E. coli 50S ribosomal subunit in complex with PrAMP rumicidin-2 (focused refinement)
Resolution: 1.95 Å
EM Method: Single-particle
Fitted PDBs: 9d89
Q-score: 0.692
Panteleev PV, Pichkur EB, Kruglikov RN, Paleskava A, Shulenina OV, Bolosov IA, Bogdanov IV, Safronova VN, Balandin SV, Marina VI, Kombarova TI, Korobova OV, Shamova OV, Myasnikov AG, Borzilov AI, Osterman IA, Sergiev PV, Bogdanov AA, Dontsova OA, Konevega AL, Ovchinnikova TV
Nat Commun (2024) 15 pp. 8925-8925 [ Pubmed: 39414793 DOI: doi:10.1038/s41467-024-53309-y ]
- 50s ribosomal protein l30 (6 kDa, Protein from Escherichia coli)
- Large ribosomal subunit protein bl25 (10 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l36 (4 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l14 (13 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l5 (20 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l17 (13 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l15 (15 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l18 (12 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l21 (11 kDa, Protein from Escherichia coli)
- Large ribosomal subunit protein ul23 (10 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l28 (8 kDa, Protein from Escherichia coli)
- Large ribosomal subunit protein ul29 (7 kDa, Protein from Escherichia coli)
- (2s)-2-amino-4-(methylsulfanyl)butane-1-thiol (151 Da, Ligand)
- 50s ribosomal protein l16 (15 kDa, Protein from Escherichia coli)
- Rumicidin-2 (12-27) (2 kDa, Protein from Beatragus hunteri)
- Potassium ion (39 Da, Ligand)
- 50s ribosomal protein l33 (6 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l2 (29 kDa, Protein from Escherichia coli)
- Large ribosomal subunit protein ul13 (16 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l34 (5 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l19 (13 kDa, Protein from Escherichia coli)
- Water (18 Da, Ligand)
- Large ribosomal subunit protein bl20 (13 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l35 (7 kDa, Protein from Escherichia coli)
- 5s rrna (38 kDa, RNA from Escherichia coli)
- 50s ribosomal protein l3 (22 kDa, Protein from Escherichia coli)
- Magnesium ion (24 Da, Ligand)
- Large ribosomal subunit protein ul24 (11 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l27 (8 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l4 (22 kDa, Protein from Escherichia coli)
- Large ribosomal subunit protein ul6 (18 kDa, Protein from Escherichia coli)
- Zinc ion (65 Da, Ligand)
- 50s ribosomal protein l32 (6 kDa, Protein from Escherichia coli)
- E. coli 70s ribosome in complex with pramp rumicidin-2 (Complex from Escherichia coli)
- 23s rrna (885 kDa, RNA from Escherichia coli)
- 50s ribosomal protein l22 (12 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l9 (4 kDa, Protein from Escherichia coli)
mRNA decoding in human is kinetically and structurally distinct from bacteria (IC state)
Resolution: 2.29 Å
EM Method: Single-particle
Fitted PDBs: 8g5y
Q-score: 0.605
Holm M, Natchiar SK, Rundlet EJ, Myasnikov AG, Watson ZL, Altman RB, Wang HY, Taunton J, Blanchard SC
Nature (2023) 617 pp. 200-207 [ Pubmed: 37020024 DOI: doi:10.1038/s41586-023-05908-w ]
- P-site trna (24 kDa, RNA from Homo sapiens)
- 28s rrna (1 MDa, RNA from Homo sapiens)
- 40s ribosomal protein s8 (24 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s18 (17 kDa, Protein from Homo sapiens)
- 18s rrna (603 kDa, RNA from Homo sapiens)
- 40s ribosomal protein s14 (16 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s3 (26 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s16 (16 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l37 (11 kDa, Protein from Homo sapiens)
- Ubiquitin-40s ribosomal protein s27a (18 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l29 (17 kDa, Protein from Homo sapiens)
- Potassium ion (39 Da, Ligand)
- 60s ribosomal protein l17 (21 kDa, Protein from Homo sapiens)
- Methionine (149 Da, Ligand)
- 60s ribosomal protein l15 (24 kDa, Protein from Homo sapiens)
- Water (18 Da, Ligand)
- 40s ribosomal protein s13 (17 kDa, Protein from Homo sapiens)
- Mrna (19 kDa, RNA from Homo sapiens)
- 40s ribosomal protein s24 (15 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l36a (12 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l13a (23 kDa, Protein from Homo sapiens)
- Zinc ion (65 Da, Ligand)
- 40s ribosomal protein s25 (13 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l18 (21 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l21 (18 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s15 (17 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s2 (31 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l27a (16 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l35 (14 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l35a (12 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s29 (6 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s27 (9 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l10a (24 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s26 (13 kDa, Protein from Homo sapiens)
- Eif5a1 (16 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l9 (21 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s3a (30 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l23a (17 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s4, x isoform (29 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s15a (14 kDa, Protein from Homo sapiens)
- Spermidine (145 Da, Ligand)
- 40s ribosomal protein sa (32 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l28 (15 kDa, Protein from Homo sapiens)
- 4-{(2r,5s,6e)-2-hydroxy-5-methyl-7-[(2r,3s,4e,6z,10e)-3-methyl-12-oxooxacyclododeca-4,6,10-trien-2-yl]-4-oxooct-6-en-1-yl}piperidine-2,6-dione (457 Da, Ligand)
- 40s ribosomal protein s20 (13 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l27 (15 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l11 (20 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l34 (13 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l14 (23 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l7a (30 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l13 (24 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l32 (15 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l37a (10 kDa, Protein from Homo sapiens)
- El40 (14 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l23 (14 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s7 (22 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s10 (18 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l39 (6 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s6 (28 kDa, Protein from Homo sapiens)
- Human ribosome (Complex from Homo sapiens)
- Fau ubiquitin-like and ribosomal protein s30 (14 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l36 (12 kDa, Protein from Homo sapiens)
- Anisomycin (265 Da, Ligand)
