand)
- 5s ribosomal rna (38 kDa, RNA from Escherichia coli)
- 50s ribosomal protein l28 (9 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l9 (15 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l18 (12 kDa, Protein from Escherichia coli)
- Zinc ion (65 Da, Ligand)
- 30s ribosomal protein s18 (9 kDa, Protein from Escherichia coli)
- 30s ribosomal protein s6 (15 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l24 (11 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l34 (5 kDa, Protein from Escherichia coli)
- 16s ribosomal rna (499 kDa, RNA from Escherichia coli)
- 50s ribosomal protein l19 (13 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l35 (7 kDa, Protein from Escherichia coli)
- 30s ribosomal protein s9 (14 kDa, Protein from Escherichia coli)
- 30s ribosomal protein s4 (23 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l33 (6 kDa, Protein from Escherichia coli)
- Water (18 Da, Ligand)
- 30s ribosomal protein s14 (11 kDa, Protein from Escherichia coli)
- Magnesium ion (24 Da, Ligand)
- 50s ribosomal protein l6 (18 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l32 (6 kDa, Protein from Escherichia coli)
- M-f-stop mrna (7 kDa, RNA from Escherichia phage T4)
- 50s ribosomal protein l31 (7 kDa, Protein from Escherichia coli)
- 30s ribosomal protein s15 (10 kDa, Protein from Escherichia coli)
- 30s ribosomal protein s13 (13 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l2 (29 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l30 (6 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l25 (10 kDa, Protein from Escherichia coli)
- 30s ribosomal protein s7 (17 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l3 (22 kDa, Protein from Escherichia coli)
- 30s ribosomal protein s3 (26 kDa, Protein from Escherichia coli)
- P-site initiator trna (24 kDa, RNA from Escherichia coli)
- 30s ribosomal protein s8 (14 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l29 (7 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l16 (15 kDa, Protein from Escherichia coli)
- 30s ribosomal protein s16 (9 kDa, Protein from Escherichia coli)
E. coli 50S ribosome bound to compound streptogramin analogs SA1 and SB1
Release date: June 28, 2023
Resolution: 2.35 Å
EM Method: Single-particle
Fitted PDBs: 8e32
Q-score: 0.609
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
Sample:
- 50s e. coli ribosome (Complex from Escherichia coli)
- 50s ribosomal protein l15 (15 kDa, Protein from Escherichia coli)
- 23s ribosomal rna (941 kDa, RNA from Escherichia coli)
- 50s ribosomal protein l32 (6 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l34 (5 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l22 (12 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l2 (29 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l4 (22 kDa, Protein from Escherichia coli)
- Water (18 Da, Ligand)
- (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 l3 (22 kDa, Protein from Escherichia coli)
- 5s ribosomal rna (38 kDa, RNA from Escherichia coli)
- 50s ribosomal protein l13 (16 kDa, Protein 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)
E. coli 50S ribosome bound to compound streptogramin analog SAB001
Release date: June 28, 2023
Resolution: 2.23 Å
EM Method: Single-particle
Fitted PDBs: 8e33
Q-score: 0.602
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
Sample:
- 50s e. coli ribosome (Complex from Escherichia coli)
- 50s ribosomal protein l15 (15 kDa, Protein from Escherichia coli)
- 23s ribosomal rna (941 kDa, RNA from Escherichia coli)
- 50s ribosomal protein l32 (6 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l34 (5 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)
