Resolution: 2.9 Å
EM Method: Single-particle
Fitted PDBs: 8g7p
Q-score: 0.557
Nat Struct Mol Biol (2024) 31 pp. 810-816 [ Pubmed: 38538914 DOI: doi:10.1038/s41594-024-01236-3 ]
- 30s ribosomal protein s10 (11 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l20 (13 kDa, Protein from Escherichia coli)
- 30s ribosomal protein s17 (9 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l23 (11 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l22 (12 kDa, Protein from Escherichia coli)
- 23s ribosomal rna (941 kDa, RNA from Escherichia coli)
- 30s ribosomal protein s11 (13 kDa, Protein from Escherichia coli)
- 30s ribosomal protein s5 (17 kDa, Protein from Escherichia coli)
- 30s ribosomal protein s21 (8 kDa, Protein from Escherichia coli)
- 30s ribosomal protein s20 (9 kDa, Protein from Escherichia coli)
- M-i mrna (8 kDa, RNA from Escherichia phage T4)
- 50s ribosomal protein l11 (14 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l15 (14 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l13 (16 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l36 (4 kDa, Protein from Escherichia coli)
- 30s ribosomal protein s2 (26 kDa, Protein from Escherichia coli)
- 30s ribosomal protein s12 (13 kDa, Protein from Escherichia coli)
- 30s ribosomal protein s19 (10 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l14 (13 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l27 (9 kDa, Protein from Escherichia coli)
- Ribosomal protein l21 (11 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l4 (22 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l17 (14 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l5 (20 kDa, Protein from Escherichia coli)
- Isoleucine (131 Da, Ligand)
- 5s ribosomal rna (38 kDa, RNA from Escherichia coli)
- 50s ribosomal protein l28 (9 kDa, Protein from Escherichia coli)
- Potassium ion (39 Da, Ligand)
- 50s ribosomal protein l9 (15 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l18 (12 kDa, Protein from Escherichia coli)
- Zinc ion (65 Da, Ligand)
- 30s ribosomal protein s18 (9 kDa, Protein from Escherichia coli)
- 30s ribosomal protein s6 (15 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l24 (11 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l34 (5 kDa, Protein from Escherichia coli)
- Elongation factor tu (43 kDa, Protein from Escherichia coli)
- 16s ribosomal rna (499 kDa, RNA from Escherichia coli)
- 50s ribosomal protein l19 (13 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l35 (7 kDa, Protein from Escherichia coli)
- Structure of the escherichia coli 70s ribosome in complex with ef-tu and ile-trnaile(lau) bound to the cognate aua codon (structure i) (2 MDa, Complex from Escherichia coli)
- 30s ribosomal protein s9 (14 kDa, Protein from Escherichia coli)
- 30s ribosomal protein s4 (23 kDa, Protein from Escherichia coli)
- Isoleucine trna (24 kDa, RNA from Escherichia coli)
- 50s ribosomal protein l33 (6 kDa, Protein from Escherichia coli)
- 30s ribosomal protein s14 (11 kDa, Protein from Escherichia coli)
- Water (18 Da, Ligand)
- Magnesium ion (24 Da, Ligand)
- 50s ribosomal protein l6 (18 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l32 (6 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l31 (7 kDa, Protein from Escherichia coli)
- 30s ribosomal protein s15 (10 kDa, Protein from Escherichia coli)
- 30s ribosomal protein s13 (13 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l2 (29 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l30 (6 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l25 (10 kDa, Protein from Escherichia coli)
- 30s ribosomal protein s7 (17 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l3 (22 kDa, Protein from Escherichia coli)
- 30s ribosomal protein s3 (26 kDa, Protein from Escherichia coli)
