Cryo-EM structure of the Pyrobaculum calidifontis 70S ribosome (Composite Map)
Resolution: 2.36 Å
EM Method: Single-particle
Fitted PDBs: 9e71
Q-score: 0.614
Nissley AJ, Shulgina Y, Kivimae RW, Downing BE, Penev PI, Banfield JF, Nayak DD, Cate JHD
To Be Published
- Small ribosomal subunit protein us19 (18 kDa, Protein from Pyrobaculum calidifontis JCM 11548)
- El42 (10 kDa, Protein from Pyrobaculum calidifontis JCM 11548)
- Large ribosomal subunit protein el31 (10 kDa, Protein from Pyrobaculum calidifontis JCM 11548)
- Large ribosomal subunit protein el43 (11 kDa, Protein from Pyrobaculum calidifontis JCM 11548)
- Small ribosomal subunit protein us3 (24 kDa, Protein from Pyrobaculum calidifontis JCM 11548)
- Small ribosomal subunit protein es24 (14 kDa, Protein from Pyrobaculum calidifontis JCM 11548)
- Large ribosomal subunit protein ul2 (26 kDa, Protein from Pyrobaculum calidifontis JCM 11548)
- 16s rrna (487 kDa, RNA from Pyrobaculum calidifontis JCM 11548)
- Large ribosomal subunit protein el39 (6 kDa, Protein from Pyrobaculum calidifontis JCM 11548)
- Small ribosomal subunit protein es1 (24 kDa, Protein from Pyrobaculum calidifontis JCM 11548)
- Large ribosomal subunit protein ul5 (20 kDa, Protein from Pyrobaculum calidifontis JCM 11548)
- Spermine (202 Da, Ligand)
- Large ribosomal subunit protein ul16 (19 kDa, Protein from Pyrobaculum calidifontis JCM 11548)
- Large ribosomal subunit protein ul13 (21 kDa, Protein from Pyrobaculum calidifontis JCM 11548)
- Large ribosomal subunit protein el13 (17 kDa, Protein from Pyrobaculum calidifontis JCM 11548)
- Large ribosomal subunit protein el14 (11 kDa, Protein from Pyrobaculum calidifontis JCM 11548)
- Parep1 domain containing protein (10 kDa, Protein from Pyrobaculum calidifontis JCM 11548)
- Large ribosomal subunit protein el19 (17 kDa, Protein from Pyrobaculum calidifontis JCM 11548)
- Large ribosomal subunit protein ul4 (31 kDa, Protein from Pyrobaculum calidifontis JCM 11548)
- Large ribosomal subunit protein el21 (11 kDa, Protein from Pyrobaculum calidifontis JCM 11548)
- Large ribosomal subunit protein ul30 (20 kDa, Protein from Pyrobaculum calidifontis JCM 11548)
- Small ribosomal subunit protein us10 (12 kDa, Protein from Pyrobaculum calidifontis JCM 11548)
- Small zinc finger protein hvo-2753-like zinc-binding pocket domain-containing protein (6 kDa, Protein from Pyrobaculum calidifontis JCM 11548)
- 50s subunit (Complex from Pyrobaculum calidifontis JCM 11548)
- Large ribosomal subunit protein el37 (6 kDa, Protein from Pyrobaculum calidifontis JCM 11548)
- Small ribosomal subunit protein es8 (14 kDa, Protein from Pyrobaculum calidifontis JCM 11548)
- As35 (7 kDa, Protein from Pyrobaculum calidifontis JCM 11548)
- Large ribosomal subunit protein ul14 (15 kDa, Protein from Pyrobaculum calidifontis JCM 11548)
- Large ribosomal subunit protein ul6 (21 kDa, Protein from Pyrobaculum calidifontis JCM 11548)
- Small ribosomal subunit protein us9 (16 kDa, Protein from Pyrobaculum calidifontis JCM 11548)
- Small ribosomal subunit protein es17 (8 kDa, Protein from Pyrobaculum calidifontis JCM 11548)
- 70s ribosome (Complex from Pyrobaculum calidifontis JCM 11548)
- Ssu ribosomal protein s25e (12 kDa, Protein from Pyrobaculum calidifontis JCM 11548)
- Water (18 Da, Ligand)
- Large ribosomal subunit protein ul15 (17 kDa, Protein from Pyrobaculum calidifontis JCM 11548)
- Large ribosomal subunit protein el20 (8 kDa, Protein from Pyrobaculum calidifontis JCM 11548)
- Large ribosomal subunit protein ul3 (37 kDa, Protein from Pyrobaculum calidifontis JCM 11548)
- Large ribosomal subunit protein ul29 (9 kDa, Protein from Pyrobaculum calidifontis JCM 11548)
- Large ribosomal subunit protein ul24 (14 kDa, Protein from Pyrobaculum calidifontis JCM 11548)
- Large ribosomal subunit protein el34 (9 kDa, Protein from Pyrobaculum calidifontis JCM 11548)
- Large ribosomal subunit protein el40 (6 kDa, Protein from Pyrobaculum calidifontis JCM 11548)
- Small ribosomal subunit protein us5 (22 kDa, Protein from Pyrobaculum calidifontis JCM 11548)
- Es28 (8 kDa, Protein from Pyrobaculum calidifontis JCM 11548)
- Ssu ribosomal protein s26e (11 kDa, Protein from Pyrobaculum calidifontis JCM 11548)
- Zinc ion (65 Da, Ligand)
- Small ribosomal subunit protein es6 (16 kDa, Protein from Pyrobaculum calidifontis JCM 11548)
- Small ribosomal subunit protein us17 (16 kDa, Protein from Pyrobaculum calidifontis JCM 11548)
- Ssu ribosomal protein s30e (6 kDa, Protein from Pyrobaculum calidifontis JCM 11548)
- Magnesium ion (24 Da, Ligand)
- Dj-1/pfpi domain-containing protein (20 kDa, Protein from Pyrobaculum calidifontis JCM 11548)
- Large ribosomal subunit protein ul18 (23 kDa, Protein from Pyrobaculum calidifontis JCM 11548)
- Small ribosomal subunit protein us2 (23 kDa, Protein from Pyrobaculum calidifontis JCM 11548)
- Large ribosomal subunit protein el32 (18 kDa, Protein from Pyrobaculum calidifontis JCM 11548)
- Lsu ribosomal protein l38e (7 kDa, Protein from Pyrobaculum calidifontis JCM 11548)
- Large ribosomal subunit protein ul22 (21 kDa, Protein from Pyrobaculum calidifontis JCM 11548)
- Small ribosomal subunit protein us7 (25 kDa, Protein from Pyrobaculum calidifontis JCM 11548)
- 5s rrna (41 kDa, RNA from Pyrobaculum calidifontis JCM 11548)
- Large ribosomal subunit protein el8 (16 kDa, Protein from Pyrobaculum calidifontis JCM 11548)
- 30s subunit (Complex from Pyrobaculum calidifontis JCM 11548)
- Small ribosomal subunit protein es4 (26 kDa, Protein from Pyrobaculum calidifontis JCM 11548)
- Small ribosomal subunit protein es19 (17 kDa, Protein from Pyrobaculum calidifontis JCM 11548)
- 23s rrna (984 kDa, RNA from Pyrobaculum calidifontis JCM 11548)
- Small ribosomal subunit protein us15 (17 kDa, Protein from Pyrobaculum calidifontis JCM 11548)
- Large ribosomal subunit protein el30 (10 kDa, Protein from Pyrobaculum calidifontis JCM 11548)
- Small ribosomal subunit protein us4 (18 kDa, Protein from Pyrobaculum calidifontis JCM 11548)
- Small ribosomal subunit protein us8 (14 kDa, Protein from Pyrobaculum calidifontis JCM 11548)
- Small ribosomal subunit protein es27 (7 kDa, Protein from Pyrobaculum calidifontis JCM 11548)
