YphC-treated 45SYphC particle. Class 5
Arpin D, Palacios A, Basu K, Ortega J
Nucleic Acids Res (2025) 53 [ DOI: doi:10.1093/nar/gkae1197 Pubmed: 39658043 ]
- Large ribosomal subunit protein bl20 (13 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
- Large ribosomal subunit protein bl21 (11 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
- Large ribosomal subunit protein ul18 (12 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
- Large ribosomal subunit protein bl32 (6 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
- Large ribosomal subunit protein ul24 (11 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
- Large ribosomal subunit protein bl33a (5 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
- Gtpase der (48 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
- Large ribosomal subunit protein ul13 (16 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
- Large ribosomal subunit protein bl19 (13 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
- Large ribosomal subunit protein ul15 (15 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
- Large ribosomal subunit protein bl17 (13 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
- Large ribosomal subunit protein bl34 (5 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
- Large ribosomal subunit protein ul29 (7 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
- Large ribosomal subunit protein ul23 (10 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
- Phosphoaminophosphonic acid-guanylate ester (522 Da, Ligand)
- Large ribosomal subunit protein ul4 (22 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
- Large ribosomal subunit protein ul1 (25 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
- 5s rrna (38 kDa, RNA from Bacillus subtilis subsp. subtilis str. 168)
- Large ribosomal subunit protein ul6 (19 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
- Large ribosomal subunit protein ul14 (13 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
- 50s assembly intermediate 45syphc class 1 (Complex from Bacillus subtilis)
- Large ribosomal subunit protein bl27 (10 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
- 23s rrna (949 kDa, RNA from Bacillus subtilis subsp. subtilis str. 168)
- Large ribosomal subunit protein ul3 (22 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
- Large ribosomal subunit protein ul2 (30 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
- Large ribosomal subunit protein ul22 (12 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
- Large ribosomal subunit protein ul30 (6 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
45SRbgA particle in complex with RbgA and YphC. Class A
Arpin D, Palacios A, Basu K, Ortega J
Nucleic Acids Res (2025) 53 [ DOI: doi:10.1093/nar/gkae1197 Pubmed: 39658043 ]
- Large ribosomal subunit protein bl20 (13 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
- Large ribosomal subunit protein bl21 (11 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
- Large ribosomal subunit protein bl32 (6 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
- Large ribosomal subunit protein ul24 (11 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
- Large ribosomal subunit protein ul13 (16 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
- Large ribosomal subunit protein bl19 (13 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
- Large ribosomal subunit protein ul15 (15 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
- Large ribosomal subunit protein bl17 (13 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
- Large ribosomal subunit protein bl34 (5 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
- Large ribosomal subunit protein ul29 (7 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
- Large ribosomal subunit protein ul23 (10 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
- Phosphoaminophosphonic acid-guanylate ester (522 Da, Ligand)
- Large ribosomal subunit protein ul4 (22 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
- Large ribosomal subunit protein ul1 (25 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
- Gtpase der (48 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
- Large ribosomal subunit protein ul6 (19 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
- Large ribosomal subunit protein ul14 (13 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
- 50s assembly intermediate 45syphc class 1 (Complex from Bacillus subtilis)
- 23s rrna (949 kDa, RNA from Bacillus subtilis subsp. subtilis str. 168)
- Large ribosomal subunit protein ul3 (22 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
- Large ribosomal subunit protein ul2 (30 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
- Ribosome biogenesis gtpase a (32 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
- Large ribosomal subunit protein ul22 (12 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
- Large ribosomal subunit protein ul30 (6 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
45SRbgA particle in complex with RbgA and YphC. Class B
Arpin D, Palacios A, Basu K, Ortega J
Nucleic Acids Res (2025) 53 [ DOI: doi:10.1093/nar/gkae1197 Pubmed: 39658043 ]