- 40s ribosomal protein s5 (22 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l24 (17 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s21 (9 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l19 (23 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l5 (34 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l30 (12 kDa, Protein from Homo sapiens)
- Magnesium ion (24 Da, Ligand)
- 60s ribosomal protein l6 (32 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l4 (47 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s28 (7 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l31 (14 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l22 (14 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l7 (29 kDa, Protein from Homo sapiens)
- 5.8s rrna (50 kDa, RNA from Homo sapiens)
- 5s rrna (38 kDa, RNA from Homo sapiens)
- 60s ribosomal protein l3 (46 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s11 (18 kDa, Protein from Homo sapiens)
- Us12 (15 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l38 (8 kDa, Protein from Homo sapiens)
- Ul2 (28 kDa, Protein from Homo sapiens)
- 1,4-diaminobutane (88 Da, Ligand)
- Receptor of activated protein c kinase 1 (35 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s19 (16 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l41 (3 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l10 (24 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s12 (14 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l18a (20 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s17 (15 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s9 (22 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l26 (17 kDa, Protein from Homo sapiens)
mRNA decoding in human is kinetically and structurally distinct from bacteria (GA state)
Resolution: 2.64 Å
EM Method: Single-particle
Fitted PDBs: 8g5z
Q-score: 0.57
Holm M, Natchiar SK, Rundlet EJ, Myasnikov AG, Watson ZL, Altman RB, Wang HY, Taunton J, Blanchard SC
Nature (2023) 617 pp. 200-207 [ Pubmed: 37020024 DOI: doi:10.1038/s41586-023-05908-w ]
- 40s ribosomal protein s7 (21 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s19 (15 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l35a (12 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s15a (14 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l4 (41 kDa, Protein from Homo sapiens)
- Potassium ion (39 Da, Ligand)
- 60s ribosomal protein l9 (21 kDa, Protein from Homo sapiens)
- Methionine (149 Da, Ligand)
- 60s ribosomal protein l39 (6 kDa, Protein from Homo sapiens)
- Water (18 Da, Ligand)
- A-site trna phe (24 kDa, RNA from Escherichia coli)
- Phenylalanine (165 Da, Ligand)
- 40s ribosomal protein s26 (11 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l36 (11 kDa, Protein from Homo sapiens)
- Us13 (17 kDa, Protein from Homo sapiens)
- Zinc ion (65 Da, Ligand)
- 60s acidic ribosomal protein p0 (21 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l22 (11 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l15 (24 kDa, Protein from Homo sapiens)
- El24 (13 kDa, Protein from Homo sapiens)
- Es12 (13 kDa, Protein from Homo sapiens)
- Receptor of activated protein c kinase 1 (34 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l11 (19 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l21 (18 kDa, Protein from Homo sapiens)
- Us11 (14 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s24 (15 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s2 (24 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l19 (22 kDa, Protein from Homo sapiens)
- Es25 (9 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l7a (27 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s5 (21 kDa, Protein from Homo sapiens)
- 28s rrna (1 MDa, RNA from Homo sapiens)
- El6 (25 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l13 (23 kDa, Protein from Homo sapiens)
- Ul23 (13 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l37a (10 kDa, Protein from Homo sapiens)
- 40s ribosomal protein sa (24 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s28 (7 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s6 (27 kDa, Protein from Homo sapiens)
- Us12 (15 kDa, Protein from Homo sapiens)
- 18s rrna (549 kDa, RNA from Homo sapiens)
- 5'-guanosine-diphosphate-monothiophosphate (539 Da, Ligand)
- Spermidine (145 Da, Ligand)
- Ul1 (24 kDa, Protein from Homo sapiens)
- 4-{(2r,5s,6e)-2-hydroxy-5-methyl-7-[(2r,3s,4e,6z,10e)-3-methyl-12-oxooxacyclododeca-4,6,10-trien-2-yl]-4-oxooct-6-en-1-yl}piperidine-2,6-dione (457 Da, Ligand)
- 40s ribosomal protein s29 (6 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s8 (24 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l30 (10 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l12 (16 kDa, Protein from Homo sapiens)
- P-site trna fmet (24 kDa, RNA from Escherichia coli)
- 40s ribosomal protein s3a (25 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l23 (14 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l27 (15 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l13a (23 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l35 (14 kDa, Protein from Homo sapiens)
- Mrna (3 kDa, RNA from Homo sapiens)
- 40s ribosomal protein s9 (21 kDa, Protein from Homo sapiens)
- Ul2 (27 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s30 (6 kDa, Protein from Homo sapiens)
- Anisomycin (265 Da, Ligand)
- Us10 (11 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s21 (9 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s3 (25 kDa, Protein from Homo sapiens)
- Us17 (16 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s17 (15 kDa, Protein from Homo sapiens)
- El40 (6 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l3 (46 kDa, Protein from Homo sapiens)
- Ribosomal protein l36a (12 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l18 (21 kDa, Protein from Homo sapiens)
- Magnesium ion (24 Da, Ligand)
- Human ribosome 80s with p-site trna, a-site trna eef1a and eif5a1 (5 MDa, Complex)
- Es31 (8 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l10 (23 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s13 (17 kDa, Protein from Homo sapiens)
- 5.8s rrna (50 kDa, RNA from Homo sapiens)
- 5s rrna (38 kDa, RNA from Homo sapiens)
- 60s ribosomal protein l14 (15 kDa, Protein from Homo sapiens)
- Us9 (15 kDa, Protein from Homo sapiens)
- El29 (12 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l34 (12 kDa, Protein from Homo sapiens)
- Us19 (15 kDa, Protein from Homo sapiens)
- Elongation factor 1-alpha 1 (48 kDa, Protein from Homo sapiens)
- Es10 (11 kDa, Protein from Homo sapiens)
- Es27 (9 kDa, Protein from Homo sapiens)
- 1,4-diaminobutane (88 Da, Ligand)
- 60s ribosomal protein l31 (12 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l26 (15 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l38 (8 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l7 (26 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l41 (3 kDa, Protein from Homo sapiens)