- Large ribosomal subunit protein el24 (7 kDa, Protein from Pyrobaculum calidifontis JCM 11548)
- Large ribosomal subunit protein ul23 (9 kDa, Protein from Pyrobaculum calidifontis JCM 11548)
- Large ribosomal subunit protein el18 (13 kDa, Protein from Pyrobaculum calidifontis JCM 11548)
- Small ribosomal subunit protein us13 (16 kDa, Protein from Pyrobaculum calidifontis JCM 11548)
- Small ribosomal subunit protein us11 (14 kDa, Protein from Pyrobaculum calidifontis JCM 11548)
- 50s ribosomal protein l15e (22 kDa, Protein from Pyrobaculum calidifontis JCM 11548)
- Small ribosomal subunit protein us12 (16 kDa, Protein from Pyrobaculum calidifontis JCM 11548)
- Small ribosomal subunit protein us14 (6 kDa, Protein from Pyrobaculum calidifontis JCM 11548)
Cryo-EM structure of the Pyrobaculum calidifontis 70S ribosome in complex with Dri (Composite Map)
Resolution: 2.53 Å
EM Method: Single-particle
Fitted PDBs: 9e7f
Q-score: 0.603
Nissley AJ, Shulgina Y, Kivimae RW, Downing BE, Penev PI, Banfield JF, Nayak DD, Cate JHD
To Be Published
- Small ribosomal subunit protein us19 (18 kDa, Protein from Pyrobaculum calidifontis JCM 11548)
- El42 (10 kDa, Protein from Pyrobaculum calidifontis JCM 11548)
- Large ribosomal subunit protein el31 (10 kDa, Protein from Pyrobaculum calidifontis JCM 11548)
- Large ribosomal subunit protein el43 (11 kDa, Protein from Pyrobaculum calidifontis JCM 11548)
- Small ribosomal subunit protein us3 (24 kDa, Protein from Pyrobaculum calidifontis JCM 11548)
- Small ribosomal subunit protein es24 (14 kDa, Protein from Pyrobaculum calidifontis JCM 11548)
- Large ribosomal subunit protein ul2 (26 kDa, Protein from Pyrobaculum calidifontis JCM 11548)
- 16s rrna (487 kDa, RNA from Pyrobaculum calidifontis JCM 11548)
- Putative signal-transduction protein with cbs domains (72 kDa, Protein from Pyrobaculum calidifontis JCM 11548)
- Large ribosomal subunit protein el39 (6 kDa, Protein from Pyrobaculum calidifontis JCM 11548)
- Large ribosomal subunit protein ul5 (20 kDa, Protein from Pyrobaculum calidifontis JCM 11548)
- Small ribosomal subunit protein es1 (24 kDa, Protein from Pyrobaculum calidifontis JCM 11548)
- Spermine (202 Da, Ligand)
- Large ribosomal subunit protein ul16 (19 kDa, Protein from Pyrobaculum calidifontis JCM 11548)
- Large ribosomal subunit protein ul13 (21 kDa, Protein from Pyrobaculum calidifontis JCM 11548)
- Large ribosomal subunit protein el13 (17 kDa, Protein from Pyrobaculum calidifontis JCM 11548)
- Large ribosomal subunit protein el14 (11 kDa, Protein from Pyrobaculum calidifontis JCM 11548)
- Parep1 domain containing protein (10 kDa, Protein from Pyrobaculum calidifontis JCM 11548)
- Large ribosomal subunit protein el19 (17 kDa, Protein from Pyrobaculum calidifontis JCM 11548)
- Large ribosomal subunit protein ul4 (31 kDa, Protein from Pyrobaculum calidifontis JCM 11548)
- Large ribosomal subunit protein el21 (11 kDa, Protein from Pyrobaculum calidifontis JCM 11548)
- Large ribosomal subunit protein ul30 (20 kDa, Protein from Pyrobaculum calidifontis JCM 11548)
- Small ribosomal subunit protein us10 (12 kDa, Protein from Pyrobaculum calidifontis JCM 11548)
- Small zinc finger protein hvo-2753-like zinc-binding pocket domain-containing protein (6 kDa, Protein from Pyrobaculum calidifontis JCM 11548)
- 50s subunit (Complex from Pyrobaculum calidifontis JCM 11548)
- Large ribosomal subunit protein el37 (6 kDa, Protein from Pyrobaculum calidifontis JCM 11548)
- Small ribosomal subunit protein es8 (14 kDa, Protein from Pyrobaculum calidifontis JCM 11548)
- As35 (7 kDa, Protein from Pyrobaculum calidifontis JCM 11548)
- Large ribosomal subunit protein ul14 (15 kDa, Protein from Pyrobaculum calidifontis JCM 11548)
- Large ribosomal subunit protein ul6 (21 kDa, Protein from Pyrobaculum calidifontis JCM 11548)
- Small ribosomal subunit protein us9 (16 kDa, Protein from Pyrobaculum calidifontis JCM 11548)
- Small ribosomal subunit protein es17 (8 kDa, Protein from Pyrobaculum calidifontis JCM 11548)
- 70s ribosome (Complex from Pyrobaculum calidifontis JCM 11548)
- Ssu ribosomal protein s25e (12 kDa, Protein from Pyrobaculum calidifontis JCM 11548)
- Water (18 Da, Ligand)
- Large ribosomal subunit protein ul15 (17 kDa, Protein from Pyrobaculum calidifontis JCM 11548)
- Large ribosomal subunit protein el20 (8 kDa, Protein from Pyrobaculum calidifontis JCM 11548)
- Large ribosomal subunit protein ul3 (37 kDa, Protein from Pyrobaculum calidifontis JCM 11548)
- Large ribosomal subunit protein ul29 (9 kDa, Protein from Pyrobaculum calidifontis JCM 11548)
- Large ribosomal subunit protein ul24 (14 kDa, Protein from Pyrobaculum calidifontis JCM 11548)
- Large ribosomal subunit protein el34 (9 kDa, Protein from Pyrobaculum calidifontis JCM 11548)
- Large ribosomal subunit protein el40 (6 kDa, Protein from Pyrobaculum calidifontis JCM 11548)
- Small ribosomal subunit protein us5 (22 kDa, Protein from Pyrobaculum calidifontis JCM 11548)
- Zinc ion (65 Da, Ligand)
- Ssu ribosomal protein s26e (11 kDa, Protein from Pyrobaculum calidifontis JCM 11548)
- Small ribosomal subunit protein es6 (16 kDa, Protein from Pyrobaculum calidifontis JCM 11548)
- Small ribosomal subunit protein us17 (16 kDa, Protein from Pyrobaculum calidifontis JCM 11548)
- Ssu ribosomal protein s30e (6 kDa, Protein from Pyrobaculum calidifontis JCM 11548)
- Magnesium ion (24 Da, Ligand)
- Dj-1/pfpi domain-containing protein (20 kDa, Protein from Pyrobaculum calidifontis JCM 11548)
- Large ribosomal subunit protein ul18 (23 kDa, Protein from Pyrobaculum calidifontis JCM 11548)
- Small ribosomal subunit protein us2 (23 kDa, Protein from Pyrobaculum calidifontis JCM 11548)
- Large ribosomal subunit protein el32 (18 kDa, Protein from Pyrobaculum calidifontis JCM 11548)
- Lsu ribosomal protein l38e (7 kDa, Protein from Pyrobaculum calidifontis JCM 11548)
- Large ribosomal subunit protein ul22 (21 kDa, Protein from Pyrobaculum calidifontis JCM 11548)
- Small ribosomal subunit protein us7 (25 kDa, Protein from Pyrobaculum calidifontis JCM 11548)
- 5s rrna (41 kDa, RNA from Pyrobaculum calidifontis JCM 11548)