- Large ribosomal subunit protein bl20 (13 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
- Large ribosomal subunit protein bl21 (11 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
- Large ribosomal subunit protein bl32 (6 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
- Large ribosomal subunit protein ul24 (11 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
- Large ribosomal subunit protein ul13 (16 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
- Large ribosomal subunit protein bl19 (13 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
- Large ribosomal subunit protein ul15 (15 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
- Large ribosomal subunit protein bl17 (13 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
- Large ribosomal subunit protein bl34 (5 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
- Large ribosomal subunit protein ul29 (7 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
- Large ribosomal subunit protein ul23 (10 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
- Phosphoaminophosphonic acid-guanylate ester (522 Da, Ligand)
- Large ribosomal subunit protein ul4 (22 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
- Large ribosomal subunit protein ul1 (25 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
- Gtpase der (48 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
- 5s rrna (38 kDa, RNA from Bacillus subtilis subsp. subtilis str. 168)
- Large ribosomal subunit protein ul6 (19 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
- Large ribosomal subunit protein ul14 (13 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
- 50s assembly intermediate 45syphc class 1 (Complex from Bacillus subtilis)
- Large ribosomal subunit protein bl27 (10 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
- 23s rrna (949 kDa, RNA from Bacillus subtilis subsp. subtilis str. 168)
- Large ribosomal subunit protein ul3 (22 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
- Large ribosomal subunit protein ul2 (30 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
- Ribosome biogenesis gtpase a (32 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
- Large ribosomal subunit protein ul22 (12 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
- Large ribosomal subunit protein ul30 (6 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
Structure of arbekacin bound Escherichia coli 70S ribosome
Majumdar S, Parajuli NP, Ge X, Emmerich A, Sanyal S
To Be Published
- Large ribosomal subunit protein ul15 (15 kDa, Protein from Escherichia coli)
- Small ribosomal subunit protein us19 (10 kDa, Protein from Escherichia coli)
- Large ribosomal subunit protein bl28 (9 kDa, Protein from Escherichia coli)
- Small ribosomal subunit protein bs18 (9 kDa, Protein from Escherichia coli)
- Large ribosomal subunit protein bl35 (7 kDa, Protein from Escherichia coli)
- Large ribosomal subunit protein ul4 (22 kDa, Protein from Escherichia coli)
- Large ribosomal subunit protein bl25 (10 kDa, Protein from Escherichia coli)
- Small ribosomal subunit protein us12 (13 kDa, Protein from Escherichia coli)
- Small ribosomal subunit protein us5 (17 kDa, Protein from Escherichia coli)
- Arbekacin (552 Da, Ligand)
- Small ribosomal subunit protein bs20 (9 kDa, Protein from Escherichia coli)
- Large ribosomal subunit protein ul30 (6 kDa, Protein from Escherichia coli)
- Large ribosomal subunit protein bl31a (7 kDa, Protein from Escherichia coli)
- Small ribosomal subunit protein us7 (20 kDa, Protein from Escherichia coli)
- Large ribosomal subunit protein bl17 (14 kDa, Protein from Escherichia coli)
- Large ribosomal subunit protein ul14 (13 kDa, Protein from Escherichia coli)
- 16s rrna (499 kDa, RNA from Escherichia coli)
- Small ribosomal subunit protein bs6, fully modified isoform (15 kDa, Protein from Escherichia coli)
- Small ribosomal subunit protein us3 (26 kDa, Protein from Escherichia coli)
- 5s rrna (38 kDa, RNA from Escherichia coli)
- Small ribosomal subunit protein us15 (10 kDa, Protein from Escherichia coli)
- Small ribosomal subunit protein us14 (11 kDa, Protein from Escherichia coli)
- Large ribosomal subunit protein ul23 (11 kDa, Protein from Escherichia coli)
- Large ribosomal subunit protein ul13 (16 kDa, Protein from Escherichia coli)
- Large ribosomal subunit protein bl32 (6 kDa, Protein from Escherichia coli)
- Small ribosomal subunit protein us9 (14 kDa, Protein from Escherichia coli)
- Large ribosomal subunit protein ul5 (20 kDa, Protein from Escherichia coli)
- Large ribosomal subunit protein bl21 (11 kDa, Protein from Escherichia coli)
- Large ribosomal subunit protein bl33 (6 kDa, Protein from Escherichia coli)
- Small ribosomal subunit protein us8 (14 kDa, Protein from Escherichia coli)
- Small ribosomal subunit protein us17 (9 kDa, Protein from Escherichia coli)
- Large ribosomal subunit protein bl34 (5 kDa, Protein from Escherichia coli)
- Small ribosomal subunit protein us11 (13 kDa, Protein from Escherichia coli)
- Large ribosomal subunit protein bl36a (4 kDa, Protein from Escherichia coli)
- Escherichia coli 70s ribosome bound to fret-trna mrna (Complex from Escherichia coli)
- Small ribosomal subunit protein us4 (23 kDa, Protein from Escherichia coli)