- P-site initiator trna (24 kDa, RNA from Escherichia coli)
- 30s ribosomal protein s8 (14 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l29 (7 kDa, Protein from Escherichia coli)
- Phosphomethylphosphonic acid guanylate ester (521 Da, Ligand)
- 50s ribosomal protein l16 (15 kDa, Protein from Escherichia coli)
- 30s ribosomal protein s16 (9 kDa, Protein from Escherichia coli)
Resolution: 2.8 Å
EM Method: Single-particle
Fitted PDBs: 8g7r
Q-score: 0.534
Nat Struct Mol Biol (2024) 31 pp. 810-816 [ Pubmed: 38538914 DOI: doi:10.1038/s41594-024-01236-3 ]
- Potassium ion (39 Da, Ligand)
- 16s ribosomal rna (499 kDa, RNA from Escherichia coli)
- 50s ribosomal protein l31 (7 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l18 (12 kDa, Protein from Escherichia coli)
- 30s ribosomal protein s14 (11 kDa, Protein from Escherichia coli)
- 30s ribosomal protein s18 (9 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l36 (4 kDa, Protein from Escherichia coli)
- 5s ribosomal rna (38 kDa, RNA from Escherichia coli)
- 50s ribosomal protein l28 (9 kDa, Protein from Escherichia coli)
- 30s ribosomal protein s5 (17 kDa, Protein from Escherichia coli)
- 30s ribosomal protein s8 (14 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l2 (29 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l27 (9 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l5 (20 kDa, Protein from Escherichia coli)
- 30s ribosomal protein s10 (11 kDa, Protein from Escherichia coli)
- 30s ribosomal protein s21 (8 kDa, Protein from Escherichia coli)
- 30s ribosomal protein s12 (13 kDa, Protein from Escherichia coli)
- Paromomycin (615 Da, Ligand)
- 50s ribosomal protein l9 (15 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)
- 30s ribosomal protein s9 (14 kDa, Protein from Escherichia coli)
- 30s ribosomal protein s15 (10 kDa, Protein from Escherichia coli)
- 30s ribosomal protein s2 (26 kDa, Protein from Escherichia coli)
- 23s ribosomal rna (941 kDa, RNA from Escherichia coli)
- 50s ribosomal protein l17 (14 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l15 (14 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l32 (6 kDa, Protein from Escherichia coli)
- 30s ribosomal protein s13 (13 kDa, Protein from Escherichia coli)
- Isoleucine trna (24 kDa, RNA from Escherichia coli)
- 50s ribosomal protein l35 (7 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l16 (15 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l34 (5 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l14 (13 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l22 (12 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l24 (11 kDa, Protein from Escherichia coli)
- Magnesium ion (24 Da, Ligand)
- P-site initiator trna (24 kDa, RNA from Escherichia coli)
- 50s ribosomal protein l30 (6 kDa, Protein from Escherichia coli)
- Isoleucine (131 Da, Ligand)
- 50s ribosomal protein l3 (22 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l19 (13 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l23 (11 kDa, Protein from Escherichia coli)
- Zinc ion (65 Da, Ligand)
- 30s ribosomal protein s6 (15 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l6 (18 kDa, Protein from Escherichia coli)
- 30s ribosomal protein s11 (13 kDa, Protein from Escherichia coli)
- 30s ribosomal protein s16 (9 kDa, Protein from Escherichia coli)
- M-i mrna (8 kDa, RNA from Escherichia phage T4)
- 30s ribosomal protein s3 (26 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l20 (13 kDa, Protein from Escherichia coli)
- 30s ribosomal protein s20 (9 kDa, Protein from Escherichia coli)
- Water (18 Da, Ligand)
- Ribosomal protein l21 (11 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l13 (16 kDa, Protein from Escherichia coli)
- Structure of the escherichia coli 70s ribosome in complex with a-site trnaile(lau) bound to the cognate aua codon (structure iii) (2 MDa, Complex from Escherichia coli)