- Large ribosomal subunit protein el8 (16 kDa, Protein from Pyrobaculum calidifontis JCM 11548)
- 30s subunit (Complex from Pyrobaculum calidifontis JCM 11548)
- Small ribosomal subunit protein es4 (26 kDa, Protein from Pyrobaculum calidifontis JCM 11548)
- Small ribosomal subunit protein es19 (17 kDa, Protein from Pyrobaculum calidifontis JCM 11548)
- 23s rrna (984 kDa, RNA from Pyrobaculum calidifontis JCM 11548)
- Small ribosomal subunit protein us15 (17 kDa, Protein from Pyrobaculum calidifontis JCM 11548)
- Large ribosomal subunit protein el30 (10 kDa, Protein from Pyrobaculum calidifontis JCM 11548)
- Small ribosomal subunit protein us4 (18 kDa, Protein from Pyrobaculum calidifontis JCM 11548)
- Small ribosomal subunit protein us8 (14 kDa, Protein from Pyrobaculum calidifontis JCM 11548)
- Small ribosomal subunit protein es27 (7 kDa, Protein from Pyrobaculum calidifontis JCM 11548)
- Large ribosomal subunit protein el24 (7 kDa, Protein from Pyrobaculum calidifontis JCM 11548)
- Large ribosomal subunit protein ul23 (9 kDa, Protein from Pyrobaculum calidifontis JCM 11548)
- Large ribosomal subunit protein el18 (13 kDa, Protein from Pyrobaculum calidifontis JCM 11548)
- Small ribosomal subunit protein es28 (8 kDa, Protein from Pyrobaculum calidifontis JCM 11548)
- Small ribosomal subunit protein us13 (16 kDa, Protein from Pyrobaculum calidifontis JCM 11548)
- Small ribosomal subunit protein us11 (14 kDa, Protein from Pyrobaculum calidifontis JCM 11548)
- 50s ribosomal protein l15e (22 kDa, Protein from Pyrobaculum calidifontis JCM 11548)
- Small ribosomal subunit protein us12 (16 kDa, Protein from Pyrobaculum calidifontis JCM 11548)
- Small ribosomal subunit protein us14 (6 kDa, Protein from Pyrobaculum calidifontis JCM 11548)
E. coli 70S ribosome complexed with P. putida tRNAIle2 at the A-site and P-site
Resolution: 2.25 Å
EM Method: Single-particle
Fitted PDBs: 8yuo
Q-score: 0.648
Miyauchi K, Kimura S, Akiyama N, Inoue K, Ishiguro K, Vu TS, Srisuknimit V, Koyama K, Hayashi G, Soma A, Nagao A, Shirouzu M, Okamoto A, Waldor MK, Suzuki T
Nat Chem Biol (2024) [ Pubmed: 39300229 DOI: doi:10.1038/s41589-024-01726-x ]
- The complex of e. coli 70s ribosome with mrna and a-, p- site trna (Complex)
- 50s ribosomal protein l17 (14 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l5 (20 kDa, Protein from Escherichia coli)
- 30s ribosomal protein s11 (13 kDa, Protein from Escherichia coli)
- 30s ribosomal protein s17 (9 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l16 (15 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l13 (16 kDa, Protein from Escherichia coli)
- 23s rrna (941 kDa, RNA from Escherichia coli)
- 50s ribosomal protein l15 (15 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l19 (13 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l6 (18 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l24 (11 kDa, Protein from Escherichia coli)
- 30s ribosomal protein s20 (9 kDa, Protein from Escherichia coli)
- 30s ribosomal protein s8 (14 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l31 (7 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l29 (7 kDa, Protein from Escherichia coli)
- 30s ribosomal protein s13 (13 kDa, Protein from Escherichia coli)
- 30s ribosomal protein s19 (10 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l3 (22 kDa, Protein from Escherichia coli)
- A-site trnaile2 (25 kDa, RNA from Pseudomonas putida NBRC 14164)
- 50s ribosomal protein l22 (12 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l4 (22 kDa, Protein from Escherichia coli)
- 5s rrna (38 kDa, RNA from Escherichia coli)
- 30s ribosomal protein s2 (26 kDa, Protein from Escherichia coli)
- Mrna (Complex)
- 30s ribosomal protein s21 (8 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l2 (29 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l25 (10 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l33 (6 kDa, Protein from Escherichia coli)
- 16s rrna (499 kDa, RNA from Escherichia coli)
- 50s ribosomal protein l20 (13 kDa, Protein from Escherichia coli)
- Magnesium ion (24 Da, Ligand)
- Mrna (15 kDa, RNA from Escherichia coli)
- 30s ribosomal protein s4 (23 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l14 (13 kDa, Protein from Escherichia coli)
- 30s ribosomal protein s18 (9 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l18 (12 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l27 (9 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l28 (9 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l30 (6 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l32 (6 kDa, Protein from Escherichia coli)
- 30s ribosomal protein s9 (14 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l34 (5 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l35 (7 kDa, Protein from Escherichia coli)
- A-site trnaile2 (Complex from Pseudomonas putida NBRC 14164)
- 50s ribosomal protein l36 (4 kDa, Protein from Escherichia coli)
- 30s ribosomal protein s7 (20 kDa, Protein from Escherichia coli)
- 30s ribosomal protein s12 (13 kDa, Protein from Escherichia coli)
- 30s ribosomal protein s10 (11 kDa, Protein from Escherichia coli)
- 30s ribosomal protein s5 (17 kDa, Protein from Escherichia coli)
- E. coli 70s ribosome (Complex from Escherichia coli)
- 30s ribosomal protein s14 (11 kDa, Protein from Escherichia coli)
- 30s ribosomal protein s16 (9 kDa, Protein from Escherichia coli)
- 30s ribosomal protein s15 (10 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l21 (11 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l9 (15 kDa, Protein from Escherichia coli)
- 30s ribosomal protein s6, fully modified isoform (15 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l23 (11 kDa, Protein from Escherichia coli)
- 30s ribosomal protein s3 (26 kDa, Protein from Escherichia coli)
E. coli 70S ribosome complexed with P. putida tRNAIle2 and A4 mRNA
Resolution: 2.39 Å
EM Method: Single-particle
Fitted PDBs: 8yup
Q-score: 0.651
Miyauchi K, Kimura S, Akiyama N, Inoue K, Ishiguro K, Vu TS, Srisuknimit V, Koyama K, Hayashi G, Soma A, Nagao A, Shirouzu M, Okamoto A, Waldor MK, Suzuki T
Nat Chem Biol (2024) [ Pubmed: 39300229 DOI: doi:10.1038/s41589-024-01726-x ]