- Large ribosomal subunit protein ul29 (7 kDa, Protein from Escherichia coli)
- Small ribosomal subunit protein us13 (13 kDa, Protein from Escherichia coli)
- Large ribosomal subunit protein ul6 (18 kDa, Protein from Escherichia coli)
- Large ribosomal subunit protein ul18 (12 kDa, Protein from Escherichia coli)
- Small ribosomal subunit protein bs21 (8 kDa, Protein from Escherichia coli)
- Mrna (9 kDa, RNA from Escherichia coli)
- Large ribosomal subunit protein ul2 (29 kDa, Protein from Escherichia coli)
- Large ribosomal subunit protein bl19 (13 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l3 (22 kDa, Protein from Escherichia coli)
- Small ribosomal subunit protein bs16 (9 kDa, Protein from Escherichia coli)
- Trna-fmet (24 kDa, RNA from Escherichia coli)
- Small ribosomal subunit protein us2 (26 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l16 (15 kDa, Protein from Escherichia coli)
- Large ribosomal subunit protein ul24 (11 kDa, Protein from Escherichia coli)
- Large ribosomal subunit protein bl27 (9 kDa, Protein from Escherichia coli)
- Small ribosomal subunit protein us10 (11 kDa, Protein from Escherichia coli)
- 23s rrna (941 kDa, RNA from Escherichia coli)
- Large ribosomal subunit protein bl20 (13 kDa, Protein from Escherichia coli)
Mycobacterium smegmatis 50S ribosomal subunit with Erythromycin
Resolution: 3.6 Å
EM Method: Single-particle
Fitted PDBs: 8xz3
Q-score: 0.473
Srinivasan K, Banerjee A, Sengupta J
Structure (2024) 32 pp. 1443- [ DOI: doi:10.1016/j.str.2024.06.016 Pubmed: 39029461 ]
- Large ribosomal subunit protein ul2 (30 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- Large ribosomal subunit protein ul24 (11 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- Large ribosomal subunit protein bl32 (6 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- Large ribosomal subunit protein ul23 (10 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- Large ribosomal subunit protein ul15 (15 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- Large ribosomal subunit protein bl28 (6 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- Large ribosomal subunit protein bl17 (13 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- Large ribosomal subunit protein ul18 (13 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- Mycobacterium smegmatis 50s ribosomal subunit-erythromycin complex (Complex from Mycolicibacterium smegmatis MC2 155)
- Large ribosomal subunit protein bl34 (5 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- Large ribosomal subunit protein ul30 (6 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- 50s ribosomal protein l36 (4 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- Large ribosomal subunit protein ul16 (15 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- Large ribosomal subunit protein bl21 (10 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- Large ribosomal subunit protein bl31 (5 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- 50s ribosomal protein l14 (13 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- Large ribosomal subunit protein bl35 (7 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- Large ribosomal subunit protein ul10 (13 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- Erythromycin a (733 Da, Ligand)
- Large ribosomal subunit protein bl33a (5 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- Large ribosomal subunit protein ul3 (22 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- Large ribosomal subunit protein bl27 (8 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- Large ribosomal subunit protein ul29 (7 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- Large ribosomal subunit protein ul5 (20 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- 5s rrna (38 kDa, RNA from Mycolicibacterium smegmatis MC2 155)
- Large ribosomal subunit protein ul13 (16 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- Large ribosomal subunit protein bl20 (14 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- 50s ribosomal protein l9 (15 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- Large ribosomal subunit protein ul4 (22 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- 23s rrna (1 MDa, RNA from Mycolicibacterium smegmatis MC2 155)
- Large ribosomal subunit protein bl25 (20 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- Large ribosomal subunit protein ul22 (12 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- Large ribosomal subunit protein ul11 (14 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- Large ribosomal subunit protein ul6 (19 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- 50s ribosomal protein bl37 (2 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
- Mycobacterium smegmatis 50s ribosomal subunit (Cellular component from Mycolicibacterium smegmatis MC2 155)
- 50s ribosomal protein l19 (12 kDa, Protein from Mycolicibacterium smegmatis MC2 155)
70S Escherichia coli ribosome with Paenilamicin B2 bound with A- and P-site tRNA.
Resolution: 2.2 Å
EM Method: Single-particle
Fitted PDBs: 8r6c
Q-score: 0.668
Koller TO, Berger MJ, Morici M, Paternoga H, Bulatov T, Di Stasi A, Dang T, Mainz A, Raulf K, Crowe-McAuliffe C, Scocchi M, Mardirossian M, Beckert B, Vazquez-Laslop N, Mankin A, Sussmuth RD, Wilson DN