- Eif5a1 (15 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l5 (34 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l27a (16 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l37 (10 kDa, Protein from Homo sapiens)
- Es4 (29 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l17 (17 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l18a (20 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l32 (15 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l28 (14 kDa, Protein from Homo sapiens)
- Plitidepsin (1 kDa, Ligand)
mRNA decoding in human is kinetically and structurally distinct from bacteria (AC state)
Resolution: 2.94 Å
EM Method: Single-particle
Fitted PDBs: 8g61
Q-score: 0.51
Holm M, Natchiar SK, Rundlet EJ, Myasnikov AG, Watson ZL, Altman RB, Wang HY, Taunton J, Blanchard SC
Nature (2023) 617 pp. 200-207 [ Pubmed: 37020024 DOI: doi:10.1038/s41586-023-05908-w ]
- 28s rrna (1 MDa, RNA from Homo sapiens)
- 40s ribosomal protein s8 (24 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s18 (17 kDa, Protein from Homo sapiens)
- 18s rrna (603 kDa, RNA from Homo sapiens)
- 40s ribosomal protein s14 (16 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s3 (26 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s16 (16 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l37 (11 kDa, Protein from Homo sapiens)
- Ubiquitin-40s ribosomal protein s27a (18 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l29 (17 kDa, Protein from Homo sapiens)
- Potassium ion (39 Da, Ligand)
- 60s ribosomal protein l17 (21 kDa, Protein from Homo sapiens)
- Methionine (149 Da, Ligand)
- 60s ribosomal protein l15 (24 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s13 (17 kDa, Protein from Homo sapiens)
- Mrna (19 kDa, RNA from Homo sapiens)
- 40s ribosomal protein s24 (15 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l36a (12 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l13a (23 kDa, Protein from Homo sapiens)
- Zinc ion (65 Da, Ligand)
- 40s ribosomal protein s25 (13 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l18 (21 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l21 (18 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s15 (17 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s2 (31 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l27a (16 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l35 (14 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l35a (12 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s29 (6 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s27 (9 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l10a (24 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s26 (13 kDa, Protein from Homo sapiens)
- Eif5a1 (16 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l9 (21 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s3a (30 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l23a (17 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s4, x isoform (29 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s15a (14 kDa, Protein from Homo sapiens)
- Spermidine (145 Da, Ligand)
- 40s ribosomal protein sa (32 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l28 (15 kDa, Protein from Homo sapiens)
- 4-{(2r,5s,6e)-2-hydroxy-5-methyl-7-[(2r,3s,4e,6z,10e)-3-methyl-12-oxooxacyclododeca-4,6,10-trien-2-yl]-4-oxooct-6-en-1-yl}piperidine-2,6-dione (457 Da, Ligand)
- 40s ribosomal protein s20 (13 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l27 (15 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l11 (20 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l34 (13 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l14 (23 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l7a (30 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l13 (24 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l32 (15 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l37a (10 kDa, Protein from Homo sapiens)
- El40 (14 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l23 (14 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s7 (22 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s10 (18 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l39 (6 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s6 (28 kDa, Protein from Homo sapiens)
- Human ribosome (Complex from Homo sapiens)
- Fau ubiquitin-like and ribosomal protein s30 (14 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l36 (12 kDa, Protein from Homo sapiens)
- Anisomycin (265 Da, Ligand)
- 40s ribosomal protein s5 (22 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l24 (17 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s21 (9 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l19 (23 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l5 (34 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l30 (12 kDa, Protein from Homo sapiens)
- Magnesium ion (24 Da, Ligand)
- 60s ribosomal protein l6 (32 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l4 (47 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s28 (7 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l31 (14 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l22 (14 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l7 (29 kDa, Protein from Homo sapiens)
- 5.8s rrna (50 kDa, RNA from Homo sapiens)
- 5s rrna (38 kDa, RNA from Homo sapiens)
- Rna (77-mer) (24 kDa, RNA from Escherichia coli)
- 60s ribosomal protein l3 (46 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s11 (18 kDa, Protein from Homo sapiens)
- Us12 (15 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l38 (8 kDa, Protein from Homo sapiens)
- Ul2 (28 kDa, Protein from Homo sapiens)
- 1,4-diaminobutane (88 Da, Ligand)
- Receptor of activated protein c kinase 1 (35 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s19 (16 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l41 (3 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l10 (24 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s12 (14 kDa, Protein from Homo sapiens)
- A-site trna (24 kDa, RNA from Escherichia coli)
- 60s ribosomal protein l18a (20 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s17 (15 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s9 (22 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l26 (17 kDa, Protein from Homo sapiens)
mRNA decoding in human is kinetically and structurally distinct from bacteria (GA state 2)
Resolution: 2.8 Å
EM Method: Single-particle
Fitted PDBs: 8g6j
Q-score: 0.548
Holm M, Natchiar SK, Rundlet EJ, Myasnikov AG, Watson ZL, Altman RB, Wang HY, Taunton J, Blanchard SC
Nature (2023) 617 pp. 200-207 [ Pubmed: 37020024 DOI: doi:10.1038/s41586-023-05908-w ]
- P-site trna (24 kDa, RNA from Homo sapiens)