- The complex of e. coli 70s ribosome with mrna and a-, p- site trna (Complex)
- 50s ribosomal protein l17 (14 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l5 (20 kDa, Protein from Escherichia coli)
- 30s ribosomal protein s11 (13 kDa, Protein from Escherichia coli)
- 30s ribosomal protein s17 (9 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l16 (15 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l13 (16 kDa, Protein from Escherichia coli)
- 23s rrna (941 kDa, RNA from Escherichia coli)
- 50s ribosomal protein l15 (15 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l19 (13 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l6 (18 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l24 (11 kDa, Protein from Escherichia coli)
- 30s ribosomal protein s20 (9 kDa, Protein from Escherichia coli)
- 30s ribosomal protein s8 (14 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l31 (7 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l29 (7 kDa, Protein from Escherichia coli)
- 30s ribosomal protein s13 (13 kDa, Protein from Escherichia coli)
- 30s ribosomal protein s19 (10 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l3 (22 kDa, Protein from Escherichia coli)
- A-site trnaile2 (25 kDa, RNA from Pseudomonas putida NBRC 14164)
- 50s ribosomal protein l22 (12 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l4 (22 kDa, Protein from Escherichia coli)
- 5s rrna (38 kDa, RNA from Escherichia coli)
- 30s ribosomal protein s2 (26 kDa, Protein from Escherichia coli)
- Mrna (Complex)
- 30s ribosomal protein s21 (8 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l2 (29 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l25 (10 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l33 (6 kDa, Protein from Escherichia coli)
- 16s rrna (499 kDa, RNA from Escherichia coli)
- 50s ribosomal protein l20 (13 kDa, Protein from Escherichia coli)
- Magnesium ion (24 Da, Ligand)
- 30s ribosomal protein s4 (23 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l14 (13 kDa, Protein from Escherichia coli)
- 30s ribosomal protein s18 (9 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l18 (12 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l27 (9 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l28 (9 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l30 (6 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l32 (6 kDa, Protein from Escherichia coli)
- 30s ribosomal protein s9 (14 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l34 (5 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l35 (7 kDa, Protein from Escherichia coli)
- A-site trnaile2 (Complex from Pseudomonas putida NBRC 14164)
- 50s ribosomal protein l36 (4 kDa, Protein from Escherichia coli)
- 30s ribosomal protein s7 (20 kDa, Protein from Escherichia coli)
- 30s ribosomal protein s12 (13 kDa, Protein from Escherichia coli)
- 30s ribosomal protein s10 (11 kDa, Protein from Escherichia coli)
- P-site trnaglu (24 kDa, RNA from Escherichia coli BW25113)
- 30s ribosomal protein s5 (17 kDa, Protein from Escherichia coli)
- E. coli 70s ribosome (Complex from Escherichia coli)
- 30s ribosomal protein s14 (11 kDa, Protein from Escherichia coli)
- 30s ribosomal protein s16 (9 kDa, Protein from Escherichia coli)
- Mrna (11 kDa, RNA from Escherichia coli)
- 30s ribosomal protein s15 (10 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l21 (11 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l9 (15 kDa, Protein from Escherichia coli)
- 30s ribosomal protein s6, fully modified isoform (15 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l23 (11 kDa, Protein from Escherichia coli)
- P-site trnaglu (Complex from Escherichia coli BW25113)
- 30s ribosomal protein s3 (26 kDa, Protein from Escherichia coli)
E. coli 70S ribosome complexed with P. putida tRNAIle2 and dA4 mRNA
Resolution: 2.41 Å
EM Method: Single-particle
Fitted PDBs: 8yuq
Q-score: 0.651
Miyauchi K, Kimura S, Akiyama N, Inoue K, Ishiguro K, Vu TS, Srisuknimit V, Koyama K, Hayashi G, Soma A, Nagao A, Shirouzu M, Okamoto A, Waldor MK, Suzuki T
Nat Chem Biol (2024) [ Pubmed: 39300229 DOI: doi:10.1038/s41589-024-01726-x ]
- The complex of e. coli 70s ribosome with mrna and a-, p- site trna (Complex)
- 50s ribosomal protein l17 (14 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l5 (20 kDa, Protein from Escherichia coli)
- 30s ribosomal protein s11 (13 kDa, Protein from Escherichia coli)
- 30s ribosomal protein s17 (9 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l16 (15 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l13 (16 kDa, Protein from Escherichia coli)
- 23s rrna (941 kDa, RNA from Escherichia coli)
- Mrna (11 kDa, RNA from Escherichia coli)
- 50s ribosomal protein l15 (15 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l19 (13 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l6 (18 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l24 (11 kDa, Protein from Escherichia coli)
- 30s ribosomal protein s20 (9 kDa, Protein from Escherichia coli)
- 30s ribosomal protein s8 (14 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l31 (7 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l29 (7 kDa, Protein from Escherichia coli)
- 30s ribosomal protein s13 (13 kDa, Protein from Escherichia coli)
- 30s ribosomal protein s19 (10 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l3 (22 kDa, Protein from Escherichia coli)
- A-site trnaile2 (25 kDa, RNA from Pseudomonas putida NBRC 14164)
- 50s ribosomal protein l22 (12 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l4 (22 kDa, Protein from Escherichia coli)
- 5s rrna (38 kDa, RNA from Escherichia coli)
- 30s ribosomal protein s2 (26 kDa, Protein from Escherichia coli)
- Mrna (Complex)
- 30s ribosomal protein s21 (8 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l2 (29 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l25 (10 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l33 (6 kDa, Protein from Escherichia coli)
- P-site trnaglu (Complex from Pseudomonas putida NBRC 14164)
- 16s rrna (499 kDa, RNA from Escherichia coli)
