Omadacycline and spectinomycin bound to the 30S ribosomal subunit head
Resolution: 2.06 Å
EM Method: Single-particle
Fitted PDBs: 8ca7
Q-score: 0.666
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 ]
- Small ribosomal subunit protein us5 (17 kDa, Protein from Escherichia coli BW25113)
- 30s ribosomal protein s7 (20 kDa, Protein from Escherichia coli BW25113)
- Small ribosomal subunit protein us10 (11 kDa, Protein from Escherichia coli BW25113)
- 16s rrna (499 kDa, RNA from Escherichia coli BW25113)
- Small ribosomal subunit protein us13 (13 kDa, Protein from Escherichia coli BW25113)
- Ribosomal small subunit head (Complex from Escherichia coli BW25113)
- Potassium ion (39 Da, Ligand)
- Spectinomycin (332 Da, Ligand)
- Small ribosomal subunit protein us9 (14 kDa, Protein from Escherichia coli BW25113)
- Omadacycline (556 Da, Ligand)
- Small ribosomal subunit protein us3 (26 kDa, Protein from Escherichia coli BW25113)
- Small ribosomal subunit protein us14 (11 kDa, Protein from Escherichia coli BW25113)
- Magnesium ion (24 Da, Ligand)
- Small ribosomal subunit protein us19 (10 kDa, Protein from Escherichia coli BW25113)
- Water (18 Da, Ligand)
Eravacycline bound to the 30S head
Resolution: 2.2 Å
EM Method: Single-particle
Fitted PDBs: 8cf8
Q-score: 0.687
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 ]
- 30s ribosomal protein s7 (20 kDa, Protein from Escherichia coli BW25113)
- 70s ribosomes with antibiotic cocktail (Complex from Escherichia coli BW25113)
- 30s ribosomal protein s2 (26 kDa, Protein from Escherichia coli BW25113)
- Small ribosomal subunit protein us10 (11 kDa, Protein from Escherichia coli BW25113)
- Small ribosomal subunit protein us13 (13 kDa, Protein from Escherichia coli BW25113)
- Small ribosomal subunit protein us19 (10 kDa, Protein from Escherichia coli BW25113)
- Potassium ion (39 Da, Ligand)
- Small ribosomal subunit protein us9 (14 kDa, Protein from Escherichia coli BW25113)
- Small ribosomal subunit protein us3 (26 kDa, Protein from Escherichia coli BW25113)
- Small ribosomal subunit protein us14 (11 kDa, Protein from Escherichia coli BW25113)
- Magnesium ion (24 Da, Ligand)
- 16s rrna (499 kDa, RNA from Escherichia coli BW25113)
- Water (18 Da, Ligand)
- Eravacycline (558 Da, Ligand)
Resolution: 2.11 Å
EM Method: Single-particle
Fitted PDBs: 8caz
Q-score: 0.701
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 ]
- 30s ribosomal protein s7 (20 kDa, Protein from Escherichia coli BW25113)
- 70s ribosomes with antibiotic cocktail (Complex from Escherichia coli BW25113)
- 30s ribosomal protein s2 (26 kDa, Protein from Escherichia coli BW25113)
- Large ribosomal subunit protein bl31a (7 kDa, Protein from Escherichia coli BW25113)
- Small ribosomal subunit protein us10 (11 kDa, Protein from Escherichia coli BW25113)
- 16s rrna (499 kDa, RNA from Escherichia coli BW25113)
- Small ribosomal subunit protein us13 (13 kDa, Protein from Escherichia coli BW25113)
- Potassium ion (39 Da, Ligand)
- Small ribosomal subunit protein us9 (14 kDa, Protein from Escherichia coli BW25113)
- Small ribosomal subunit protein us3 (26 kDa, Protein from Escherichia coli BW25113)
- Small ribosomal subunit protein us14 (11 kDa, Protein from Escherichia coli BW25113)
- Magnesium ion (24 Da, Ligand)
- Small ribosomal subunit protein us19 (10 kDa, Protein from Escherichia coli BW25113)
- Water (18 Da, Ligand)
Tetracycline bound to the 30S head
Resolution: 1.82 Å
EM Method: Single-particle
Fitted PDBs: 8cf1
Q-score: 0.743
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 ]
- Small ribosomal subunit protein us5 (17 kDa, Protein from Escherichia coli BW25113)
- 30s ribosomal protein s7 (20 kDa, Protein from Escherichia coli BW25113)
- 70s ribosomes with antibiotic cocktail (Complex from Escherichia coli BW25113)
- 30s ribosomal protein s2 (26 kDa, Protein from Escherichia coli BW25113)
- Small ribosomal subunit protein us10 (11 kDa, Protein from Escherichia coli BW25113)
- Small ribosomal subunit protein us13 (13 kDa, Protein from Escherichia coli BW25113)
- Small ribosomal subunit protein us19 (10 kDa, Protein from Escherichia coli BW25113)
- Tetracycline (444 Da, Ligand)
- Potassium ion (39 Da, Ligand)
- Small ribosomal subunit protein us9 (14 kDa, Protein from Escherichia coli BW25113)
- Small ribosomal subunit protein us3 (26 kDa, Protein from Escherichia coli BW25113)
- Small ribosomal subunit protein us14 (11 kDa, Protein from Escherichia coli BW25113)
- Magnesium ion (24 Da, Ligand)
- 16s rrna (499 kDa, RNA from Escherichia coli BW25113)
- Water (18 Da, Ligand)
Pentacycline TP038 bound to the 30S head
Resolution: 1.89 Å
EM Method: Single-particle
Fitted PDBs: 8cgi
Q-score: 0.745
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 ]
- 30s ribosomal protein s7 (20 kDa, Protein from Escherichia coli BW25113)
- 70s ribosomes with antibiotic cocktail (Complex from Escherichia coli BW25113)
- Large ribosomal subunit protein bl31a (7 kDa, Protein from Escherichia coli BW25113)
- Small ribosomal subunit protein us10 (11 kDa, Protein from Escherichia coli BW25113)
- Small ribosomal subunit protein us13 (13 kDa, Protein from Escherichia coli BW25113)
- Small ribosomal subunit protein us19 (10 kDa, Protein from Escherichia coli BW25113)
- Potassium ion (39 Da, Ligand)
- Pentacycline (551 Da, Ligand)
- Small ribosomal subunit protein us9 (14 kDa, Protein from Escherichia coli BW25113)
- Small ribosomal subunit protein us3 (26 kDa, Protein from Escherichia coli BW25113)
- Small ribosomal subunit protein us14 (11 kDa, Protein from Escherichia coli BW25113)
- Magnesium ion (24 Da, Ligand)
- 16s rrna (499 kDa, RNA from Escherichia coli BW25113)
- Water (18 Da, Ligand)