- 28s rrna (1 MDa, RNA from Homo sapiens)
- 40s ribosomal protein s8 (24 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s18 (17 kDa, Protein from Homo sapiens)
- 18s rrna (603 kDa, RNA from Homo sapiens)
- 40s ribosomal protein s14 (16 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s3 (26 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s16 (16 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l37 (11 kDa, Protein from Homo sapiens)
- Ubiquitin-40s ribosomal protein s27a (18 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l29 (17 kDa, Protein from Homo sapiens)
- Potassium ion (39 Da, Ligand)
- 60s ribosomal protein l17 (21 kDa, Protein from Homo sapiens)
- Methionine (149 Da, Ligand)
- 60s ribosomal protein l15 (24 kDa, Protein from Homo sapiens)
- Water (18 Da, Ligand)
- 40s ribosomal protein s13 (17 kDa, Protein from Homo sapiens)
- Mrna (19 kDa, RNA from Homo sapiens)
- 40s ribosomal protein s24 (15 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l36a (12 kDa, Protein from Homo sapiens)
- Phenylalanine (165 Da, Ligand)
- 60s ribosomal protein l13a (23 kDa, Protein from Homo sapiens)
- Zinc ion (65 Da, Ligand)
- (3beta)-o~3~-[(2r)-2,6-dihydroxy-2-(2-methoxy-2-oxoethyl)-6-methylheptanoyl]cephalotaxine (545 Da, Ligand)
- 40s ribosomal protein s25 (13 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l18 (21 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l21 (18 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s15 (17 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s2 (31 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l27a (16 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l35 (14 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l35a (12 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s29 (6 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s27 (9 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l10a (24 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s26 (13 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l9 (21 kDa, Protein from Homo sapiens)
- A-site trna (24 kDa, RNA from Homo sapiens)
- 40s ribosomal protein s3a (30 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l23a (17 kDa, Protein from Homo sapiens)
- 5'-guanosine-diphosphate-monothiophosphate (539 Da, Ligand)
- 40s ribosomal protein s4, x isoform (29 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s15a (14 kDa, Protein from Homo sapiens)
- Spermidine (145 Da, Ligand)
- 40s ribosomal protein sa (32 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l28 (15 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s20 (13 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l27 (15 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l11 (20 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l34 (13 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l14 (23 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l7a (30 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l32 (15 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l37a (10 kDa, Protein from Homo sapiens)
- El40 (14 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l23 (14 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s7 (22 kDa, Protein from Homo sapiens)
- Elongation factor 1-alpha 1 (50 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s10 (18 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l39 (6 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s6 (28 kDa, Protein from Homo sapiens)
- Human ribosome (Complex from Homo sapiens)
- Fau ubiquitin-like and ribosomal protein s30 (14 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l36 (12 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s5 (22 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l24 (17 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s21 (9 kDa, Protein from Homo sapiens)
- 60s acidic ribosomal protein p0 (34 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l19 (23 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l5 (34 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l30 (12 kDa, Protein from Homo sapiens)
- Magnesium ion (24 Da, Ligand)
- 60s ribosomal protein l6 (32 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l4 (47 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s28 (7 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l31 (14 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l22 (14 kDa, Protein from Homo sapiens)
- (3r,6r,9s,12s,15s,18s,20r,24ar)-6-[(2s)-butan-2-yl]-3,12-bis[(1r)-1-hydroxy-2-methylpropyl]-8,9,11,17,18-pentamethyl-15-[(2s)-2-methylbutyl]hexadecahydropyrido[1,2-a][1,4,7,10,13,16,19]heptaazacyclohenicosine-1,4,7,10,13,16,19(21h)-heptone (794 Da, Ligand)
- 60s ribosomal protein l7 (29 kDa, Protein from Homo sapiens)
- 5.8s rrna (50 kDa, RNA from Homo sapiens)
- 5s rrna (38 kDa, RNA from Homo sapiens)
- 60s ribosomal protein l3 (46 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s11 (18 kDa, Protein from Homo sapiens)
- El13 (31 kDa, Protein from Homo sapiens)
- Us12 (15 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l38 (8 kDa, Protein from Homo sapiens)
- Ul2 (28 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l12 (17 kDa, Protein from Homo sapiens)
- 1,4-diaminobutane (88 Da, Ligand)
- Receptor of activated protein c kinase 1 (35 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s19 (16 kDa, Protein from Homo sapiens)
- 4-{(2r)-2-[(1s,3s,5s)-3,5-dimethyl-2-oxocyclohexyl]-2-hydroxyethyl}piperidine-2,6-dione (281 Da, Ligand)
- 60s ribosomal protein l41 (3 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l10 (24 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s12 (14 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l18a (20 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s17 (15 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s9 (22 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l26 (17 kDa, Protein from Homo sapiens)
Resolution: 1.67 Å
EM Method: Single-particle
Fitted PDBs: 8glp
Q-score: 0.673
Holm M, Natchiar SK, Rundlet EJ, Myasnikov AG, Watson ZL, Altman RB, Wang HY, Taunton J, Blanchard SC
Nature (2023) 617 pp. 200-207 [ Pubmed: 37020024 DOI: doi:10.1038/s41586-023-05908-w ]
- P-site trna (24 kDa, RNA from Homo sapiens)
- 28s rrna (1 MDa, RNA from Homo sapiens)
- 40s ribosomal protein s8 (24 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s18 (17 kDa, Protein from Homo sapiens)
- 18s rrna (603 kDa, RNA from Homo sapiens)
- 40s ribosomal protein s14 (16 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s3 (26 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s16 (16 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l37 (11 kDa, Protein from Homo sapiens)
- Ubiquitin-40s ribosomal protein s27a (18 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l29 (17 kDa, Protein from Homo sapiens)