bioRxiv (2024) [ DOI: doi:10.1101/2024.05.21.595107 Pubmed: 38826346 ]
- Small ribosomal subunit protein us9 (14 kDa, Protein from Escherichia coli BW25113)
- Large ribosomal subunit protein ul24 (11 kDa, Protein from Escherichia coli BW25113)
- Small ribosomal subunit protein us3 (26 kDa, Protein from Escherichia coli BW25113)
- Small ribosomal subunit protein us4 (23 kDa, Protein from Escherichia coli BW25113)
- Small ribosomal subunit protein us12 (13 kDa, Protein from Escherichia coli BW25113)
- 30s ribosomal protein s7 (20 kDa, Protein from Escherichia coli BW25113)
- Large ribosomal subunit protein bl31a (7 kDa, Protein from Escherichia coli BW25113)
- Large ribosomal subunit protein ul14 (13 kDa, Protein from Escherichia coli BW25113)
- 30s ribosomal protein s20 (9 kDa, Protein from Escherichia coli BW25113)
- Large ribosomal subunit protein ul4 (22 kDa, Protein from Escherichia coli BW25113)
- Small ribosomal subunit protein bs21 (8 kDa, Protein from Escherichia coli BW25113)
- Large ribosomal subunit protein bl32 (6 kDa, Protein from Escherichia coli BW25113)
- Isoeucine-trna (24 kDa, RNA from Escherichia coli BW25113)
- Large ribosomal subunit protein bl27 (9 kDa, Protein from Escherichia coli BW25113)
- Large ribosomal subunit protein ul22 (12 kDa, Protein from Escherichia coli BW25113)
- Large ribosomal subunit protein bl33 (6 kDa, Protein from Escherichia coli BW25113)
- Potassium ion (39 Da, Ligand)
- Paenilamicin b2 bound to the 70s escherichia coli ribosome (Complex)
- Small ribosomal subunit protein us15 (10 kDa, Protein from Escherichia coli BW25113)
- Large ribosomal subunit protein bl36a (4 kDa, Protein from Escherichia coli BW25113)
- 70s escherichia coli ribosome (Complex from Escherichia coli BW25113)
- Small ribosomal subunit protein us5 (17 kDa, Protein from Escherichia coli BW25113)
- 30s ribosomal protein s16 (9 kDa, Protein from Escherichia coli BW25113)
- Large ribosomal subunit protein bl9 (15 kDa, Protein from Escherichia coli BW25113)
- Large ribosomal subunit protein bl20 (13 kDa, Protein from Escherichia coli BW25113)
- N-formylmethionine trna (24 kDa, RNA from Escherichia coli BW25113)
- 50s ribosomal protein l25 (10 kDa, Protein from Escherichia coli BW25113)
- Water (18 Da, Ligand)
- Leucine-trna (27 kDa, RNA from Escherichia coli BW25113)
- Zinc ion (65 Da, Ligand)
- Magnesium ion (24 Da, Ligand)
- Large ribosomal subunit protein ul3 (22 kDa, Protein from Escherichia coli BW25113)
- Small ribosomal subunit protein us13 (13 kDa, Protein from Escherichia coli BW25113)
- Large ribosomal subunit protein ul13 (16 kDa, Protein from Escherichia coli BW25113)
- Large ribosomal subunit protein ul30 (6 kDa, Protein from Escherichia coli BW25113)
- 50s ribosomal protein l15 (15 kDa, Protein from Escherichia coli BW25113)
- Mrna (3 kDa, RNA from Escherichia coli BW25113)
- Large ribosomal subunit protein ul16 (15 kDa, Protein from Escherichia coli BW25113)
- Large ribosomal subunit protein ul18 (12 kDa, Protein from Escherichia coli BW25113)
- Paenilamicin b2 (1 kDa, Protein from synthetic construct)
- Small ribosomal subunit protein us11 (13 kDa, Protein from Escherichia coli BW25113)
- 23s ribosomal rna (941 kDa, RNA from Escherichia coli BW25113)
- Large ribosomal subunit protein ul6 (18 kDa, Protein from Escherichia coli BW25113)
- Large ribosomal subunit protein ul5 (20 kDa, Protein from Escherichia coli BW25113)
- Large ribosomal subunit protein bl21 (11 kDa, Protein from Escherichia coli BW25113)
- 16s ribosomal rna (497 kDa, RNA from Escherichia coli BW25113)
- Paenilamicin b2 (Complex from Paenibacillus larvae)
- Small ribosomal subunit protein bs18 (9 kDa, Protein from Escherichia coli BW25113)
- 30s ribosomal protein s6, fully modified isoform (15 kDa, Protein from Escherichia coli BW25113)
- Large ribosomal subunit protein bl35 (7 kDa, Protein from Escherichia coli BW25113)
- 5s ribosomal rna (38 kDa, RNA from Escherichia coli BW25113)
- Large ribosomal subunit protein ul29 (7 kDa, Protein from Escherichia coli BW25113)
- Large ribosomal subunit protein bl19 (13 kDa, Protein from Escherichia coli BW25113)
- Large ribosomal subunit protein bl28 (9 kDa, Protein from Escherichia coli BW25113)
- Large ribosomal subunit protein ul2 (29 kDa, Protein from Escherichia coli BW25113)
- Small ribosomal subunit protein us19 (10 kDa, Protein from Escherichia coli BW25113)
- Large ribosomal subunit protein bl34 (5 kDa, Protein from Escherichia coli BW25113)
- Small ribosomal subunit protein us17 (9 kDa, Protein from Escherichia coli BW25113)
- Small ribosomal subunit protein us8 (14 kDa, Protein from Escherichia coli BW25113)
- Large ribosomal subunit protein ul23 (11 kDa, Protein from Escherichia coli BW25113)
- Large ribosomal subunit protein bl17 (14 kDa, Protein from Escherichia coli BW25113)
- 30s ribosomal protein s2 (26 kDa, Protein from Escherichia coli BW25113)
- Small ribosomal subunit protein us14 (11 kDa, Protein from Escherichia coli BW25113)
- Small ribosomal subunit protein us10 (11 kDa, Protein from Escherichia coli BW25113)
70S Escherichia coli ribosome with Paenilamicin B2 bound with hybrid A/P- and hybrid P/E-tRNA.