- 50s ribosomal protein l2 (29 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l4 (22 kDa, Protein from Escherichia coli)
- Water (18 Da, Ligand)
- 50s ribosomal protein l3 (22 kDa, Protein from Escherichia coli)
- 5s ribosomal rna (38 kDa, RNA from Escherichia coli)
- 50s ribosomal protein l13 (16 kDa, Protein from Escherichia coli)
E. coli 50S ribosome bound to compound SAB002
Release date: June 28, 2023
Resolution: 2.27 Å
EM Method: Single-particle
Fitted PDBs: 8e35
Q-score: 0.569
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
Sample:
- 50s ribosomal protein l22 (12 kDa, Protein from Escherichia coli)
- 23s ribosomal rna (941 kDa, RNA 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 e. coli ribosome (Complex from Escherichia coli)
- 50s ribosomal protein l3 (22 kDa, Protein from Escherichia coli)
- Water (18 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 l15 (15 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 l34 (5 kDa, Protein from Escherichia coli)
E. coli 50S ribosome bound to solithromycin and VM1
Release date: June 28, 2023
Resolution: 1.99 Å
EM Method: Single-particle
Fitted PDBs: 8e3o
Q-score: 0.618
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
Sample:
- 50s e. coli ribosome (Complex from Escherichia coli)
- 50s ribosomal protein l15 (15 kDa, Protein from Escherichia coli)
- 23s ribosomal rna (941 kDa, RNA from Escherichia coli)
- 50s ribosomal protein l32 (6 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l34 (5 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l22 (12 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l2 (29 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l4 (22 kDa, Protein from Escherichia coli)
- Virginiamycin m1 (525 Da, Ligand)
- (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)
- 5s ribosomal rna (38 kDa, RNA from Escherichia coli)
- 50s ribosomal protein l13 (16 kDa, Protein from Escherichia coli)
Structural insights into the binding of bS1 to the ribosome
Release date: May 10, 2023
Resolution: 3.42 Å
EM Method: Single-particle
Fitted PDBs: 8a3l
Q-score: 0.46
Resolution: 3.42 Å
EM Method: Single-particle
Fitted PDBs: 8a3l
Q-score: 0.46
D'Urso G, Chat S, Gillet R, Giudice E
Nucleic Acids Res (2023) 51 pp. 3410-3419 [ Pubmed: 36840711 DOI: doi:10.1093/nar/gkad126 ]
Sample:
- Mrna (12 kDa, RNA from Escherichia coli K-12)
- 50s ribosomal protein l34 (5 kDa, Protein from Escherichia coli K-12)
- 30s ribosomal protein s19 (10 kDa, Protein from Escherichia coli K-12)
- 30s ribosomal protein s3 (23 kDa, Protein from Escherichia coli K-12)
- 50s ribosomal protein l14 (13 kDa, Protein from Escherichia coli K-12)
- 30s ribosomal protein s20 (9 kDa, Protein from Escherichia coli K-12)
- 50s ribosomal protein l23 (11 kDa, Protein from Escherichia coli K-12)
- 50s ribosomal protein l31 (7 kDa, Protein from Escherichia coli K-12)
- 50s ribosomal protein l32 (6 kDa, Protein from Escherichia coli K-12)
- 30s ribosomal protein s4 (23 kDa, Protein from Escherichia coli K-12)
- 23s ribosomal rna (941 kDa, RNA from Escherichia coli K-12)
- 50s ribosomal protein l13 (16 kDa, Protein from Escherichia coli K-12)
- 50s ribosomal protein l21 (11 kDa, Protein from Escherichia coli K-12)
- 50s ribosomal protein l22 (12 kDa, Protein from Escherichia coli K-12)
- 30s ribosomal protein s17 (9 kDa, Protein from Escherichia coli K-12)
- 50s ribosomal protein l24 (11 kDa, Protein from Escherichia coli K-12)
- 50s ribosomal protein l36 (4 kDa, Protein from Escherichia coli K-12)
- 5s ribosomal rna (38 kDa, RNA from Escherichia coli K-12)
- 50s ribosomal protein l17 (14 kDa, Protein from Escherichia coli K-12)