- 30s ribosomal protein s7 (17 kDa, Protein from Escherichia coli)
- 30s ribosomal protein s17 (9 kDa, Protein from Escherichia coli)
- 30s ribosomal protein s19 (10 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l4 (22 kDa, Protein from Escherichia coli)
- 30s ribosomal protein s4 (23 kDa, Protein from Escherichia coli)
- 50s ribosomal protein l29 (7 kDa, Protein from Escherichia coli)
Human nucleolar pre-60S ribosomal subunit (State B1) - Composite map
Resolution: 2.89 Å
EM Method: Single-particle
Fitted PDBs: 8fkr
Q-score: 0.497
Science (2023) 381 pp. eadh3892-eadh3892 [ DOI: doi:10.1126/science.adh3892 Pubmed: 37410842 ]
- Gtp-binding protein 4 (74 kDa, Protein from human)
- 60s ribosomal protein l26 (17 kDa, Protein from human)
- Pescadillo homolog (68 kDa, Protein from human)
- 60s ribosomal protein l36 (12 kDa, Protein from human)
- 60s ribosomal protein l15 (24 kDa, Protein from human)
- Ribosomal rna processing protein 1 homolog a (52 kDa, Protein from human)
- Ribosomal l1 domain-containing protein 1 (55 kDa, Protein from human)
- 60s ribosomal protein l27a (16 kDa, Protein from human)
- Pre-rrna 2'-o-ribose rna methyltransferase ftsj3 (96 kDa, Protein from human)
- 60s ribosomal protein l18a (20 kDa, Protein from human)
- Surfeit locus protein 6 (41 kDa, Protein from human)
- Mki67 fha domain-interacting nucleolar phosphoprotein (34 kDa, Protein from human)
- 28s rrna (1 MDa, RNA from human)
- Nucleolar protein 16 (21 kDa, Protein from human)
- 60s ribosomal protein l23a (17 kDa, Protein from human)
- 60s ribosomal protein l7-like 1 (29 kDa, Protein from human)
- 60s ribosomal protein l35a (12 kDa, Protein from human)
- Guanosine-5'-diphosphate (443 Da, Ligand)
- 60s ribosomal protein l37 (11 kDa, Protein from human)
- Potassium ion (39 Da, Ligand)
- 60s ribosomal protein l18 (21 kDa, Protein from human)
- 60s ribosomal protein l13 (24 kDa, Protein from human)
- Zinc ion (65 Da, Ligand)
- Guanine nucleotide-binding protein-like 3 (62 kDa, Protein from human)
- 60s ribosomal protein l35 (14 kDa, Protein from human)
- Rrp15-like protein (31 kDa, Protein from human)
- Eukaryotic translation initiation factor 6 (26 kDa, Protein from human)
- Ribosome biogenesis protein bop1 (83 kDa, Protein from human)
- Wd repeat-containing protein 74 (42 kDa, Protein from human)
- 5.8s rrna (50 kDa, RNA from human)
- Atp-dependent rna helicase ddx18 (75 kDa, Protein from human)
- 60s ribosomal protein l23 (14 kDa, Protein from human)
- Its2 rrna (376 kDa, RNA from human)
- 60s ribosomal protein l7 (29 kDa, Protein from human)
- 60s ribosomal protein l32 (15 kDa, Protein from human)
- 60s ribosomal protein l7a (30 kDa, Protein from human)
- 60s ribosomal protein l9 (21 kDa, Protein from human)
- 60s ribosomal protein l4 (47 kDa, Protein from human)
- 60s ribosomal protein l21 (18 kDa, Protein from human)
- Ribosome biogenesis protein brx1 homolog (41 kDa, Protein from human)
- Ribosome biogenesis regulatory protein homolog (41 kDa, Protein from human)
- Human nucleolar pre-60s ribosomal subunit (state b1) (Complex from Homo sapiens)
- Probable ribosome biogenesis protein rlp24 (19 kDa, Protein from human)
- 60s ribosomal protein l6 (32 kDa, Protein from human)
- Magnesium ion (24 Da, Ligand)
- 60s ribosomal protein l13a (23 kDa, Protein from human)
- Ribosome biogenesis protein nsa2 homolog (30 kDa, Protein from human)
- 60s ribosomal protein l17 (21 kDa, Protein from human)
- Iron/sulfur cluster (351 Da, Ligand)
- Suppressor of swi4 1 homolog (53 kDa, Protein from human)
- Ribosome production factor 1 (40 kDa, Protein from human)
- 60s ribosomal protein l12 (17 kDa, Protein from human)
- Mrna turnover protein 4 homolog (27 kDa, Protein from human)