Resolution: 2.4 Å
EM Method: Single-particle
Fitted PDBs: 8r8m
Q-score: 0.634
Koller TO, Berger MJ, Morici M, Paternoga H, Bulatov T, Di Stasi A, Dang T, Mainz A, Raulf K, Crowe-McAuliffe C, Scocchi M, Mardirossian M, Beckert B, Vazquez-Laslop N, Mankin A, Sussmuth RD, Wilson DN
bioRxiv (2024) [ Pubmed: 38826346 DOI: doi:10.1101/2024.05.21.595107 ]
- Small ribosomal subunit protein us8 (14 kDa, Protein from Escherichia coli BW25113)
- Paenilamicin b2 (Complex from Paenibacillus larvae)
- Large ribosomal subunit protein bl17 (14 kDa, Protein from Escherichia coli BW25113)
- Small ribosomal subunit protein us14 (11 kDa, Protein from Escherichia coli BW25113)
- Small ribosomal subunit protein bs21 (8 kDa, Protein from Escherichia coli BW25113)
- Small ribosomal subunit protein us4 (23 kDa, Protein from Escherichia coli BW25113)
- Small ribosomal subunit protein us15 (10 kDa, Protein from Escherichia coli BW25113)
- Leucine-trna (27 kDa, RNA from Escherichia coli BW25113)
- 30s ribosomal protein s16 (9 kDa, Protein from Escherichia coli BW25113)
- 70s escherichia coli ribosome (Complex from Escherichia coli BW25113)
- Potassium ion (39 Da, Ligand)
- Large ribosomal subunit protein bl33 (6 kDa, Protein from Escherichia coli BW25113)
- Large ribosomal subunit protein ul23 (11 kDa, Protein from Escherichia coli BW25113)
- Large ribosomal subunit protein bl35 (7 kDa, Protein from Escherichia coli BW25113)
- Water (18 Da, Ligand)
- Zinc ion (65 Da, Ligand)
- Small ribosomal subunit protein us5 (17 kDa, Protein from Escherichia coli BW25113)
- Paenilamicin b2 bound to the 70s escherichia coli ribosome (Complex)
- Large ribosomal subunit protein ul5 (20 kDa, Protein from Escherichia coli BW25113)
- Small ribosomal subunit protein us9 (14 kDa, Protein from Escherichia coli BW25113)
- 30s ribosomal protein s20 (9 kDa, Protein from Escherichia coli BW25113)
- 30s ribosomal protein s6, fully modified isoform (15 kDa, Protein from Escherichia coli BW25113)
- Small ribosomal subunit protein us19 (10 kDa, Protein from Escherichia coli BW25113)
- Large ribosomal subunit protein bl20 (13 kDa, Protein from Escherichia coli BW25113)
- Large ribosomal subunit protein ul13 (16 kDa, Protein from Escherichia coli BW25113)
- Small ribosomal subunit protein bs18 (9 kDa, Protein from Escherichia coli BW25113)
- Large ribosomal subunit protein ul2 (29 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)
- Large ribosomal subunit protein ul4 (22 kDa, Protein from Escherichia coli BW25113)
- Large ribosomal subunit protein bl28 (9 kDa, Protein from Escherichia coli BW25113)
- Small ribosomal subunit protein us17 (9 kDa, Protein from Escherichia coli BW25113)
- Large ribosomal subunit protein ul3 (22 kDa, Protein from Escherichia coli BW25113)
- Isoleucine-trna (24 kDa, RNA from Escherichia coli BW25113)
- Large ribosomal subunit protein bl19 (13 kDa, Protein from Escherichia coli BW25113)
- Large ribosomal subunit protein bl9 (15 kDa, Protein from Escherichia coli BW25113)
- 5s ribosomal rna (38 kDa, RNA from Escherichia coli BW25113)
- Mrna (3 kDa, RNA from Escherichia coli BW25113)
- 16s ribosomal rna (497 kDa, RNA from Escherichia coli BW25113)
- Large ribosomal subunit protein ul29 (7 kDa, Protein from Escherichia coli BW25113)
- Large ribosomal subunit protein ul30 (6 kDa, Protein from Escherichia coli BW25113)
- Large ribosomal subunit protein bl32 (6 kDa, Protein from Escherichia coli BW25113)
- Large ribosomal subunit protein ul24 (11 kDa, Protein from Escherichia coli BW25113)
- Paenilamicin b2 (1 kDa, Protein from synthetic construct)
- Large ribosomal subunit protein ul22 (12 kDa, Protein from Escherichia coli BW25113)
- Small ribosomal subunit protein us13 (13 kDa, Protein from Escherichia coli BW25113)
- Small ribosomal subunit protein us11 (13 kDa, Protein from Escherichia coli BW25113)
- Small ribosomal subunit protein us12 (13 kDa, Protein from Escherichia coli BW25113)
- Small ribosomal subunit protein us3 (26 kDa, Protein from Escherichia coli BW25113)
- 30s ribosomal protein s7 (20 kDa, Protein from Escherichia coli BW25113)
- Large ribosomal subunit protein ul6 (18 kDa, Protein from Escherichia coli BW25113)
- 30s ribosomal protein s2 (26 kDa, Protein from Escherichia coli BW25113)
- 50s ribosomal protein l15 (15 kDa, Protein from Escherichia coli BW25113)
- Large ribosomal subunit protein ul18 (12 kDa, Protein from Escherichia coli BW25113)
- Large ribosomal subunit protein bl27 (9 kDa, Protein from Escherichia coli BW25113)
- Large ribosomal subunit protein ul14 (13 kDa, Protein from Escherichia coli BW25113)
- Large ribosomal subunit protein bl34 (5 kDa, Protein from Escherichia coli BW25113)
- Large ribosomal subunit protein bl36a (4 kDa, Protein from Escherichia coli BW25113)
- Large ribosomal subunit protein ul16 (15 kDa, Protein from Escherichia coli BW25113)
- Magnesium ion (24 Da, Ligand)
- Large ribosomal subunit protein bl21 (11 kDa, Protein from Escherichia coli BW25113)
- 50s ribosomal protein l25 (10 kDa, Protein from Escherichia coli BW25113)
- 23s ribosomal rna (941 kDa, RNA from Escherichia coli BW25113)
cryo-EM structure of Staphylococcus aureus(ATCC 29213) 50S ribosome in complex with MCX-190.
