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 bl28 (9 kDa, Protein from Escherichia coli)
- Large ribosomal subunit protein ul23 (11 kDa, Protein from Escherichia coli)
- Large ribosomal subunit protein ul4 (22 kDa, Protein from Escherichia coli)
- Large ribosomal subunit protein bl27 (9 kDa, Protein from Escherichia coli)
- Mrna (9 kDa, RNA from Escherichia coli)
- Small ribosomal subunit protein us8 (14 kDa, Protein from Escherichia coli)
- Small ribosomal subunit protein us19 (10 kDa, Protein from Escherichia coli)
- Large ribosomal subunit protein ul2 (29 kDa, Protein from Escherichia coli)
- Large ribosomal subunit protein bl20 (13 kDa, Protein from Escherichia coli)
- Small ribosomal subunit protein us12 (13 kDa, Protein from Escherichia coli)
- Large ribosomal subunit protein ul24 (11 kDa, Protein from Escherichia coli)
- Large ribosomal subunit protein bl35 (7 kDa, Protein from Escherichia coli)
- Large ribosomal subunit protein ul14 (13 kDa, Protein from Escherichia coli)
- Large ribosomal subunit protein ul15 (15 kDa, Protein from Escherichia coli)
- Trna-fmet (24 kDa, RNA from Escherichia coli)
- Escherichia coli 70s ribosome bound to fret-trna mrna (Complex from Escherichia coli)
- Small ribosomal subunit protein us7 (20 kDa, Protein from Escherichia coli)
- Large ribosomal subunit protein ul29 (7 kDa, Protein from Escherichia coli)
- Small ribosomal subunit protein bs6, fully modified isoform (15 kDa, Protein from Escherichia coli)
- Small ribosomal subunit protein bs16 (9 kDa, Protein from Escherichia coli)
- Small ribosomal subunit protein us17 (9 kDa, Protein from Escherichia coli)
- Large ribosomal subunit protein ul13 (16 kDa, Protein from Escherichia coli)
- Small ribosomal subunit protein us11 (13 kDa, Protein from Escherichia coli)
- Small ribosomal subunit protein us5 (17 kDa, Protein from Escherichia coli)
- Small ribosomal subunit protein us14 (11 kDa, Protein from Escherichia coli)
- Large ribosomal subunit protein ul5 (20 kDa, Protein from Escherichia coli)
- Large ribosomal subunit protein bl25 (10 kDa, Protein from Escherichia coli)
- 16s rrna (499 kDa, RNA from Escherichia coli)
- 50s ribosomal protein l3 (22 kDa, Protein from Escherichia coli)
- Small ribosomal subunit protein us13 (13 kDa, Protein from Escherichia coli)
- Large ribosomal subunit protein bl21 (11 kDa, Protein from Escherichia coli)
- Small ribosomal subunit protein us10 (11 kDa, Protein from Escherichia coli)
- Small ribosomal subunit protein bs18 (9 kDa, Protein from Escherichia coli)
- Small ribosomal subunit protein us3 (26 kDa, Protein from Escherichia coli)
- Large ribosomal subunit protein bl34 (5 kDa, Protein from Escherichia coli)
- Large ribosomal subunit protein ul6 (18 kDa, Protein from Escherichia coli)
- Small ribosomal subunit protein us4 (23 kDa, Protein from Escherichia coli)
- Large ribosomal subunit protein bl32 (6 kDa, Protein from Escherichia coli)
- Large ribosomal subunit protein bl36a (4 kDa, Protein from Escherichia coli)
- Large ribosomal subunit protein bl31a (7 kDa, Protein from Escherichia coli)
- Large ribosomal subunit protein bl19 (13 kDa, Protein from Escherichia coli)
- Arbekacin (552 Da, Ligand)
- 23s rrna (941 kDa, RNA from Escherichia coli)