- 50s ribosomal protein l20 (13 kDa, Protein from Escherichia coli)
- Magnesium ion (24 Da, Ligand)
- 30s ribosomal protein s4 (23 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l14 (13 kDa, Protein from Escherichia coli)
- 30s ribosomal protein s18 (9 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l18 (12 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l27 (9 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l28 (9 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l30 (6 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l32 (6 kDa, Protein from Escherichia coli)
- 30s ribosomal protein s9 (14 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l34 (5 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l35 (7 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l36 (4 kDa, Protein from Escherichia coli)
- 30s ribosomal protein s7 (20 kDa, Protein from Escherichia coli)
- 30s ribosomal protein s12 (13 kDa, Protein from Escherichia coli)
- 30s ribosomal protein s10 (11 kDa, Protein from Escherichia coli)
- P-site trnaglu (24 kDa, RNA from Escherichia coli BW25113)
- 30s ribosomal protein s5 (17 kDa, Protein from Escherichia coli)
- E. coli 70s ribosome (Complex from Escherichia coli)
- 30s ribosomal protein s14 (11 kDa, Protein from Escherichia coli)
- 30s ribosomal protein s16 (9 kDa, Protein from Escherichia coli)
- 30s ribosomal protein s15 (10 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l21 (11 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l9 (15 kDa, Protein from Escherichia coli)
- 30s ribosomal protein s6, fully modified isoform (15 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l23 (11 kDa, Protein from Escherichia coli)
- 30s ribosomal protein s3 (26 kDa, Protein from Escherichia coli)
E. coli 70S ribosome complexed with P. putida tRNAIle2 and Am4 mRNA
Resolution: 2.47 Å
EM Method: Single-particle
Fitted PDBs: 8yur
Q-score: 0.624
Miyauchi K, Kimura S, Akiyama N, Inoue K, Ishiguro K, Vu TS, Srisuknimit V, Koyama K, Hayashi G, Soma A, Nagao A, Shirouzu M, Okamoto A, Waldor MK, Suzuki T
Nat Chem Biol (2024) [ Pubmed: 39300229 DOI: doi:10.1038/s41589-024-01726-x ]
- P-site trna (Complex from Escherichia coli BW25113)
- The complex of e. coli 70s ribosome with mrna and a-, p- site trna (Complex)
- 50s ribosomal protein l17 (14 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l5 (20 kDa, Protein from Escherichia coli)
- 30s ribosomal protein s11 (13 kDa, Protein from Escherichia coli)
- 30s ribosomal protein s17 (9 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l16 (15 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l13 (16 kDa, Protein from Escherichia coli)
- 23s rrna (941 kDa, RNA from Escherichia coli)
- 50s ribosomal protein l15 (15 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l19 (13 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l6 (18 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l24 (11 kDa, Protein from Escherichia coli)
- 30s ribosomal protein s20 (9 kDa, Protein from Escherichia coli)
- 30s ribosomal protein s8 (14 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l31 (7 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l29 (7 kDa, Protein from Escherichia coli)
- 30s ribosomal protein s13 (13 kDa, Protein from Escherichia coli)
- 30s ribosomal protein s19 (10 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l3 (22 kDa, Protein from Escherichia coli)
- A-site trnaile2 (25 kDa, RNA from Pseudomonas putida NBRC 14164)
- 50s ribosomal protein l22 (12 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l4 (22 kDa, Protein from Escherichia coli)
- 5s rrna (38 kDa, RNA from Escherichia coli)
- 30s ribosomal protein s2 (26 kDa, Protein from Escherichia coli)
- Mrna (Complex)
- 30s ribosomal protein s21 (8 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l2 (29 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l25 (10 kDa, Protein from Escherichia coli)
- Mrna (11 kDa, RNA from Escherichia coli)
- 50s ribosomal protein l33 (6 kDa, Protein from Escherichia coli)
- 16s rrna (499 kDa, RNA from Escherichia coli)
- 50s ribosomal protein l20 (13 kDa, Protein from Escherichia coli)
- Magnesium ion (24 Da, Ligand)
- A-site trna (Complex from Pseudomonas putida NBRC 14164)
- 30s ribosomal protein s4 (23 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l14 (13 kDa, Protein from Escherichia coli)
- 30s ribosomal protein s18 (9 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l18 (12 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l27 (9 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l28 (9 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l30 (6 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l32 (6 kDa, Protein from Escherichia coli)
- 30s ribosomal protein s9 (14 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l34 (5 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l35 (7 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l36 (4 kDa, Protein from Escherichia coli)
- 30s ribosomal protein s7 (20 kDa, Protein from Escherichia coli)
- 30s ribosomal protein s12 (13 kDa, Protein from Escherichia coli)
- 30s ribosomal protein s10 (11 kDa, Protein from Escherichia coli)
- P-site trnaglu (24 kDa, RNA from Escherichia coli BW25113)
- 30s ribosomal protein s5 (17 kDa, Protein from Escherichia coli)
- E. coli 70s ribosome (Complex from Escherichia coli)
- 30s ribosomal protein s14 (11 kDa, Protein from Escherichia coli)
- 30s ribosomal protein s16 (9 kDa, Protein from Escherichia coli)
- 30s ribosomal protein s15 (10 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l21 (11 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l9 (15 kDa, Protein from Escherichia coli)
- 30s ribosomal protein s6, fully modified isoform (15 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l23 (11 kDa, Protein from Escherichia coli)
- 30s ribosomal protein s3 (26 kDa, Protein from Escherichia coli)
E. coli 70S ribosome complexed with P.putida tRNAIle2 and A(F)4 mRNA
Resolution: 2.43 Å
EM Method: Single-particle
Fitted PDBs: 8yus
Q-score: 0.638
Miyauchi K, Kimura S, Akiyama N, Inoue K, Ishiguro K, Vu TS, Srisuknimit V, Koyama K, Hayashi G, Soma A, Nagao A, Shirouzu M, Okamoto A, Waldor MK, Suzuki T