Resolution: 2.65 Å
EM Method: Single-particle
Fitted PDBs: 8y36
Q-score: 0.58
Ma CX, Li Y, Liu WT, Li Y, Zhao F, Lian XT, Ding J, Liu SM, Liu XP, Fan BZ, Liu LY, Xue F, Li J, Zhang JR, Xue Z, Pei XT, Lin JZ, Liang JH
Cell Discov (2024) 10 pp. 75-75 [ DOI: doi:10.1038/s41421-024-00702-y Pubmed: 38992047 ]
- Large ribosomal subunit protein bl32 (5 kDa, Protein from Staphylococcus aureus)
- Large ribosomal subunit protein bl35 (7 kDa, Protein from Staphylococcus aureus)
- Large ribosomal subunit protein bl36 (4 kDa, Protein from Staphylococcus aureus)
- Large ribosomal subunit protein ul5 (19 kDa, Protein from Staphylococcus aureus)
- Large ribosomal subunit protein ul30 (6 kDa, Protein from Staphylococcus aureus)
- 7-[4-[3-[[(1~{s},2~{r},5~{r},6~{s},7~{s},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-9-methoxy-1,5,7,9,11,13-hexamethyl-4,12,16-tris(oxidanylidene)-3,17-dioxa-15-azabicyclo[12.3.0]heptadecan-6-yl]oxycarbonylamino]propoxy]but-1-ynyl]-1-methyl-4-oxidanylidene-quinoline-3-carboxylic acid (969 Da, Ligand)
- Large ribosomal subunit protein ul3 (23 kDa, Protein from Staphylococcus aureus)
- Large ribosomal subunit protein ul4 (22 kDa, Protein from Staphylococcus aureus)
- Large ribosomal subunit protein ul14 (13 kDa, Protein from Staphylococcus aureus)
- Large ribosomal subunit protein ul15 (15 kDa, Protein from Staphylococcus aureus)
- Large ribosomal subunit protein bl17 (13 kDa, Protein from Staphylococcus aureus)
- Large ribosomal subunit protein ul13 (16 kDa, Protein from Staphylococcus aureus)
- Large ribosomal subunit protein bl33b (5 kDa, Protein from Staphylococcus aureus)
- Large ribosomal subunit protein bl21 (11 kDa, Protein from Staphylococcus aureus)
- Large ribosomal subunit protein ul2 (29 kDa, Protein from Staphylococcus aureus)
- Large ribosomal subunit protein bl19 (13 kDa, Protein from Staphylococcus aureus)
- Large ribosomal subunit protein bl28 (6 kDa, Protein from Staphylococcus aureus)
- Large ribosomal subunit protein bl25 (10 kDa, Protein from Staphylococcus aureus)
- Large ribosomal subunit protein bl20 (13 kDa, Protein from Staphylococcus aureus)
- Large ribosomal subunit protein ul29 (7 kDa, Protein from Staphylococcus aureus)
- Large ribosomal subunit protein bl34 (5 kDa, Protein from Staphylococcus aureus)
- Water (18 Da, Ligand)
- Large ribosomal subunit protein ul24 (11 kDa, Protein from Staphylococcus aureus)
- 5s ribosomal rna (36 kDa, RNA from Staphylococcus aureus)
- Staphylococcus aureus(atcc 29213) 50s ribosome in complex with mcx-190. (Complex from Staphylococcus aureus)
- Magnesium ion (24 Da, Ligand)
- Large ribosomal subunit protein ul16 (15 kDa, Protein from Staphylococcus aureus)
- Large ribosomal subunit protein bl27 (8 kDa, Protein from Staphylococcus aureus)
- Large ribosomal subunit protein ul23 (10 kDa, Protein from Staphylococcus aureus)
- Large ribosomal subunit protein ul6 (19 kDa, Protein from Staphylococcus aureus)
- Large ribosomal subunit protein bl31b (6 kDa, Protein from Staphylococcus aureus)
- Large ribosomal subunit protein ul22 (12 kDa, Protein from Staphylococcus aureus)
- 23s ribosomal rna (946 kDa, RNA from Staphylococcus aureus)
- Large ribosomal subunit protein ul18 (13 kDa, Protein from Staphylococcus aureus)
Cryo-EM structure of Staphylococcus aureus (15B196) 50S ribosome in complex with MCX-190.