- Small ribosomal subunit protein us2 (26 kDa, Protein from Escherichia coli)
- Small ribosomal subunit protein bs20 (9 kDa, Protein from Escherichia coli)
- Small ribosomal subunit protein us9 (14 kDa, Protein from Escherichia coli)
- Large ribosomal subunit protein ul18 (12 kDa, Protein from Escherichia coli)
- Large ribosomal subunit protein ul30 (6 kDa, Protein from Escherichia coli)
- 5s rrna (38 kDa, RNA from Escherichia coli)
- Small ribosomal subunit protein us15 (10 kDa, Protein from Escherichia coli)
- Large ribosomal subunit protein bl33 (6 kDa, Protein from Escherichia coli)
- Small ribosomal subunit protein bs21 (8 kDa, Protein from Escherichia coli)
- Large ribosomal subunit protein bl17 (14 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l16 (15 kDa, Protein from Escherichia coli)
Escherichia coli 50S subunit in complex with the antimicrobial peptide Api88 - conformation II
Resolution: 2.44 Å
EM Method: Single-particle
Fitted PDBs: 8rq0
Q-score: 0.557
Lauer SM, Reepmeyer M, Berendes O, Klepacki D, Gasse J, Gabrielli S, Grubmuller H, Bock LV, Krizsan A, Nikolay R, Spahn CMT, Hoffmann R
Nat Commun (2024) 15 pp. 3945-3945 [ DOI: doi:10.1038/s41467-024-48027-4 Pubmed: 38730238 ]
- Large ribosomal subunit protein ul15 (14 kDa, Protein from Escherichia coli)
- Api88 (Complex from Apis mellifera)
- Large ribosomal subunit (Complex from Escherichia coli)
- Large ribosomal subunit protein bl33 (5 kDa, Protein from Escherichia coli)
- Large ribosomal subunit protein bl31 (7 kDa, Protein from Escherichia coli)
- Large ribosomal subunit protein bl17 (13 kDa, Protein from Escherichia coli)
- 5s ribosomal rna (38 kDa, RNA from Escherichia coli)
- Large ribosomal subunit protein ul4 (22 kDa, Protein from Escherichia coli)
- Large ribosomal subunit protein ul3 (22 kDa, Protein from Escherichia coli)
- Large ribosomal subunit protein bl21 (11 kDa, Protein from Escherichia coli)
- Large ribosomal subunit protein ul23 (10 kDa, Protein from Escherichia coli)
- Large ribosomal subunit protein bl9 (15 kDa, Protein from Escherichia coli)
- Large ribosomal subunit protein bl25 (10 kDa, Protein from Escherichia coli)
- Large ribosomal subunit protein bl19 (13 kDa, Protein from Escherichia coli)
- Large ribosomal subunit protein ul16 (15 kDa, Protein from Escherichia coli)
- Large ribosomal subunit protein bl35 (7 kDa, Protein from Escherichia coli)
- Apidaecins type 88 (2 kDa, Protein from Apis mellifera)
- Large ribosomal subunit protein ul5 (20 kDa, Protein from Escherichia coli)
- Api88 in complex with the large ribosomal subunit - conformation ii (Complex)
- Large ribosomal subunit protein ul2 (29 kDa, Protein from Escherichia coli)
- Large ribosomal subunit protein ul13 (16 kDa, Protein from Escherichia coli)
- Large ribosomal subunit protein ul30 (6 kDa, Protein from Escherichia coli)
- 23s ribosomal rna (941 kDa, RNA from Escherichia coli)
- Large ribosomal subunit protein ul22 (12 kDa, Protein from Escherichia coli)
- Large ribosomal subunit protein ul29 (7 kDa, Protein from Escherichia coli)
- Large ribosomal subunit protein bl32 (6 kDa, Protein from Escherichia coli)
- Large ribosomal subunit protein bl36a (4 kDa, Protein from Escherichia coli)
- Large ribosomal subunit protein ul6 (18 kDa, Protein from Escherichia coli)