- Potassium ion (39 Da, Ligand)
- 60s ribosomal protein l17 (21 kDa, Protein from Homo sapiens)
- Methionine (149 Da, Ligand)
- 60s ribosomal protein l15 (24 kDa, Protein from Homo sapiens)
- Water (18 Da, Ligand)
- 40s ribosomal protein s13 (17 kDa, Protein from Homo sapiens)
- Mrna (19 kDa, RNA from Homo sapiens)
- 40s ribosomal protein s24 (15 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l36a (12 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l13a (23 kDa, Protein from Homo sapiens)
- Zinc ion (65 Da, Ligand)
- 40s ribosomal protein s25 (13 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l18 (21 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l21 (18 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s15 (17 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s2 (31 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l27a (16 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l35 (14 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l35a (12 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s29 (6 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s27 (9 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s26 (13 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l9 (21 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s3a (30 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l23a (17 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s4, x isoform (29 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s15a (14 kDa, Protein from Homo sapiens)
- Spermidine (145 Da, Ligand)
- 40s ribosomal protein sa (32 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l28 (15 kDa, Protein from Homo sapiens)
- 4-{(2r,5s,6e)-2-hydroxy-5-methyl-7-[(2r,3s,4e,6z,10e)-3-methyl-12-oxooxacyclododeca-4,6,10-trien-2-yl]-4-oxooct-6-en-1-yl}piperidine-2,6-dione (457 Da, Ligand)
- 40s ribosomal protein s20 (13 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l27 (15 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l11 (20 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l34 (13 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l14 (23 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l7a (30 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l13 (24 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l32 (15 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l8 (ul2) (28 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l37a (10 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l23 (14 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s7 (22 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s10 (18 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l39 (6 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s6 (28 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l40 (el40) (14 kDa, Protein from Homo sapiens)
- Human ribosome (Complex from Homo sapiens)
- Fau ubiquitin-like and ribosomal protein s30 (14 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l36 (12 kDa, Protein from Homo sapiens)
- Anisomycin (265 Da, Ligand)
- 40s ribosomal protein s5 (22 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l24 (17 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s21 (9 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l19 (23 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l5 (34 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l30 (12 kDa, Protein from Homo sapiens)
- Magnesium ion (24 Da, Ligand)
- 60s ribosomal protein l6 (32 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l4 (47 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s28 (7 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l31 (14 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l22 (14 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l7 (29 kDa, Protein from Homo sapiens)
- 5.8s rrna (50 kDa, RNA from Homo sapiens)
- 5s rrna (38 kDa, RNA from Homo sapiens)
- 2-amino-2-hydroxymethyl-propane-1,3-diol (122 Da, Ligand)
- 60s ribosomal protein l3 (46 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s11 (18 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l38 (8 kDa, Protein from Homo sapiens)
- 1,4-diaminobutane (88 Da, Ligand)
- Receptor of activated protein c kinase 1 (35 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s19 (16 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l41 (3 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l10 (24 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s12 (14 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l18a (20 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s17 (15 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s9 (22 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l26 (17 kDa, Protein from Homo sapiens)
- 40s ribosomal protein s23 (us12) (15 kDa, Protein from Homo sapiens)
ARE-ABCF VmlR2 bound to a 70S ribosome
Resolution: 2.9 Å
EM Method: Single-particle
Fitted PDBs: 8buu
Q-score: 0.514
Obana N, Takada H, Crowe-McAuliffe C, Iwamoto M, Egorov AA, Wu KJY, Chiba S, Murina V, Paternoga H, Tresco BIC, Nomura N, Myers AG, Atkinson GC, Wilson DN, Hauryliuk V
Nucleic Acids Res (2023) 51 pp. 4536-4554 [ Pubmed: 36951104 DOI: doi:10.1093/nar/gkad193 ]
- 30s ribosomal protein s2 (28 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
- 30s ribosomal protein s18 (8 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
- 16s rrna (503 kDa, RNA from Bacillus subtilis subsp. subtilis str. 168)
- 50s ribosomal protein l15 (15 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
- 5s rrna (38 kDa, RNA from Bacillus subtilis subsp. subtilis str. 168)
- 50s ribosomal protein l17 (13 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
- 30s ribosomal protein s6 (11 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
- Expz (72 kDa, Protein from Neobacillus vireti)
- 50s ribosomal protein l33 1 (5 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
- 50s ribosomal protein l13 (16 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
- 50s ribosomal protein l24 (11 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
- 50s ribosomal protein l30 (6 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
- 50s ribosomal protein l21 (11 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
- 30s ribosomal protein s5 (17 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
- 50s ribosomal protein l6 (19 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
- Potassium ion (39 Da, Ligand)
- 50s ribosomal protein l20 (13 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
- 50s ribosomal protein l35 (7 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
- 30s ribosomal protein s15 (10 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
- 50s ribosomal protein l28 (6 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
- 50s ribosomal protein l4 (22 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