Resolution: 2.53 Å
EM Method: Single-particle
Fitted PDBs: 8y37
Q-score: 0.534
Ma CX, Li Y, Liu WT, Li Y, Zhao F, Lian XT, Ding J, Liu SM, Liu XP, Fan BZ, Liu LY, Xue F, Li J, Zhang JR, Xue Z, Pei XT, Lin JZ, Liang JH
Cell Discov (2024) 10 pp. 75-75 [ DOI: doi:10.1038/s41421-024-00702-y Pubmed: 38992047 ]
- Large ribosomal subunit protein bl21 (11 kDa, Protein from Staphylococcus aureus)
- Large ribosomal subunit protein ul16 (15 kDa, Protein from Staphylococcus aureus)
- Large ribosomal subunit protein ul23 (10 kDa, Protein from Staphylococcus aureus)
- Staphylococcus aureus(15b196) 50s ribosome in complex with mcx-190. (Complex from Staphylococcus aureus)
- Large ribosomal subunit protein bl28 (6 kDa, Protein from Staphylococcus aureus)
- Large ribosomal subunit protein ul15 (15 kDa, Protein from Staphylococcus aureus)
- Large ribosomal subunit protein ul29 (7 kDa, Protein from Staphylococcus aureus)
- Large ribosomal subunit protein bl36 (4 kDa, Protein from Staphylococcus aureus)
- Water (18 Da, Ligand)
- Large ribosomal subunit protein ul13 (16 kDa, Protein from Staphylococcus aureus)
- Large ribosomal subunit protein ul22 (12 kDa, Protein from Staphylococcus aureus)
- Large ribosomal subunit protein bl27 (8 kDa, Protein from Staphylococcus aureus)
- Large ribosomal subunit protein ul30 (6 kDa, Protein from Staphylococcus aureus)
- Large ribosomal subunit protein ul5 (19 kDa, Protein from Staphylococcus aureus)
- Large ribosomal subunit protein bl17 (13 kDa, Protein from Staphylococcus aureus)
- 7-[4-[3-[[(1~{s},2~{r},5~{r},6~{s},7~{s},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-9-methoxy-1,5,7,9,11,13-hexamethyl-4,12,16-tris(oxidanylidene)-3,17-dioxa-15-azabicyclo[12.3.0]heptadecan-6-yl]oxycarbonylamino]propoxy]but-1-ynyl]-1-methyl-4-oxidanylidene-quinoline-3-carboxylic acid (969 Da, Ligand)
- Large ribosomal subunit protein bl32 (5 kDa, Protein from Staphylococcus aureus)
- Large ribosomal subunit protein ul4 (22 kDa, Protein from Staphylococcus aureus)
- 23s ribosomal rna (946 kDa, RNA from Staphylococcus aureus)
- Large ribosomal subunit protein ul14 (13 kDa, Protein from Staphylococcus aureus)
- Large ribosomal subunit protein ul24 (11 kDa, Protein from Staphylococcus aureus)
- Large ribosomal subunit protein ul18 (13 kDa, Protein from Staphylococcus aureus)
- Large ribosomal subunit protein ul6 (19 kDa, Protein from Staphylococcus aureus)
- Large ribosomal subunit protein bl35 (7 kDa, Protein from Staphylococcus aureus)
- Large ribosomal subunit protein bl19 (13 kDa, Protein from Staphylococcus aureus)
- Large ribosomal subunit protein bl31b (6 kDa, Protein from Staphylococcus aureus)
- Large ribosomal subunit protein ul3 (23 kDa, Protein from Staphylococcus aureus)
- Large ribosomal subunit protein bl34 (5 kDa, Protein from Staphylococcus aureus)
- Large ribosomal subunit protein bl33b (5 kDa, Protein from Staphylococcus aureus)
- Large ribosomal subunit protein bl20 (13 kDa, Protein from Staphylococcus aureus)
- Large ribosomal subunit protein ul2 (29 kDa, Protein from Staphylococcus aureus)
- Large ribosomal subunit protein bl25 (10 kDa, Protein from Staphylococcus aureus)
- 5s ribosomal rna (36 kDa, RNA from Staphylococcus aureus)
- Magnesium ion (24 Da, Ligand)
Cryo-EM structure of Staphylococcus aureus 70S ribosome (strain 15B196) in complex with MCX-190.