Nat Chem Biol (2024) [ Pubmed: 39300229 DOI: doi:10.1038/s41589-024-01726-x ]
- The complex of e. coli 70s ribosome with mrna and a-, p- site trna (Complex)
- 50s ribosomal protein l17 (14 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l5 (20 kDa, Protein from Escherichia coli)
- 30s ribosomal protein s11 (13 kDa, Protein from Escherichia coli)
- 30s ribosomal protein s17 (9 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l16 (15 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l13 (16 kDa, Protein from Escherichia coli)
- 23s rrna (941 kDa, RNA from Escherichia coli)
- 50s ribosomal protein l15 (15 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l19 (13 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l6 (18 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l24 (11 kDa, Protein from Escherichia coli)
- 30s ribosomal protein s20 (9 kDa, Protein from Escherichia coli)
- 30s ribosomal protein s8 (14 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l31 (7 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l29 (7 kDa, Protein from Escherichia coli)
- 30s ribosomal protein s13 (13 kDa, Protein from Escherichia coli)
- 30s ribosomal protein s19 (10 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l3 (22 kDa, Protein from Escherichia coli)
- A-site trnaile2 (25 kDa, RNA from Pseudomonas putida NBRC 14164)
- 50s ribosomal protein l22 (12 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l4 (22 kDa, Protein from Escherichia coli)
- 5s rrna (38 kDa, RNA from Escherichia coli)
- 30s ribosomal protein s2 (26 kDa, Protein from Escherichia coli)
- Mrna (Complex)
- 30s ribosomal protein s21 (8 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l2 (29 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l25 (10 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l33 (6 kDa, Protein from Escherichia coli)
- Mrna (11 kDa, RNA from Escherichia coli)
- 16s rrna (499 kDa, RNA from Escherichia coli)
- 50s ribosomal protein l20 (13 kDa, Protein from Escherichia coli)
- Magnesium ion (24 Da, Ligand)
- 30s ribosomal protein s4 (23 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l14 (13 kDa, Protein from Escherichia coli)
- 30s ribosomal protein s18 (9 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l18 (12 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l27 (9 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l28 (9 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l30 (6 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l32 (6 kDa, Protein from Escherichia coli)
- 30s ribosomal protein s9 (14 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l34 (5 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l35 (7 kDa, Protein from Escherichia coli)
- A-site trnaile2 (Complex from Pseudomonas putida NBRC 14164)
- 50s ribosomal protein l36 (4 kDa, Protein from Escherichia coli)
- 30s ribosomal protein s7 (20 kDa, Protein from Escherichia coli)
- 30s ribosomal protein s12 (13 kDa, Protein from Escherichia coli)
- 30s ribosomal protein s10 (11 kDa, Protein from Escherichia coli)
- P-site trnaglu (24 kDa, RNA from Escherichia coli BW25113)
- 30s ribosomal protein s5 (17 kDa, Protein from Escherichia coli)
- E. coli 70s ribosome (Complex from Escherichia coli)
- 30s ribosomal protein s14 (11 kDa, Protein from Escherichia coli)
- 30s ribosomal protein s16 (9 kDa, Protein from Escherichia coli)
- 30s ribosomal protein s15 (10 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l21 (11 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l9 (15 kDa, Protein from Escherichia coli)
- 30s ribosomal protein s6, fully modified isoform (15 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l23 (11 kDa, Protein from Escherichia coli)
- P-site trnaglu (Complex from Escherichia coli BW25113)
- 30s ribosomal protein s3 (26 kDa, Protein from Escherichia coli)
E167K RF2 on E. coli 70S release complex with UAA
Resolution: 2.77 Å
EM Method: Single-particle
Fitted PDBs: 8qk7
Q-score: 0.568
Pundir S, Larsson DSD, Selmer M, Sanyal S
To Be Published
- 50s ribosomal protein l17 (14 kDa, Protein from Escherichia coli)
- 1,4-diaminobutane (88 Da, Ligand)
- 23s rrna (941 kDa, RNA from Escherichia coli)
- Spermine (202 Da, Ligand)
- Small ribosomal subunit protein us19 (10 kDa, Protein from Escherichia coli)
- Large ribosomal subunit protein ul11 (14 kDa, Protein from Escherichia coli)
- Peptide chain release factor rf2 (41 kDa, Protein from Escherichia coli K-12)
- Small ribosomal subunit protein bs18 (9 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l15 (15 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l19 (13 kDa, Protein from Escherichia coli)
- Small ribosomal subunit protein us10 (11 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l24 (11 kDa, Protein from Escherichia coli)
- Small ribosomal subunit protein us17 (9 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l29 (7 kDa, Protein from Escherichia coli)
- Small ribosomal subunit protein bs21 (8 kDa, Protein from Escherichia coli)
- Small ribosomal subunit protein us4 (23 kDa, Protein from Escherichia coli)
- Small ribosomal subunit protein us11 (13 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l22 (12 kDa, Protein from Escherichia coli)
- Small ribosomal subunit protein bs6, fully modified isoform (15 kDa, Protein from Escherichia coli)
- 5s rrna (38 kDa, RNA from Escherichia coli)
- Mrna (15 kDa, RNA from Escherichia coli)
- Large ribosomal subunit protein ul6 (18 kDa, Protein from Escherichia coli)
- Small ribosomal subunit protein us7 (20 kDa, Protein from Escherichia coli)
- Trna(fmet) (24 kDa, RNA from Escherichia coli)
- Zinc ion (65 Da, Ligand)
- 50s ribosomal protein l25 (10 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l33 (6 kDa, Protein from Escherichia coli)
- 16s rrna (499 kDa, RNA from Escherichia coli)
- Large ribosomal subunit protein ul5 (20 kDa, Protein from Escherichia coli)
- Small ribosomal subunit protein us3 (26 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l20 (13 kDa, Protein from Escherichia coli)
- Magnesium ion (24 Da, Ligand)