- 50s ribosomal protein l4 (22 kDa, Protein from Escherichia coli K-12)
- 50s ribosomal protein l5 (20 kDa, Protein from Escherichia coli K-12)
- 50s ribosomal protein l33 (6 kDa, Protein from Escherichia coli K-12)
- P-site fmet-trna(fmet) (24 kDa, RNA from Escherichia coli K-12)
- 50s ribosomal protein l25 (10 kDa, Protein from Escherichia coli K-12)
- 50s ribosomal protein l35 (7 kDa, Protein from Escherichia coli K-12)
- 50s ribosomal protein l28 (9 kDa, Protein from Escherichia coli K-12)
- 30s ribosomal protein s6 (15 kDa, Protein from Escherichia coli K-12)
- 50s ribosomal protein l15 (15 kDa, Protein from Escherichia coli K-12)
- 50s ribosomal protein l2 (29 kDa, Protein from Escherichia coli K-12)
- 50s ribosomal protein l3 (22 kDa, Protein from Escherichia coli K-12)
- 50s ribosomal protein l18 (12 kDa, Protein from Escherichia coli K-12)
- Zinc ion (65 Da, Ligand)
- 30s ribosomal protein s15 (10 kDa, Protein from Escherichia coli K-12)
- 50s ribosomal protein l9 (15 kDa, Protein from Escherichia coli K-12)
- 30s ribosomal protein s9 (14 kDa, Protein from Escherichia coli K-12)
- 30s ribosomal protein s11 (13 kDa, Protein from Escherichia coli K-12)
- 50s ribosomal protein l29 (7 kDa, Protein from Escherichia coli K-12)
- 16s ribosomal rna (498 kDa, RNA from Escherichia coli K-12)
- 30s ribosomal protein s8 (14 kDa, Protein from Escherichia coli K-12)
- 30s ribosomal protein s1 (61 kDa, Protein from Escherichia coli K-12)
- 30s ribosomal protein s10 (11 kDa, Protein from Escherichia coli K-12)
- Magnesium ion (24 Da, Ligand)
- 30s ribosomal protein s18 (9 kDa, Protein from Escherichia coli K-12)
- 30s ribosomal protein s5 (17 kDa, Protein from Escherichia coli K-12)
- 30s ribosomal protein s12 (13 kDa, Protein from Escherichia coli K-12)
- 30s ribosomal protein s21 (8 kDa, Protein from Escherichia coli K-12)
- 50s ribosomal protein l20 (13 kDa, Protein from Escherichia coli K-12)
- 50s ribosomal protein l19 (13 kDa, Protein from Escherichia coli K-12)
- 50s ribosomal protein l30 (6 kDa, Protein from Escherichia coli K-12)
- 30s ribosomal protein s2 (24 kDa, Protein from Escherichia coli K-12)
- 50s ribosomal protein l27 (9 kDa, Protein from Escherichia coli K-12)
- 30s ribosomal protein s14 (11 kDa, Protein from Escherichia coli K-12)
- 30s ribosomal protein s13 (13 kDa, Protein from Escherichia coli K-12)
- 30s ribosomal protein s16 (9 kDa, Protein from Escherichia coli K-12)
- 50s ribosomal protein l16 (15 kDa, Protein from Escherichia coli K-12)
- 50s ribosomal protein l6 (18 kDa, Protein from Escherichia coli K-12)
- E-site trna (24 kDa, RNA from Escherichia coli K-12)
- 30s ribosomal protein s7 (20 kDa, Protein from Escherichia coli K-12)
- Elongation competent ribosome in complex with bs1 (2 GDa, Complex from Escherichia coli)
Mycobacterium smegmatis 50S ribosomal subunit from Log Phase of growth
Release date: May 3, 2023
Resolution: 4.1 Å
EM Method: Single-particle
Fitted PDBs: 7y41
Q-score: 0.422
Resolution: 4.1 Å
EM Method: Single-particle
Fitted PDBs: 7y41
Q-score: 0.422
Int J Biol Macromol (2023) 253 pp. 126876-126876 [ DOI: doi:10.1016/j.ijbiomac.2023.126876 Pubmed: 37709237 ]
Sample:
- 50s ribosomal protein l19 (12 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- 50s ribosomal protein l20 (14 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- 50s ribosomal protein l23 (11 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- 50s ribosomal protein l14 (13 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- 50s ribosomal protein l33 1 (6 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- 50s ribosomal protein l22 (16 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- 50s ribosomal protein l28 (6 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- 50s ribosomal protein l2 (30 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- 50s ribosomal protein l6 (19 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- 50s ribosomal protein l35 (7 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- Magnesium ion (24 Da, Ligand)