- 30s ribosomal protein s17 (10 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
- Adenosine-5'-triphosphate (507 Da, Ligand)
- 50s ribosomal protein l36 (4 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
- 30s ribosomal protein s12 (15 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
- 30s ribosomal protein s19 (10 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
- 50s ribosomal protein l3 (22 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
- 50s ribosomal protein l19 (13 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
- 30s ribosomal protein s8 (14 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
- 50s ribosomal protein l22 (12 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
- 50s ribosomal protein l5 (20 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
- 50s ribosomal protein l14 (13 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
- Trna-fmet (24 kDa, RNA from Bacillus subtilis subsp. subtilis str. 168)
- 50s ribosomal protein l2 (30 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
- Mrna (4 kDa, RNA from Bacillus subtilis subsp. subtilis str. 168)
- 30s ribosomal protein s20 (9 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
- Magnesium ion (24 Da, Ligand)
- 30s ribosomal protein s16 (10 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
- 50s ribosomal protein l23 (10 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
- 30s ribosomal protein s14 (7 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
- 23s rrna (949 kDa, RNA from Bacillus subtilis subsp. subtilis str. 168)
- 50s ribosomal protein l27 (10 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
- 30s ribosomal protein s11 (13 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
- Zinc ion (65 Da, Ligand)
- 70s ribosome with vmlr2 bound in the e site, a distorted trna in the p site, and a substoichiometric distorted trna in the a site (2 MDa, Complex from Neobacillus vireti)
- 50s ribosomal protein l16 (16 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
- 50s ribosomal protein l18 (12 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
- 30s ribosomal protein s4 (22 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
- 50s ribosomal protein l34 (5 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
- 50s ribosomal protein l29 (7 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
- 30s ribosomal protein s9 (14 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
- 30s ribosomal protein s7 (17 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
- 30s ribosomal protein s10 (11 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
- 30s ribosomal protein s3 (24 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
- 30s ribosomal protein s13 (13 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
- 50s ribosomal protein l32 (6 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
Yeast 80S ribosome in complex with Map1 (conformation 1)
Resolution: 3.9 Å
EM Method: Single-particle
Fitted PDBs: 8bqd
Q-score: 0.26
Knorr AG, Mackens-Kiani T, Musial J, Berninghausen O, Becker T, Beatrix B, Beckmann R
PLoS Biol (2023) 21 pp. e3001995-e3001995 [ DOI: doi:10.1371/journal.pbio.3001995 Pubmed: 37079644 ]
- 40s ribosomal protein s31 (8 kDa, Protein from Saccharomyces cerevisiae)
- Rpl10 isoform 1 (25 kDa, Protein from Saccharomyces cerevisiae)
- 40s ribosomal protein s9-a (21 kDa, Protein from Saccharomyces cerevisiae)
- 60s ribosomal protein l41 (3 kDa, Protein from Saccharomyces cerevisiae)
- Guanine nucleotide-binding protein subunit beta-like protein (34 kDa, Protein from Saccharomyces cerevisiae)
- 60s ribosomal protein l19-a (21 kDa, Protein from Saccharomyces cerevisiae)
- Rpl11b isoform 1 (19 kDa, Protein from Saccharomyces cerevisiae)
- 25s rrna (1 MDa, RNA from Saccharomyces cerevisiae)
- Zinc ion (65 Da, Ligand)
- 60s ribosomal protein l37-a (9 kDa, Protein from Saccharomyces cerevisiae)
- 40s ribosomal protein s21-a (9 kDa, Protein from Saccharomyces cerevisiae)
- Rpl9a isoform 1 (21 kDa, Protein from Saccharomyces cerevisiae)
- 40s ribosomal protein s10-a (11 kDa, Protein from Saccharomyces cerevisiae)
- Rpl32 isoform 1 (14 kDa, Protein from Saccharomyces cerevisiae)
- 60s ribosomal protein l43-a (9 kDa, Protein from Saccharomyces cerevisiae)
- 18s rrna (579 kDa, RNA from Saccharomyces cerevisiae)
- 40s ribosomal protein s30-a (6 kDa, Protein from Saccharomyces cerevisiae)
- Rpl38 isoform 1 (8 kDa, Protein from Saccharomyces cerevisiae)
- Rps29a isoform 1 (6 kDa, Protein from Saccharomyces cerevisiae)
- 60s ribosomal protein l7-a (25 kDa, Protein from Saccharomyces cerevisiae)
- 60s ribosomal protein l2-a (27 kDa, Protein from Saccharomyces cerevisiae)
- Rps3 isoform 1 (24 kDa, Protein from Saccharomyces cerevisiae)
- 60s ribosomal protein l40-a (6 kDa, Protein from Saccharomyces cerevisiae)
- Rps20 isoform 1 (11 kDa, Protein from Saccharomyces cerevisiae)
- Methionine aminopeptidase 1 (43 kDa, Protein from Saccharomyces cerevisiae)
- 60s ribosomal protein l8-a (25 kDa, Protein from Saccharomyces cerevisiae)
- 40s ribosomal protein s8-b (22 kDa, Protein from Saccharomyces cerevisiae)
- 60s ribosomal protein l27-a (15 kDa, Protein from Saccharomyces cerevisiae)
- 60s ribosomal protein l34-a (12 kDa, Protein from Saccharomyces cerevisiae)
- 60s ribosomal protein l21-a (18 kDa, Protein from Saccharomyces cerevisiae)
- 60s ribosomal protein l23-a (14 kDa, Protein from Saccharomyces cerevisiae)
- 60s ribosomal protein l18-a (20 kDa, Protein from Saccharomyces cerevisiae)
- Rpl4a isoform 1 (39 kDa, Protein from Saccharomyces cerevisiae)
- 60s ribosomal protein l28 (16 kDa, Protein from Saccharomyces cerevisiae)
- 40s ribosomal protein s23-a (15 kDa, Protein from Saccharomyces cerevisiae)
- 60s ribosomal protein l16-a (22 kDa, Protein from Saccharomyces cerevisiae)
- Rps26b isoform 1 (11 kDa, Protein from Saccharomyces cerevisiae)
- 60s ribosomal protein l26-a (14 kDa, Protein from Saccharomyces cerevisiae)
- Rps28a isoform 1 (7 kDa, Protein from Saccharomyces cerevisiae)
- 60s ribosomal protein l17-a (20 kDa, Protein from Saccharomyces cerevisiae)
- 40s ribosomal protein s27-a (8 kDa, Protein from Saccharomyces cerevisiae)
- 60s ribosomal protein l39 (6 kDa, Protein from Saccharomyces cerevisiae)
- Rpl5 isoform 1 (33 kDa, Protein from Saccharomyces cerevisiae)
- 60s ribosomal protein l36-a (11 kDa, Protein from Saccharomyces cerevisiae)
- 60s ribosomal protein l15-a (24 kDa, Protein from Saccharomyces cerevisiae)
- 40s ribosomal protein s0-a (22 kDa, Protein from Saccharomyces cerevisiae)
- 40s ribosomal protein s6-a (26 kDa, Protein from Saccharomyces cerevisiae)
- Yeast 80s ribosome in complex with map1 (Complex from Saccharomyces cerevisiae)
- 60s ribosomal protein l29 (6 kDa, Protein from Saccharomyces cerevisiae)
- 40s ribosomal protein s13 (16 kDa, Protein from Saccharomyces cerevisiae)