- Large ribosomal subunit protein bl9 (15 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l27 (9 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l14 (13 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l18 (12 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l28 (9 kDa, Protein from Escherichia coli)
- Small ribosomal subunit protein us8 (14 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l30 (6 kDa, Protein from Escherichia coli)
- Small ribosomal subunit protein us2 (26 kDa, Protein 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 l35 (7 kDa, Protein from Escherichia coli)
- Large ribosomal subunit protein bl31a (7 kDa, Protein from Escherichia coli)
- Potassium ion (39 Da, Ligand)
- Small ribosomal subunit protein us13 (13 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)
- Large ribosomal subunit protein ul3 (22 kDa, Protein from Escherichia coli)
- Large ribosomal subunit protein ul16 (15 kDa, Protein from Escherichia coli)
- Small ribosomal subunit protein bs16 (9 kDa, Protein from Escherichia coli)
- Small ribosomal subunit protein bs20 (9 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l36 (4 kDa, Protein from Escherichia coli)
- Spermidine (145 Da, Ligand)
- Large ribosomal subunit protein ul13 (16 kDa, Protein from Escherichia coli)
- Large ribosomal subunit protein ul4 (22 kDa, Protein from Escherichia coli)
- Small ribosomal subunit protein us14 (11 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l21 (11 kDa, Protein from Escherichia coli)
- Large ribosomal subunit protein ul2 (29 kDa, Protein from Escherichia coli)
- Small ribosomal subunit protein us9 (14 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l23 (11 kDa, Protein from Escherichia coli)
- Small ribosomal subunit protein us15 (10 kDa, Protein from Escherichia coli)
- Ribosome release complex (2 MDa, Complex from Escherichia coli)
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 ul18 (12 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l3 (22 kDa, Protein from Escherichia coli)
- Large ribosomal subunit protein bl34 (5 kDa, Protein from Escherichia coli)
- Large ribosomal subunit protein ul24 (11 kDa, Protein from Escherichia coli)
- Large ribosomal subunit protein bl32 (6 kDa, Protein from Escherichia coli)
- Trna-fmet (24 kDa, RNA from Escherichia coli)
- 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 bl20 (13 kDa, Protein from Escherichia coli)
- Large ribosomal subunit protein bl27 (9 kDa, Protein from Escherichia coli)
- Large ribosomal subunit protein ul23 (11 kDa, Protein from Escherichia coli)
- Small ribosomal subunit protein bs18 (9 kDa, Protein from Escherichia coli)
- Escherichia coli 70s ribosome bound to fret-trna mrna (Complex from Escherichia coli)
- Small ribosomal subunit protein us10 (11 kDa, Protein from Escherichia coli)
- Mrna (9 kDa, RNA from Escherichia coli)
- Large ribosomal subunit protein bl17 (14 kDa, Protein from Escherichia coli)
- Small ribosomal subunit protein us17 (9 kDa, Protein from Escherichia coli)
- Small ribosomal subunit protein bs21 (8 kDa, Protein from Escherichia coli)
- Small ribosomal subunit protein us4 (23 kDa, Protein from Escherichia coli)
- Small ribosomal subunit protein us11 (13 kDa, Protein from Escherichia coli)
- Small ribosomal subunit protein bs6, fully modified isoform (15 kDa, Protein from Escherichia coli)
- 5s rrna (38 kDa, RNA from Escherichia coli)
- Large ribosomal subunit protein ul6 (18 kDa, Protein from Escherichia coli)
- Large ribosomal subunit protein bl19 (13 kDa, Protein from Escherichia coli)
- Small ribosomal subunit protein us7 (20 kDa, Protein from Escherichia coli)
- Large ribosomal subunit protein ul30 (6 kDa, Protein from Escherichia coli)
- Large ribosomal subunit protein ul5 (20 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l16 (15 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 us2 (26 kDa, Protein from Escherichia coli)
- Large ribosomal subunit protein ul14 (13 kDa, Protein from Escherichia coli)
- Large ribosomal subunit protein bl28 (9 kDa, Protein from Escherichia coli)
- Large ribosomal subunit protein bl31a (7 kDa, Protein from Escherichia coli)
- Small ribosomal subunit protein us13 (13 kDa, Protein from Escherichia coli)
- Small ribosomal subunit protein us5 (17 kDa, Protein from Escherichia coli)
- Small ribosomal subunit protein bs16 (9 kDa, Protein from Escherichia coli)
- Small ribosomal subunit protein bs20 (9 kDa, Protein from Escherichia coli)
- Large ribosomal subunit protein bl25 (10 kDa, Protein from Escherichia coli)
- Arbekacin (552 Da, Ligand)
- Large ribosomal subunit protein ul29 (7 kDa, Protein from Escherichia coli)
- Large ribosomal subunit protein ul13 (16 kDa, Protein from Escherichia coli)
- Large ribosomal subunit protein ul4 (22 kDa, Protein from Escherichia coli)
- Large ribosomal subunit protein bl21 (11 kDa, Protein from Escherichia coli)
- Small ribosomal subunit protein us14 (11 kDa, Protein from Escherichia coli)
- Large ribosomal subunit protein ul2 (29 kDa, Protein from Escherichia coli)
- Small ribosomal subunit protein us12 (13 kDa, Protein from Escherichia coli)
- Small ribosomal subunit protein us9 (14 kDa, Protein from Escherichia coli)
- Large ribosomal subunit protein bl35 (7 kDa, Protein from Escherichia coli)
- 16s rrna (499 kDa, RNA from Escherichia coli)
- 23s rrna (941 kDa, RNA from Escherichia coli)
- Large ribosomal subunit protein bl36a (4 kDa, Protein from Escherichia coli)
- Small ribosomal subunit protein us15 (10 kDa, Protein from Escherichia coli)
- Small ribosomal subunit protein us3 (26 kDa, Protein from Escherichia coli)
Cryo-EM structure of the human 55S mitoribosome with Tigecycline
Resolution: 2.9 Å
EM Method: Single-particle
Fitted PDBs: 8k2a
Q-score: 0.545
Li X, Wang M, Denk T, Buschauer R, Li Y, Beckmann R, Cheng J
Nat Commun (2024) 15 pp. 5481-5481 [ Pubmed: 38942792 DOI: doi:10.1038/s41467-024-49797-7 ]
- Large ribosomal subunit protein bl20m (17 kDa, Protein from Homo sapiens)
- Large ribosomal subunit protein bl21m (22 kDa, Protein from Homo sapiens)
- Large ribosomal subunit protein ml64 (25 kDa, Protein from Homo sapiens)