- 60s ribosomal protein l14 (23 kDa, Protein from human)
- 60s ribosomal protein l3 (46 kDa, Protein from human)
- Protein mak16 homolog (35 kDa, Protein from human)
- Probable rrna-processing protein ebp2 (34 kDa, Protein from human)
Human nucleolar pre-60S ribosomal subunit (State B2) - Composite map
Resolution: 2.88 Å
EM Method: Single-particle
Fitted PDBs: 8fks
Q-score: 0.498
Science (2023) 381 pp. eadh3892-eadh3892 [ DOI: doi:10.1126/science.adh3892 Pubmed: 37410842 ]
- Gtp-binding protein 4 (74 kDa, Protein from human)
- 60s ribosomal protein l26 (17 kDa, Protein from human)
- Pescadillo homolog (68 kDa, Protein from human)
- 60s ribosomal protein l36 (12 kDa, Protein from human)
- 60s ribosomal protein l15 (24 kDa, Protein from human)
- Ribosomal l1 domain-containing protein 1 (55 kDa, Protein from human)
- 60s ribosomal protein l27a (16 kDa, Protein from human)
- Pre-rrna 2'-o-ribose rna methyltransferase ftsj3 (96 kDa, Protein from human)
- 60s ribosomal protein l18a (20 kDa, Protein from human)
- Surfeit locus protein 6 (41 kDa, Protein from human)
- Mki67 fha domain-interacting nucleolar phosphoprotein (34 kDa, Protein from human)
- 28s rrna (1 MDa, RNA from human)
- Nucleolar protein 16 (21 kDa, Protein from human)
- 60s ribosomal protein l23a (17 kDa, Protein from human)
- 60s ribosomal protein l7-like 1 (29 kDa, Protein from human)
- 60s ribosomal protein l35a (12 kDa, Protein from human)
- Guanosine-5'-diphosphate (443 Da, Ligand)
- 60s ribosomal protein l37 (11 kDa, Protein from human)
- Potassium ion (39 Da, Ligand)
- 60s ribosomal protein l18 (21 kDa, Protein from human)
- 60s ribosomal protein l13 (24 kDa, Protein from human)
- Zinc ion (65 Da, Ligand)
- Eukaryotic translation initiation factor 6 (26 kDa, Protein from human)
- 60s ribosomal protein l35 (14 kDa, Protein from human)
- Rrp15-like protein (31 kDa, Protein from human)
- Ribosome biogenesis protein bop1 (83 kDa, Protein from human)
- 5.8s rrna (50 kDa, RNA from human)
- Atp-dependent rna helicase ddx18 (75 kDa, Protein from human)
- 60s ribosomal protein l23 (14 kDa, Protein from human)
- Its2 rrna (376 kDa, RNA from human)
- 60s ribosomal protein l7 (29 kDa, Protein from human)
- 60s ribosomal protein l32 (15 kDa, Protein from human)
- 60s ribosomal protein l7a (30 kDa, Protein from human)
- 60s ribosomal protein l9 (21 kDa, Protein from human)
- 60s ribosomal protein l4 (47 kDa, Protein from human)
- 60s ribosomal protein l21 (18 kDa, Protein from human)
- Ribosome biogenesis protein brx1 homolog (41 kDa, Protein from human)
- Ribosome biogenesis regulatory protein homolog (41 kDa, Protein from human)
- Probable ribosome biogenesis protein rlp24 (19 kDa, Protein from human)
- Magnesium ion (24 Da, Ligand)
- 60s ribosomal protein l6 (32 kDa, Protein from human)
- 60s ribosomal protein l13a (23 kDa, Protein from human)
- Ribosome biogenesis protein nsa2 homolog (30 kDa, Protein from human)
- 60s ribosomal protein l17 (21 kDa, Protein from human)
- Suppressor of swi4 1 homolog (53 kDa, Protein from human)
- 60s ribosomal protein l28 (15 kDa, Protein from human)
- 60s ribosomal protein l12 (17 kDa, Protein from human)
- Mrna turnover protein 4 homolog (27 kDa, Protein from human)
- Human nucleolar pre-60s ribosomal subunit (state b2) (Complex from Homo sapiens)
- 60s ribosomal protein l14 (23 kDa, Protein from human)
- 60s ribosomal protein l3 (46 kDa, Protein from human)
- Probable rrna-processing protein ebp2 (34 kDa, Protein from human)
Human nucleolar pre-60S ribosomal subunit (State C1) - Composite map
Resolution: 2.81 Å
EM Method: Single-particle
Fitted PDBs: 8fkt
Q-score: 0.524
Science (2023) 381 pp. eadh3892-eadh3892 [ DOI: doi:10.1126/science.adh3892 Pubmed: 37410842 ]
- Probable ribosome biogenesis protein rlp24 (19 kDa, Protein from human)