- 50s ribosomal protein l24 (11 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- 50s ribosomal protein l16 (15 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- 50s ribosomal protein l31 (8 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- 23s ribosomal rna (1 MDa, RNA from Mycolicibacterium smegmatis MC2 155)
- 50s ribosomal subunit bl37 (2 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- 50s ribosomal protein l30 (7 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- 50s ribosomal protein l11 (15 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- 50s ribosomal protein l13 (16 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- 50s ribosomal protein l4 (22 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- 50s ribosomal protein l21 (11 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- 50s ribosomal protein l36 (4 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- 5s ribosomal rna (38 kDa, RNA from Mycolicibacterium smegmatis MC2 155)
- 50s ribosomal protein l32 (6 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- 50s ribosomal protein l17 (21 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- Zinc ion (65 Da, Ligand)
- 50s ribosomal protein l29 (8 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- 50s ribosomal protein l15 (15 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- 50s ribosomal protein l27 (9 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- 50s ribosomal protein l34 (5 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- 50s ribosomal protein l3 (23 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- 50s ribosomal protein l18 (13 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- 50s ribosomal protein l25 (22 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- 50s ribosomal protein l10 (18 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- 50s ribosomal protein l5 (21 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- Mycobacterium smegmatis 50s ribosomal subunit from log phase of growth (1 MDa, Complex from Mycolicibacterium smegmatis MC2 155)
A. baumannii ribosome-Streptothricin-F complex: 70S with P-site tRNA
Release date: April 19, 2023
Resolution: 2.5 Å
EM Method: Single-particle
Fitted PDBs: 7uvv
Q-score: 0.61
Resolution: 2.5 Å
EM Method: Single-particle
Fitted PDBs: 7uvv
Q-score: 0.61
Morgan CE, Kang YS, Green AB, Smith KP, Dowgiallo MG, Miller BC, Chiaraviglio L, Truelson KA, Zulauf KE, Rodriguez S, Kang AD, Manetsch R, Yu EW, Kirby JE
PLoS Biol (2023) 21 pp. e3002091-e3002091 [ Pubmed: 37192172 DOI: doi:10.1371/journal.pbio.3002091 ]
Sample:
- 50s ribosomal protein l9 (15 kDa, Protein from Acinetobacter baumannii AB0057)
- 30s ribosomal protein s5 (17 kDa, Protein from Acinetobacter baumannii AB0057)
- 50s ribosomal protein l27 (9 kDa, Protein from Acinetobacter baumannii AB0057)
- 50s ribosomal protein l20 (13 kDa, Protein from Acinetobacter baumannii AB0057)
- 30s ribosomal protein s3 (27 kDa, Protein from Acinetobacter baumannii AB0057)
- 30s ribosomal protein s19 (10 kDa, Protein from Acinetobacter baumannii AB0057)
- 50s ribosomal protein l14 (13 kDa, Protein from Acinetobacter baumannii AB0057)
- 30s ribosomal protein s13 (13 kDa, Protein from Acinetobacter baumannii AB0057)
- 30s ribosomal protein s7 (17 kDa, Protein from Acinetobacter baumannii AB0057)