- Large ribosomal subunit protein bl20 (13 kDa, Protein from Escherichia coli)
- Large ribosomal subunit protein ul14 (13 kDa, Protein from Escherichia coli)
- Large ribosomal subunit protein bl27 (8 kDa, Protein from Escherichia coli)
- Large ribosomal subunit protein bl34 (5 kDa, Protein from Escherichia coli)
- Large ribosomal subunit protein ul18 (12 kDa, Protein from Escherichia coli)
- Large ribosomal subunit protein ul24 (11 kDa, Protein from Escherichia coli)
- Large ribosomal subunit protein bl28 (8 kDa, Protein from Escherichia coli)
E. coli 50S with phazolicin (PHZ) bound in exit tunnel
Resolution: 2.87 Å
EM Method: Single-particle
Fitted PDBs: 6u48
Q-score: 0.549
Travin DY, Watson ZL, Metelev M, Ward FR, Osterman IA, Khven IM, Khabibullina NF, Serebryakova M, Mergaert P, Polikanov YS, Cate JHD, Severinov K
Nat Commun (2019) 10 pp. 4563-4563 [ Pubmed: 31594941 DOI: doi:10.1038/s41467-019-12589-5 ]
- 50s ribosomal protein bl28 (8 kDa, Protein from Escherichia coli)
- 50s ribosomal protein bl9 (15 kDa, Protein from Escherichia coli)
- 50s ribosomal protein ul15 (15 kDa, Protein from Escherichia coli)
- 5s rrna (38 kDa, RNA from Escherichia coli)
- 50s ribosomal protein ul16 (15 kDa, Protein from Escherichia coli)
- 50s ribosomal protein bl21 (11 kDa, Protein from Escherichia coli)
- 50s ribosomal protein ul22 (12 kDa, Protein from Escherichia coli)
- 50s ribosomal protein bl25 (10 kDa, Protein from Escherichia coli)
- 50s ribosomal protein bl20 (13 kDa, Protein from Escherichia coli)
- 50s ribosomal protein bl33 (5 kDa, Protein from Escherichia coli)
- 50s ribosomal protein ul2 (29 kDa, Protein from Escherichia coli)
- 50s ribosomal protein ul13 (16 kDa, Protein from Escherichia coli)
- 50s ribosomal protein bl34 (5 kDa, Protein from Escherichia coli)
- 50s ribosomal protein ul30 (6 kDa, Protein from Escherichia coli)
- 50s ribosomal protein bl19 (13 kDa, Protein from Escherichia coli)
- 50s ribosomal protein ul11 (14 kDa, Protein from Escherichia coli)
- 50s ribosomal protein bl36 (4 kDa, Protein from Escherichia coli)
- 50s ribosomal protein bl27 (8 kDa, Protein from Escherichia coli)
- 50s ribosomal protein ul18 (12 kDa, Protein from Escherichia coli)
- 50s ribosomal protein ul23 (10 kDa, Protein from Escherichia coli)
- 23s rrna (941 kDa, RNA from Escherichia coli)
- 50s ribosomal protein ul5 (20 kDa, Protein from Escherichia coli)
- 50s ribosomal protein bl17 (13 kDa, Protein from Escherichia coli)
- 50s ribosomal protein bl35 (7 kDa, Protein from Escherichia coli)
- 50s ribosomal protein ul3 (22 kDa, Protein from Escherichia coli)
- 50s ribosomal protein ul14 (13 kDa, Protein from Escherichia coli)
- 50s ribosomal protein ul24 (11 kDa, Protein from Escherichia coli)
- 50s ribosomal protein bl32 (6 kDa, Protein from Escherichia coli)
- Phazolicin (Complex from Rhizobium sp. Pop5)
- 50s ribosomal protein ul4 (22 kDa, Protein from Escherichia coli)
- E. coli 50s (Complex from Escherichia coli)
- Phazolicin (2 kDa, Protein from Rhizobium sp. Pop5)
- E. coli ribosome with phazolicin in exit tunnel (Complex)
- 50s ribosomal protein ul6 (18 kDa, Protein from Escherichia coli)
- 50s ribosomal protein ul29 (7 kDa, Protein from Escherichia coli)