- 60s ribosomal protein l33-a (12 kDa, Protein from Saccharomyces cerevisiae)
- 40s ribosomal protein s16-a (15 kDa, Protein from Saccharomyces cerevisiae)
- 60s ribosomal protein l24-a (14 kDa, Protein from Saccharomyces cerevisiae)
- 40s ribosomal protein s18-a (16 kDa, Protein from Saccharomyces cerevisiae)
- Rps2 isoform 1 (23 kDa, Protein from Saccharomyces cerevisiae)
- 40s ribosomal protein s4-a (29 kDa, Protein from Saccharomyces cerevisiae)
- 5.8s rrna (50 kDa, RNA from Saccharomyces cerevisiae)
- 40s ribosomal protein s14-b (13 kDa, Protein from Saccharomyces cerevisiae)
- 40s ribosomal protein s15 (16 kDa, Protein from Saccharomyces cerevisiae)
- 40s ribosomal protein s7-a (21 kDa, Protein from Saccharomyces cerevisiae)
- 60s ribosomal protein l30 (10 kDa, Protein from Saccharomyces cerevisiae)
- 60s ribosomal protein l25 (13 kDa, Protein from Saccharomyces cerevisiae)
- 60s ribosomal protein l31-a (12 kDa, Protein from Saccharomyces cerevisiae)
- 60s ribosomal protein l3 (43 kDa, Protein from Saccharomyces cerevisiae)
- 60s ribosomal protein l14-a (14 kDa, Protein from Saccharomyces cerevisiae)
- 60s ribosomal protein l42-a (11 kDa, Protein from Saccharomyces cerevisiae)
- 60s ribosomal protein l6-b (19 kDa, Protein from Saccharomyces cerevisiae)
- 40s ribosomal protein s1-a (26 kDa, Protein from Saccharomyces cerevisiae)
- 40s ribosomal protein s11-a (16 kDa, Protein from Saccharomyces cerevisiae)
- 40s ribosomal protein s17-a (14 kDa, Protein from Saccharomyces cerevisiae)
- 60s ribosomal protein l35-a (13 kDa, Protein from Saccharomyces cerevisiae)
- 5s rrna (38 kDa, RNA from Saccharomyces cerevisiae)
- 60s ribosomal protein l1-a (24 kDa, Protein from Saccharomyces cerevisiae)
- 40s ribosomal protein s19-a (15 kDa, Protein from Saccharomyces cerevisiae)
- 60s ribosomal protein l20-a (20 kDa, Protein from Saccharomyces cerevisiae)
- 60s ribosomal protein l13-a (21 kDa, Protein from Saccharomyces cerevisiae)
- 40s ribosomal protein s12 (13 kDa, Protein from Saccharomyces cerevisiae)
- 40s ribosomal protein s24-a (15 kDa, Protein from Saccharomyces cerevisiae)
- 40s ribosomal protein s25 (9 kDa, Protein from Saccharomyces cerevisiae)
- Rps5p (22 kDa, Protein from Saccharomyces cerevisiae)
- Rps22a isoform 1 (14 kDa, Protein from Saccharomyces cerevisiae)
- 60s ribosomal protein l22-a (11 kDa, Protein from Saccharomyces cerevisiae)
Yeast 80S ribosome in complex with Map1 (conformation 2)
Resolution: 3.8 Å
EM Method: Single-particle
Fitted PDBs: 8bqx
Q-score: 0.264
Knorr AG, Mackens-Kiani T, Musial J, Berninghausen O, Becker T, Beatrix B, Beckmann R
PLoS Biol (2023) 21 pp. e3001995-e3001995 [ DOI: doi:10.1371/journal.pbio.3001995 Pubmed: 37079644 ]
- 40s ribosomal protein s1-a (26 kDa, Protein from baker's yeast)
- 40s ribosomal protein s3 (24 kDa, Protein from baker's yeast)
- 60s ribosomal protein l27-a (15 kDa, Protein from baker's yeast)
- 40s ribosomal protein s18-a (16 kDa, Protein from baker's yeast)
- Rpl38 isoform 1 (8 kDa, Protein from baker's yeast)
- 40s ribosomal protein s31 (8 kDa, Protein from baker's yeast)
- 60s ribosomal protein l41-a (3 kDa, Protein from baker's yeast)
- 40s ribosomal protein s5 (22 kDa, Protein from baker's yeast)
- 60s ribosomal protein l1-a (24 kDa, Protein from baker's yeast)
- 40s ribosomal protein s26-b (11 kDa, Protein from baker's yeast)
- 18s rrna (579 kDa, RNA from baker's yeast)
- Rpl32 isoform 1 (14 kDa, Protein from baker's yeast)
- 60s ribosomal protein l29 (6 kDa, Protein from baker's yeast)
- 60s ribosomal protein l40-a (6 kDa, Protein from baker's yeast)
- 60s ribosomal protein l31-a (12 kDa, Protein from baker's yeast)
- 60s ribosomal protein l2-a (27 kDa, Protein from baker's yeast)
- 60s ribosomal protein l25 (13 kDa, Protein from baker's yeast)
- 5s rrna (38 kDa, RNA from baker's yeast)
- 40s ribosomal protein s13 (16 kDa, Protein from baker's yeast)
- 40s ribosomal protein s10-a (11 kDa, Protein from baker's yeast)
- 60s ribosomal protein l7-a (25 kDa, Protein from baker's yeast)
- 60s ribosomal protein l8-a (25 kDa, Protein from baker's yeast)
- 40s ribosomal protein s11-a (16 kDa, Protein from baker's yeast)
- Zinc ion (65 Da, Ligand)
- 60s ribosomal protein l13-a (21 kDa, Protein from baker's yeast)
- 40s ribosomal protein s17-a (14 kDa, Protein from baker's yeast)
- 40s ribosomal protein s20 (11 kDa, Protein from baker's yeast)
- 40s ribosomal protein s14-b (13 kDa, Protein from baker's yeast)
- Methionine aminopeptidase 1 (43 kDa, Protein from baker's yeast)
- 60s ribosomal protein l3 (43 kDa, Protein from baker's yeast)
- 60s ribosomal protein l21-a (18 kDa, Protein from baker's yeast)
- 40s ribosomal protein s8-a (22 kDa, Protein from baker's yeast)
- 60s ribosomal protein l39 (6 kDa, Protein from baker's yeast)
- 40s ribosomal protein s16-a (15 kDa, Protein from baker's yeast)
- 60s ribosomal protein l34-a (12 kDa, Protein from baker's yeast)
- 60s ribosomal protein l33-a (12 kDa, Protein from baker's yeast)
- 60s ribosomal protein l35-a (13 kDa, Protein from baker's yeast)
- 60s ribosomal protein l37-a (9 kDa, Protein from baker's yeast)
- 40s ribosomal protein s2 (23 kDa, Protein from baker's yeast)
- 40s ribosomal protein s29-a (6 kDa, Protein from baker's yeast)
- 40s ribosomal protein s0-a (22 kDa, Protein from baker's yeast)
- 40s ribosomal protein s6-a (26 kDa, Protein from baker's yeast)
- 40s ribosomal protein s22-a (14 kDa, Protein from baker's yeast)
- 25s rrna (1 MDa, RNA from Saccharomyces cerevisiae)
- 60s ribosomal protein l36-a (11 kDa, Protein from baker's yeast)
- 40s ribosomal protein s25-a (9 kDa, Protein from baker's yeast)
- 40s ribosomal protein s24-a (15 kDa, Protein from baker's yeast)
- Rpl10 isoform 1 (25 kDa, Protein from baker's yeast)
- 60s ribosomal protein l26-a (14 kDa, Protein from baker's yeast)
- 60s ribosomal protein l14-a (14 kDa, Protein from baker's yeast)
- 40s ribosomal protein s30-a (6 kDa, Protein from baker's yeast)
- 40s ribosomal protein s28-a (7 kDa, Protein from baker's yeast)
- 60s ribosomal protein l5 (33 kDa, Protein from baker's yeast)
- 40s ribosomal protein s23-a (15 kDa, Protein from baker's yeast)
- 60s ribosomal protein l16-a (22 kDa, Protein from baker's yeast)
- 40s ribosomal protein s9-a (21 kDa, Protein from baker's yeast)
- Guanine nucleotide-binding protein subunit beta-like protein (34 kDa, Protein from baker's yeast)
- Yeast 80s ribosome in complex with map1 (Complex from Saccharomyces cerevisiae)
- 40s ribosomal protein s27-a (8 kDa, Protein from baker's yeast)
- 60s ribosomal protein l43-a (9 kDa, Protein from baker's yeast)
- 60s ribosomal protein l18-a (20 kDa, Protein from baker's yeast)
- 40s ribosomal protein s21-a (9 kDa, Protein from baker's yeast)
- 60s ribosomal protein l24-a (14 kDa, Protein from baker's yeast)
- 60s ribosomal protein l23-a (14 kDa, Protein from baker's yeast)