- Small ribosomal subunit protein ms34 (25 kDa, Protein from Homo sapiens)
- Large ribosomal subunit protein bl34m (10 kDa, Protein from Homo sapiens)
- Large ribosomal subunit protein ul16m (28 kDa, Protein from Homo sapiens)
- Small ribosomal subunit protein ms25 (20 kDa, Protein from Homo sapiens)
- Large ribosomal subunit protein ul14m (15 kDa, Protein from Homo sapiens)
- Small ribosomal subunit protein us2m (33 kDa, Protein from Homo sapiens)
- Large ribosomal subunit protein bl28m (30 kDa, Protein from Homo sapiens)
- Large ribosomal subunit protein ml43 (23 kDa, Protein from Homo sapiens)
- Large ribosomal subunit protein ml65 (50 kDa, Protein from Homo sapiens)
- Small ribosomal subunit protein us17m (14 kDa, Protein from Homo sapiens)
- Small ribosomal subunit protein bs1m (20 kDa, Protein from Homo sapiens)
- Tigecycline (587 Da, Ligand)
- Large ribosomal subunit protein ml50 (18 kDa, Protein from Homo sapiens)
- Large ribosomal subunit protein ul29m (29 kDa, Protein from Homo sapiens)
- Small ribosomal subunit protein us9m (45 kDa, Protein from Homo sapiens)
- Small ribosomal subunit protein ms22 (41 kDa, Protein from Homo sapiens)
- Small ribosomal subunit protein ms31 (45 kDa, Protein from Homo sapiens)
- Large ribosomal subunit protein ul15m (33 kDa, Protein from Homo sapiens)
- Small ribosomal subunit protein ms23 (21 kDa, Protein from Homo sapiens)
- Large ribosomal subunit protein ml62 (23 kDa, Protein from Homo sapiens)
- Large ribosomal subunit protein bl33m (7 kDa, Protein from Homo sapiens)
- Large ribosomal subunit protein ul30m (18 kDa, Protein from Homo sapiens)
- Large ribosomal subunit protein ml45 (35 kDa, Protein from Homo sapiens)
- Large ribosomal subunit protein ml38 (44 kDa, Protein from Homo sapiens)
- Mitochondrial ribosomal protein l18, isoform cra_b (20 kDa, Protein from Homo sapiens)
- Large ribosomal subunit protein ml55 (15 kDa, Protein from Homo sapiens)
- Large ribosomal subunit protein ml39 (38 kDa, Protein from Homo sapiens)
- Small ribosomal subunit protein bs21m (10 kDa, Protein from Homo sapiens)
- Large ribosomal subunit protein ul2m (33 kDa, Protein from Homo sapiens)
- Small ribosomal subunit protein us14m (15 kDa, Protein from Homo sapiens)
- Large ribosomal subunit protein ul10m (29 kDa, Protein from Homo sapiens)
- Large ribosomal subunit protein ml46 (31 kDa, Protein from Homo sapiens)
- Large ribosomal subunit protein ul13m (20 kDa, Protein from Homo sapiens)
- 16s rrna (500 kDa, RNA from Homo sapiens)
- Small ribosomal subunit protein ms29 (45 kDa, Protein from Homo sapiens)
- Large ribosomal subunit protein ml66 (22 kDa, Protein from Homo sapiens)
- Large ribosomal subunit protein bl17m (20 kDa, Protein from Homo sapiens)
- Large ribosomal subunit protein ul23m (17 kDa, Protein from Homo sapiens)
- 39s ribosomal protein l52, mitochondrial (13 kDa, Protein from Homo sapiens)
- Large ribosomal subunit protein ml41 (15 kDa, Protein from Homo sapiens)
- Large ribosomal subunit protein ml51 (15 kDa, Protein from Homo sapiens)
- Large ribosomal subunit protein ml48 (23 kDa, Protein from Homo sapiens)
- Small ribosomal subunit protein ms37 (13 kDa, Protein from Homo sapiens)
- Large ribosomal subunit protein bl19m (33 kDa, Protein from Homo sapiens)
- Small ribosomal subunit protein us3m (19 kDa, Protein from Homo sapiens)
- Large ribosomal subunit protein ul11m (20 kDa, Protein from Homo sapiens)
- Small ribosomal subunit protein ms33 (12 kDa, Protein from Homo sapiens)
- Large ribosomal subunit protein ul4m (34 kDa, Protein from Homo sapiens)
- Small ribosomal subunit protein us5m (48 kDa, Protein from Homo sapiens)
- 39s ribosomal protein l22, mitochondrial (24 kDa, Protein from Homo sapiens)
- Small ribosomal subunit protein us15m (29 kDa, Protein from Homo sapiens)
- Guanosine-5'-diphosphate (443 Da, Ligand)
- Large ribosomal subunit protein ml53 (12 kDa, Protein from Homo sapiens)
- Large ribosomal subunit protein ml42 (16 kDa, Protein from Homo sapiens)
- Magnesium ion (24 Da, Ligand)
- Small ribosomal subunit protein ms38 (22 kDa, Protein from Homo sapiens)
- Small ribosomal subunit protein bs16m (15 kDa, Protein from Homo sapiens)
- Large ribosomal subunit protein bl36m (11 kDa, Protein from Homo sapiens)
- Small ribosomal subunit protein ms39 (78 kDa, Protein from Homo sapiens)
- Val trna (22 kDa, RNA from Homo sapiens)
- Small ribosomal subunit protein bs6m (14 kDa, Protein from Homo sapiens)
- Large ribosomal subunit protein ml40 (24 kDa, Protein from Homo sapiens)
- Small ribosomal subunit protein bs18m (15 kDa, Protein from Homo sapiens)
- Small ribosomal subunit protein ms35 (36 kDa, Protein from Homo sapiens)
- Large ribosomal subunit protein ml37 (48 kDa, Protein from Homo sapiens)
- Large ribosomal subunit protein bl35m (21 kDa, Protein from Homo sapiens)
- Large ribosomal subunit protein ml63 (12 kDa, Protein from Homo sapiens)
- Large ribosomal subunit protein ml49 (19 kDa, Protein from Homo sapiens)
- Large ribosomal subunit protein ul3m (38 kDa, Protein from Homo sapiens)
- Small ribosomal subunit protein us7m (28 kDa, Protein from Homo sapiens)
- Small ribosomal subunit protein us12m (15 kDa, Protein from Homo sapiens)
- Large ribosomal subunit protein bl27m (16 kDa, Protein from Homo sapiens)
- Large ribosomal subunit protein bl32m (21 kDa, Protein from Homo sapiens)
- Large ribosomal subunit protein ul24m (24 kDa, Protein from Homo sapiens)
- Zinc ion (65 Da, Ligand)
- 55s mitoribosome with tigecycline (Complex from Homo sapiens)
- Large ribosomal subunit protein ml44 (37 kDa, Protein from Homo sapiens)
- Small ribosomal subunit protein ms26 (24 kDa, Protein from Homo sapiens)
- Large ribosomal subunit protein bl9m (30 kDa, Protein from Homo sapiens)
- Large ribosomal subunit protein ml54 (15 kDa, Protein from Homo sapiens)
- Small ribosomal subunit protein ms27 (47 kDa, Protein from Homo sapiens)
- Small ribosomal subunit protein us10m (23 kDa, Protein from Homo sapiens)
- 12s rrna (306 kDa, RNA from Homo sapiens)
- Small ribosomal subunit protein ms40 (29 kDa, Protein from Homo sapiens)
- Small ribosomal subunit protein us11m (20 kDa, Protein from Homo sapiens)