Streptomycin bound to the 30S body
Resolution: 1.79 Å
EM Method: Single-particle
Fitted PDBs: 8cgj
Q-score: 0.729
Paternoga H, Crowe-McAuliffe C, Bock LV, Koller TO, Morici M, Beckert B, Myasnikov AG, Grubmuller H, Novacek J, Wilson DN
Nat Struct Mol Biol (2023) 30 pp. 1380-1392 [ Pubmed: 37550453 DOI: doi:10.1038/s41594-023-01047-y ]
- Potassium ion (39 Da, Ligand)
- [(2~{s},3~{s},4~{s},5~{r},6~{s})-2-[(2~{r},3~{r},4~{r},5~{s})-2-[(1~{r},2~{s},3~{r},4~{r},5~{s},6~{r})-2,4-bis[[azaniumylidene(azanyl)methyl]amino]-3,5,6-tris(oxidanyl)cyclohexyl]oxy-4-[bis(oxidanyl)methyl]-5-methyl-4-oxidanyl-oxolan-3-yl]oxy-6-(hydroxymethyl)-4,5-bis(oxidanyl)oxan-3-yl]-methyl-azanium (602 Da, Ligand)
- Small ribosomal subunit protein us11 (13 kDa, Protein from Escherichia coli BW25113)
- Small ribosomal subunit protein us3 (26 kDa, Protein from Escherichia coli BW25113)
- Small ribosomal subunit protein bs6, non-modified isoform (15 kDa, Protein from Escherichia coli BW25113)
- 16s rrna (499 kDa, RNA from Escherichia coli BW25113)
- Small ribosomal subunit protein us8 (14 kDa, Protein from Escherichia coli BW25113)
- 70s ribosomes with antibiotic cocktail (Complex from Escherichia coli BW25113)
- 30s ribosomal protein s20 (9 kDa, Protein from Escherichia coli BW25113)
- Small ribosomal subunit protein us12 (13 kDa, Protein from Escherichia coli BW25113)
- Water (18 Da, Ligand)
- 30s ribosomal protein s2 (26 kDa, Protein from Escherichia coli BW25113)
- Small ribosomal subunit protein us17 (9 kDa, Protein from Escherichia coli BW25113)
- Small ribosomal subunit protein bs21 (8 kDa, Protein from Escherichia coli BW25113)
- Small ribosomal subunit protein us5 (17 kDa, Protein from Escherichia coli BW25113)
- Small ribosomal subunit protein us15 (10 kDa, Protein from Escherichia coli BW25113)
- Small ribosomal subunit protein us4 (23 kDa, Protein from Escherichia coli BW25113)
- Small ribosomal subunit protein bs18 (9 kDa, Protein from Escherichia coli BW25113)
- 30s ribosomal protein s16 (9 kDa, Protein from Escherichia coli BW25113)
- Magnesium ion (24 Da, Ligand)
- Tetracycline (444 Da, Ligand)
- 23s rrna (941 kDa, RNA from Escherichia coli BW25113)
Gentamicin bound to the 30S body
Resolution: 1.89 Å
EM Method: Single-particle
Fitted PDBs: 8cgu
Q-score: 0.76
Paternoga H, Crowe-McAuliffe C, Bock LV, Koller TO, Morici M, Beckert B, Myasnikov AG, Grubmuller H, Novacek J, Wilson DN
Nat Struct Mol Biol (2023) 30 pp. 1380-1392 [ Pubmed: 37550453 DOI: doi:10.1038/s41594-023-01047-y ]
- Potassium ion (39 Da, Ligand)
- Small ribosomal subunit protein us11 (13 kDa, Protein from Escherichia coli BW25113)
- Small ribosomal subunit protein bs6, non-modified isoform (15 kDa, Protein from Escherichia coli BW25113)
- 16s rrna (499 kDa, RNA from Escherichia coli BW25113)
- Small ribosomal subunit protein us8 (14 kDa, Protein from Escherichia coli BW25113)
- 70s ribosomes with antibiotic cocktail (Complex from Escherichia coli BW25113)
- 30s ribosomal protein s20 (9 kDa, Protein from Escherichia coli BW25113)
- Small ribosomal subunit protein us12 (13 kDa, Protein from Escherichia coli BW25113)
- Water (18 Da, Ligand)
- Small ribosomal subunit protein us17 (9 kDa, Protein from Escherichia coli BW25113)
- Small ribosomal subunit protein bs21 (8 kDa, Protein from Escherichia coli BW25113)
- Small ribosomal subunit protein us5 (17 kDa, Protein from Escherichia coli BW25113)
- (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 (449 Da, Ligand)
- Small ribosomal subunit protein us15 (10 kDa, Protein from Escherichia coli BW25113)
- Small ribosomal subunit protein us4 (23 kDa, Protein from Escherichia coli BW25113)
- Small ribosomal subunit protein bs18 (9 kDa, Protein from Escherichia coli BW25113)
- 30s ribosomal protein s16 (9 kDa, Protein from Escherichia coli BW25113)
- Magnesium ion (24 Da, Ligand)
- 23s rrna (941 kDa, RNA from Escherichia coli BW25113)
Translating 70S ribosome in the unrotated state (P and E, tRNAs)
Resolution: 1.55 Å