- 40s ribosomal protein s15 (16 kDa, Protein from baker's yeast)
- 40s ribosomal protein s19-a (15 kDa, Protein from baker's yeast)
- 60s ribosomal protein l30 (10 kDa, Protein from baker's yeast)
- 60s ribosomal protein l28 (16 kDa, Protein from baker's yeast)
- 60s ribosomal protein l9-a (21 kDa, Protein from baker's yeast)
- 40s ribosomal protein s12 (13 kDa, Protein from baker's yeast)
- 40s ribosomal protein s7-a (21 kDa, Protein from baker's yeast)
- 60s ribosomal protein l22-a (11 kDa, Protein from baker's yeast)
- Rpl11b isoform 1 (19 kDa, Protein from baker's yeast)
- 60s ribosomal protein l4-a (39 kDa, Protein from baker's yeast)
- 60s ribosomal protein l19-a (21 kDa, Protein from baker's yeast)
- 60s ribosomal protein l6-b (19 kDa, Protein from baker's yeast)
- 40s ribosomal protein s4-a (29 kDa, Protein from baker's yeast)
- 5.8s rrna (50 kDa, RNA from baker's yeast)
- 60s ribosomal protein l17-a (20 kDa, Protein from baker's yeast)
- 60s ribosomal protein l20-a (20 kDa, Protein from baker's yeast)
- 60s ribosomal protein l42-a (11 kDa, Protein from baker's yeast)
- 60s ribosomal protein l15-a (24 kDa, Protein from baker's yeast)
Giardia ribosome chimeric hybrid-like GDP+Pi bound state (B1)
Resolution: 3.4 Å
EM Method: Single-particle
Fitted PDBs: 8bsi
Q-score: 0.521
Majumdar S, Emmerich A, Krakovka S, Mandava CS, Svard SG, Sanyal S
Nucleic Acids Res (2023) 51 pp. 3436-3451 [ Pubmed: 36912103 DOI: doi:10.1093/nar/gkad176 ]
- Ribosomal protein l19 (23 kDa, Protein from Giardia intestinalis)
- Ribosomal protein s28 (7 kDa, Protein from Giardia intestinalis)
- 40s ribosomal protein s30 (7 kDa, Protein from Giardia intestinalis)
- Ribosomal protein l2 (27 kDa, Protein from Giardia intestinalis)
- Ribosomal protein s9 (21 kDa, Protein from Giardia intestinalis)
- Phosphate ion (94 Da, Ligand)
- Ribosomal protein l35a (13 kDa, Protein from Giardia intestinalis)
- Ribosomal protein s23 (15 kDa, Protein from Giardia intestinalis)
- Ribosomal protein s14 (15 kDa, Protein from Giardia intestinalis)
- Ribosomal protein l26 (15 kDa, Protein from Giardia intestinalis)
- 40s ribosomal protein s25 (10 kDa, Protein from Giardia intestinalis)
- Ribosomal protein l14 (14 kDa, Protein from Giardia intestinalis)
- Ribosomal protein l11 (19 kDa, Protein from Giardia intestinalis)
- Ribosomal protein s15 (16 kDa, Protein from Giardia intestinalis)
- Ribosomal protein l37a (10 kDa, Protein from Giardia intestinalis)
- 40s ribosomal protein sa (28 kDa, Protein from Giardia intestinalis)
- Ribosomal l22e (14 kDa, Protein from Giardia intestinalis)
- Ribosomal protein l10 (24 kDa, Protein from Giardia intestinalis)
- Ribosomal protein l18 (20 kDa, Protein from Giardia intestinalis)
- Ribosomal protein s13 (17 kDa, Protein from Giardia intestinalis)
- Ribosomal protein l37 (10 kDa, Protein from Giardia intestinalis)
- Ribosomal protein s20 (14 kDa, Protein from Giardia intestinalis)
- Ribosomal protein l10a (24 kDa, Protein from Giardia intestinalis)
- Ribosomal protein l24 (22 kDa, Protein from Giardia intestinalis)
- E-site trna (24 kDa, RNA from Giardia intestinalis)
- Ribosomal protein l13a (22 kDa, Protein from Giardia intestinalis)
- Ribosomal protein l3 (42 kDa, Protein from Giardia intestinalis)
- 60s ribosomal protein l41 (3 kDa, Protein from Giardia intestinalis)
- Ribosomal protein s2 (26 kDa, Protein from Giardia intestinalis)
- Ribosomal protein l6 (20 kDa, Protein from Giardia intestinalis)
- Ribosomal protein s29a (6 kDa, Protein from Giardia intestinalis)
- 40s ribosomal protein s4 (30 kDa, Protein from Giardia intestinalis)
- Ribosomal protein l4 (35 kDa, Protein from Giardia intestinalis)
- Ribosomal protein s27 (9 kDa, Protein from Giardia intestinalis)
- Ribosomal protein s15a (14 kDa, Protein from Giardia intestinalis)
- Ribosomal protein l23a (16 kDa, Protein from Giardia intestinalis)
- Ribosomal protein s18 (17 kDa, Protein from Giardia intestinalis)
- 60s ribosomal protein l18a (20 kDa, Protein from Giardia intestinalis)
- Ribosomal protein l30 (11 kDa, Protein from Giardia intestinalis)
- Ribosomal protein l17 (18 kDa, Protein from Giardia intestinalis)
- Large subunit rrna (874 kDa, RNA from Giardia intestinalis)
- Guanosine-5'-diphosphate (443 Da, Ligand)
- Ribosomal protein s10b (15 kDa, Protein from Giardia intestinalis)
- Mrna (3 kDa, RNA from Giardia intestinalis)
- Ribosomal protein l21 (18 kDa, Protein from Giardia intestinalis)
- Ribosomal protein s17 (15 kDa, Protein from Giardia intestinalis)
- Ribosomal protein l34 (13 kDa, Protein from Giardia intestinalis)
- Small subunit rrna (471 kDa, RNA from Giardia intestinalis)
- Ubiquitin/ribosomal protein l40e (14 kDa, Protein from Giardia intestinalis)
- 60s ribosomal protein l29 (7 kDa, Protein from Giardia intestinalis)
- Ribosomal protein l7 (27 kDa, Protein from Giardia intestinalis)
- 40s ribosomal protein s3a (28 kDa, Protein from Giardia intestinalis)
- Ribosomal protein l44 (12 kDa, Protein from Giardia intestinalis)
- Ribosomal protein s16 (17 kDa, Protein from Giardia intestinalis)
- Ribosomal protein l29 (14 kDa, Protein from Giardia intestinalis)
- 5s rrna (38 kDa, RNA from Giardia intestinalis)
- Ribosomal protein l5 (33 kDa, Protein from Giardia intestinalis)
- 40s ribosomal protein s7 (21 kDa, Protein from Giardia intestinalis)
- Elongation factor 2 (99 kDa, Protein from Giardia intestinalis)
- 60s ribosomal protein l13 (26 kDa, Protein from Giardia intestinalis)
- Ribosomal protein s24 (14 kDa, Protein from Giardia intestinalis)
- Ribosomal protein l31b (12 kDa, Protein from Giardia intestinalis)
- Ribosomal protein l32 (15 kDa, Protein from Giardia intestinalis)
- Giardia ribosome chimeric hybrid-like gdp+pi bound state (b1) (Complex from Giardia intestinalis)
- Ribosomal protein l36-1 (10 kDa, Protein from Giardia intestinalis)
- Ribosomal protein l23 (15 kDa, Protein from Giardia intestinalis)
- Ribosomal protein s5 (21 kDa, Protein from Giardia intestinalis)
- 60s ribosomal protein l7a (25 kDa, Protein from Giardia intestinalis)
- 40s ribosomal protein s21 (9 kDa, Protein from Giardia intestinalis)
- 40s ribosomal protein s26 (12 kDa, Protein from Giardia intestinalis)
- 40s ribosomal protein s6 (28 kDa, Protein from Giardia intestinalis)
- 5.8s rrna (45 kDa, RNA from Giardia intestinalis)
- Ribosomal protein s3 (24 kDa, Protein from Giardia intestinalis)
- Ribosomal l38e (8 kDa, Protein from Giardia intestinalis)
- Ribosomal protein l39 (6 kDa, Protein from Giardia intestinalis)
- 60s ribosomal protein l27 (15 kDa, Protein from Giardia intestinalis)
- Ribosomal protein s11 (18 kDa, Protein from Giardia intestinalis)
- Ribosomal protein l27a (17 kDa, Protein from Giardia intestinalis)
- Ribosomal protein l15 (24 kDa, Protein from Giardia intestinalis)
- Ribosomal protein s19e (15 kDa, Protein from Giardia intestinalis)
- 40s ribosomal protein s8 (19 kDa, Protein from Giardia intestinalis)