Resolution: 2.58 Å
EM Method: Single-particle
Fitted PDBs: 8y38
Q-score: 0.537
Ma CX, Li Y, Liu WT, Li Y, Zhao F, Lian XT, Ding J, Liu SM, Liu XP, Fan BZ, Liu LY, Xue F, Li J, Zhang JR, Xue Z, Pei XT, Lin JZ, Liang JH
Cell Discov (2024) 10 pp. 75-75 [ DOI: doi:10.1038/s41421-024-00702-y Pubmed: 38992047 ]
- Small ribosomal subunit protein us10 (11 kDa, Protein from Staphylococcus aureus)
- Large ribosomal subunit protein bl32 (5 kDa, Protein from Staphylococcus aureus)
- Large ribosomal subunit protein bl35 (7 kDa, Protein from Staphylococcus aureus)
- Large ribosomal subunit protein bl36 (4 kDa, Protein from Staphylococcus aureus)
- Large ribosomal subunit protein ul5 (19 kDa, Protein from Staphylococcus aureus)
- Large ribosomal subunit protein ul30 (6 kDa, Protein from Staphylococcus aureus)
- Small ribosomal subunit protein us3 (24 kDa, Protein from Staphylococcus aureus)
- Small ribosomal subunit protein us11 (13 kDa, Protein from Staphylococcus aureus)
- Large ribosomal subunit protein ul3 (23 kDa, Protein from Staphylococcus aureus)
- Large ribosomal subunit protein ul4 (22 kDa, Protein from Staphylococcus aureus)
- Small ribosomal subunit protein bs6 (11 kDa, Protein from Staphylococcus aureus)
- 7-[4-[3-[[(1~{s},2~{r},5~{r},6~{s},7~{s},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-9-methoxy-1,5,7,9,11,13-hexamethyl-4,12,16-tris(oxidanylidene)-3,17-dioxa-15-azabicyclo[12.3.0]heptadecan-6-yl]oxycarbonylamino]propoxy]but-1-ynyl]-1-methyl-4-oxidanylidene-quinoline-3-carboxylic acid (969 Da, Ligand)
- Large ribosomal subunit protein ul14 (13 kDa, Protein from Staphylococcus aureus)
- Small ribosomal subunit protein us4 (23 kDa, Protein from Staphylococcus aureus)
- Large ribosomal subunit protein ul15 (15 kDa, Protein from Staphylococcus aureus)
- Large ribosomal subunit protein bl17 (13 kDa, Protein from Staphylococcus aureus)
- Large ribosomal subunit protein ul13 (16 kDa, Protein from Staphylococcus aureus)
- Small ribosomal subunit protein us15 (10 kDa, Protein from Staphylococcus aureus)
- Small ribosomal subunit protein bs20 (9 kDa, Protein from Staphylococcus aureus)
- Large ribosomal subunit protein bl33b (5 kDa, Protein from Staphylococcus aureus)
- Large ribosomal subunit protein bl21 (11 kDa, Protein from Staphylococcus aureus)
- Large ribosomal subunit protein ul2 (29 kDa, Protein from Staphylococcus aureus)
- Large ribosomal subunit protein bl19 (13 kDa, Protein from Staphylococcus aureus)
- 23s ribosomal rna (946 kDa, RNA from Staphylococcus aureus)
- Large ribosomal subunit protein bl28 (6 kDa, Protein from Staphylococcus aureus)
- Small ribosomal subunit protein bs18 (9 kDa, Protein from Staphylococcus aureus)
- Large ribosomal subunit protein bl25 (10 kDa, Protein from Staphylococcus aureus)
- Large ribosomal subunit protein bl20 (13 kDa, Protein from Staphylococcus aureus)
- Small ribosomal subunit protein us5 (17 kDa, Protein from Staphylococcus aureus)
- Large ribosomal subunit protein ul29 (7 kDa, Protein from Staphylococcus aureus)
- Large ribosomal subunit protein bl34 (5 kDa, Protein from Staphylococcus aureus)
- Water (18 Da, Ligand)
- Large ribosomal subunit protein ul24 (11 kDa, Protein from Staphylococcus aureus)
- 5s ribosomal rna (36 kDa, RNA from Staphylococcus aureus)
- Small ribosomal subunit protein us7 (17 kDa, Protein from Staphylococcus aureus)
- Staphylococcus aureus 70s ribosome (strain 15b196) in complex with mcx-190. (Complex from Staphylococcus aureus)
- Magnesium ion (24 Da, Ligand)
- 16s ribosomal rna (500 kDa, RNA from Staphylococcus aureus)
- Large ribosomal subunit protein ul16 (15 kDa, Protein from Staphylococcus aureus)
- Large ribosomal subunit protein bl27 (8 kDa, Protein from Staphylococcus aureus)
- Large ribosomal subunit protein ul23 (10 kDa, Protein from Staphylococcus aureus)
- Large ribosomal subunit protein ul6 (19 kDa, Protein from Staphylococcus aureus)
- Small ribosomal subunit protein us13 (13 kDa, Protein from Staphylococcus aureus)
- Small ribosomal subunit protein bs16 (10 kDa, Protein from Staphylococcus aureus)
- Large ribosomal subunit protein bl31b (6 kDa, Protein from Staphylococcus aureus)
- Large ribosomal subunit protein ul22 (12 kDa, Protein from Staphylococcus aureus)
- Small ribosomal subunit protein us9 (14 kDa, Protein from Staphylococcus aureus)
- Small ribosomal subunit protein us17 (10 kDa, Protein from Staphylococcus aureus)
- Small ribosomal subunit protein us2 (26 kDa, Protein from Staphylococcus aureus)
- Small ribosomal subunit protein us14b (7 kDa, Protein from Staphylococcus aureus)
- Large ribosomal subunit protein ul18 (13 kDa, Protein from Staphylococcus aureus)
- Small ribosomal subunit protein us8 (14 kDa, Protein from Staphylococcus aureus)
- Small ribosomal subunit protein us12 (16 kDa, Protein from Staphylococcus aureus)
- Small ribosomal subunit protein us19 (12 kDa, Protein from Staphylococcus aureus)