- 30s ribosomal protein s9 (14 kDa, Protein from Acinetobacter baumannii AB0057)
- 50s ribosomal protein l6 (19 kDa, Protein from Acinetobacter baumannii AB0057)
- 50s ribosomal protein l34 (5 kDa, Protein from Acinetobacter baumannii AB0057)
- 30s ribosomal protein s20 (9 kDa, Protein from Acinetobacter baumannii AB0057)
- 50s ribosomal protein l18 (12 kDa, Protein from Acinetobacter baumannii AB0057)
- 30s ribosomal protein s18 (9 kDa, Protein from Acinetobacter baumannii AB0057)
- 5s ribosomal rna (36 kDa, RNA from Acinetobacter baumannii AB0057)
- 50s ribosomal protein l16 (15 kDa, Protein from Acinetobacter baumannii AB0057)
- 50s ribosomal protein l25 (10 kDa, Protein from Acinetobacter baumannii AB0057)
- 50s ribosomal protein l28 (9 kDa, Protein from Acinetobacter baumannii AB0057)
- 30s ribosomal protein s15 (10 kDa, Protein from Acinetobacter baumannii AB0057)
- 50s ribosomal protein l13 (15 kDa, Protein from Acinetobacter baumannii AB0057)
- 50s ribosomal protein l2 (30 kDa, Protein from Acinetobacter baumannii AB0057)
- 50s ribosomal protein l35 (7 kDa, Protein from Acinetobacter baumannii AB0057)
- Sf-70s ribosome complex with p-site trna (Complex from Acinetobacter baumannii AB0057)
- 23s ribosomal rna (945 kDa, RNA from Acinetobacter baumannii AB0057)
- 50s ribosomal protein l5 (20 kDa, Protein from Acinetobacter baumannii AB0057)
- 50s ribosomal protein l24 (11 kDa, Protein from Acinetobacter baumannii AB0057)
- 30s ribosomal protein s16 (11 kDa, Protein from Acinetobacter baumannii AB0057)
- 50s ribosomal protein l15 (15 kDa, Protein from Acinetobacter baumannii AB0057)
- 30s ribosomal protein s2 (27 kDa, Protein from Acinetobacter baumannii AB0057)
- 30s ribosomal protein s21 (8 kDa, Protein from Acinetobacter baumannii AB0057)
- 30s ribosomal protein s6 (14 kDa, Protein from Acinetobacter baumannii AB0057)
- 30s ribosomal protein s8 (14 kDa, Protein from Acinetobacter baumannii AB0057)
- 30s ribosomal protein s11 (13 kDa, Protein from Acinetobacter baumannii AB0057)
- 30s ribosomal protein s17 (9 kDa, Protein from Acinetobacter baumannii AB0057)
- 50s ribosomal protein l21 (11 kDa, Protein from Acinetobacter baumannii AB0057)
- 50s ribosomal protein l19 (13 kDa, Protein from Acinetobacter baumannii AB0057)
- 50s ribosomal protein l23 (11 kDa, Protein from Acinetobacter baumannii AB0057)
- 50s ribosomal protein l17 (14 kDa, Protein from Acinetobacter baumannii AB0057)
- Zinc ion (65 Da, Ligand)
- 30s ribosomal protein s4 (23 kDa, Protein from Acinetobacter baumannii AB0057)
- 30s ribosomal protein s12 (13 kDa, Protein from Acinetobacter baumannii AB0057)
- 50s ribosomal protein l3 (22 kDa, Protein from Acinetobacter baumannii AB0057)
- 50s ribosomal protein l4 (21 kDa, Protein from Acinetobacter baumannii AB0057)
- 50s ribosomal protein l22 (11 kDa, Protein from Acinetobacter baumannii AB0057)
- 50s ribosomal protein l36 (4 kDa, Protein from Acinetobacter baumannii AB0057)
- 30s ribosomal protein s14 (11 kDa, Protein from Acinetobacter baumannii AB0057)
- 50s ribosomal protein l30 (6 kDa, Protein from Acinetobacter baumannii AB0057)
- 50s ribosomal protein l29 (7 kDa, Protein from Acinetobacter baumannii AB0057)
- 50s ribosomal protein l33 (6 kDa, Protein from Acinetobacter baumannii AB0057)
- Trna-met (24 kDa, RNA from Acinetobacter baumannii AB0057)
- Streptothricin f (502 Da, Ligand)
- Mrna (935 Da, RNA from Acinetobacter baumannii AB0057)
- 30s ribosomal protein s10 (11 kDa, Protein from Acinetobacter baumannii AB0057)
- 50s ribosomal protein l32 (7 kDa, Protein from Acinetobacter baumannii AB0057)
- 16s ribosomal rna (500 kDa, RNA from Acinetobacter baumannii AB0057)