EM Method: Single-particle
Fitted PDBs: 8b0x
Q-score: 0.767
Fromm SA, O'Connor KM, Purdy M, Bhatt PR, Loughran G, Atkins JF, Jomaa A, Mattei S
Nat Commun (2023) 14 pp. 1095-1095 [ DOI: doi:10.1038/s41467-023-36742-3 Pubmed: 36841832 ]
- Potassium ion (39 Da, Ligand)
- 16s rrna (503 kDa, RNA from Escherichia coli B)
- 50s ribosomal protein l2 (29 kDa, Protein from Escherichia coli B)
- 30s ribosomal protein s7 (20 kDa, Protein from Escherichia coli B)
- 50s ribosomal protein l23 (11 kDa, Protein from Escherichia coli B)
- 30s ribosomal protein s17 (9 kDa, Protein from Escherichia coli B)
- 30s ribosomal protein s2 (26 kDa, Protein from Escherichia coli B)
- 30s ribosomal protein s21 (8 kDa, Protein from Escherichia coli B)
- 50s ribosomal protein l22 (12 kDa, Protein from Escherichia coli B)
- 50s ribosomal protein l25 (10 kDa, Protein from Escherichia coli B)
- 30s ribosomal protein s8 (14 kDa, Protein from Escherichia coli B)
- 50s ribosomal protein l28 (9 kDa, Protein from Escherichia coli B)
- Zinc ion (65 Da, Ligand)
- 30s ribosomal protein s20 (9 kDa, Protein from Escherichia coli B)
- 50s ribosomal protein l13 (16 kDa, Protein from Escherichia coli B)
- 30s ribosomal protein s16 (9 kDa, Protein from Escherichia coli B)
- 30s ribosomal protein s4 (23 kDa, Protein from Escherichia coli B)
- 30s ribosomal protein s13 (13 kDa, Protein from Escherichia coli B)
- 30s ribosomal protein s18 (9 kDa, Protein from Escherichia coli B)
- 23s rrna (948 kDa, RNA from Escherichia coli B)
- 50s ribosomal protein l29 (7 kDa, Protein from Escherichia coli B)
- Water (18 Da, Ligand)
- 50s ribosomal protein l19 (13 kDa, Protein from Escherichia coli B)
- 30s ribosomal protein s3 (26 kDa, Protein from Escherichia coli B)
- 30s ribosomal protein s12 (13 kDa, Protein from Escherichia coli B)
- 50s ribosomal protein l6 (18 kDa, Protein from Escherichia coli B)
- 50s ribosomal protein l16 (15 kDa, Protein from Escherichia coli B)
- 5s rrna (38 kDa, RNA from Escherichia coli B)
- 70s ribosome (2 MDa, Complex from Escherichia coli B)
- 30s ribosomal protein s10 (11 kDa, Protein from Escherichia coli B)
- 30s ribosomal protein s6 (15 kDa, Protein from Escherichia coli B)
- 50s ribosomal protein l18 (12 kDa, Protein from Escherichia coli B)
- 50s ribosomal protein l17 (14 kDa, Protein from Escherichia coli B)
- 30s ribosomal protein s11 (13 kDa, Protein from Escherichia coli B)
- 50s ribosomal protein l34 (5 kDa, Protein from Escherichia coli B)
- 30s ribosomal protein s14 (11 kDa, Protein from Escherichia coli B)
- 30s ribosomal protein s9 (14 kDa, Protein from Escherichia coli B)
- 30s ribosomal protein s15 (10 kDa, Protein from Escherichia coli B)
- 50s ribosomal protein l27 (9 kDa, Protein from Escherichia coli B)
- 50s ribosomal protein l24 (11 kDa, Protein from Escherichia coli B)
- 50s ribosomal protein l30 (6 kDa, Protein from Escherichia coli B)
- 50s ribosomal protein l20 (13 kDa, Protein from Escherichia coli B)
- P-site trna (24 kDa, RNA from Escherichia coli B)
- 50s ribosomal protein l5 (20 kDa, Protein from Escherichia coli B)
- Mrna (1 kDa, RNA from Escherichia coli B)
- 50s ribosomal protein l14 (13 kDa, Protein from Escherichia coli B)
- 30s ribosomal protein s5 (17 kDa, Protein from Escherichia coli B)
- 50s ribosomal protein l21 (11 kDa, Protein from Escherichia coli B)
- 50s ribosomal protein l32 (6 kDa, Protein from Escherichia coli B)
- 50s ribosomal protein l15 (15 kDa, Protein from Escherichia coli B)
- Magnesium ion (24 Da, Ligand)
- 30s ribosomal protein s19 (10 kDa, Protein from Escherichia coli B)
- 50s ribosomal protein l36 (4 kDa, Protein from Escherichia coli B)
- 50s ribosomal protein l33 (6 kDa, Protein from Escherichia coli B)
- 50s ribosomal protein l3 (22 kDa, Protein from Escherichia coli B)
- 50s ribosomal protein l9 (15 kDa, Protein from Escherichia coli B)
- 50s ribosomal protein l35 (7 kDa, Protein from Escherichia coli B)
- 50s ribosomal protein l4 (22 kDa, Protein from Escherichia coli B)