- 60s ribosomal protein l18a (20 kDa, Protein from human)
- Potassium ion (39 Da, Ligand)
- Probable rrna-processing protein ebp2 (34 kDa, Protein from human)
- 60s ribosomal protein l23 (14 kDa, Protein from human)
- 60s ribosomal protein l12 (17 kDa, Protein from human)
- 60s ribosomal protein l17 (21 kDa, Protein from human)
- Adenosine-5'-diphosphate (427 Da, Ligand)
- 60s ribosomal protein l10a (24 kDa, Protein from human)
- 60s ribosomal protein l37 (11 kDa, Protein from human)
- 60s ribosomal protein l32 (15 kDa, Protein from human)
- Human nucleolar pre-60s ribosomal subunit (state c1) (Complex from Homo sapiens)
- 60s ribosomal protein l7 (29 kDa, Protein from human)
- Eukaryotic translation initiation factor 6 (26 kDa, Protein from human)
- 60s ribosomal protein l14 (23 kDa, Protein from human)
- Pescadillo homolog (68 kDa, Protein from human)
- Magnesium ion (24 Da, Ligand)
- Protein mak16 homolog (35 kDa, Protein from human)
- 60s ribosomal protein l13a (23 kDa, Protein from human)
- 60s ribosomal protein l18 (21 kDa, Protein from human)
- 60s ribosome subunit biogenesis protein nip7 homolog (20 kDa, Protein from human)
- Ribosome production factor 1 (40 kDa, Protein from human)
- 60s ribosomal protein l13 (24 kDa, Protein from human)
- Gtp-binding protein 4 (74 kDa, Protein from human)
- Its2 rrna (376 kDa, RNA from human)
- 60s ribosomal protein l3 (46 kDa, Protein from human)
- 60s ribosomal protein l26 (17 kDa, Protein from human)
- Wd repeat-containing protein 74 (42 kDa, Protein from human)
- Probable 28s rrna (cytosine(4447)-c(5))-methyltransferase (89 kDa, Protein from human)
- Atp-dependent rna helicase ddx18 (75 kDa, Protein from human)
- Iron/sulfur cluster (351 Da, Ligand)
- 5.8s rrna (50 kDa, RNA from human)
- Ribosome biogenesis regulatory protein homolog (41 kDa, Protein from human)
- Guanosine-5'-diphosphate (443 Da, Ligand)
- 60s ribosomal protein l27a (16 kDa, Protein from human)
- 60s ribosomal protein l23a (17 kDa, Protein from human)
- 60s ribosomal protein l36 (12 kDa, Protein from human)
- Nucleolar protein 16 (21 kDa, Protein from human)
- 28s rrna (1 MDa, RNA from human)
- Ribosomal l1 domain-containing protein 1 (55 kDa, Protein from human)
- 60s ribosomal protein l6 (32 kDa, Protein from human)
- Protein llp homolog (15 kDa, Protein from human)
- Zinc ion (65 Da, Ligand)
- Ribosomal rna processing protein 1 homolog a (52 kDa, Protein from human)
- 60s ribosomal protein l4 (47 kDa, Protein from human)
- 60s ribosomal protein l35 (14 kDa, Protein from human)
- Ribosome biogenesis protein nsa2 homolog (30 kDa, Protein from human)
- 60s ribosomal protein l35a (12 kDa, Protein from human)
- Pre-rrna 2'-o-ribose rna methyltransferase ftsj3 (96 kDa, Protein from human)
- 60s ribosomal protein l7a (30 kDa, Protein from human)
- 60s ribosomal protein l15 (24 kDa, Protein from human)
- 60s ribosomal protein l7-like 1 (29 kDa, Protein from human)
- Ribosome biogenesis protein bop1 (83 kDa, Protein from human)
- Mki67 fha domain-interacting nucleolar phosphoprotein (34 kDa, Protein from human)
- Guanine nucleotide-binding protein-like 3 (62 kDa, Protein from human)
- Atp-dependent rna helicase ddx54 (98 kDa, Protein from human)
- 60s ribosomal protein l21 (18 kDa, Protein from human)
- Ribosome biogenesis protein brx1 homolog (41 kDa, Protein from human)
- 60s ribosomal protein l9 (21 kDa, Protein from human)
- Mrna turnover protein 4 homolog (27 kDa, Protein from human)
Human nucleolar pre-60S ribosomal subunit (State C2) - Composite map
Resolution: 2.82 Å
EM Method: Single-particle
Fitted PDBs: 8fku
Q-score: 0.528
Science (2023) 381 pp. eadh3892-eadh3892 [ DOI: doi:10.1126/science.adh3892 Pubmed: 37410842 ]
- Probable ribosome biogenesis protein rlp24 (19 kDa, Protein from human)
- 60s ribosomal protein l18a (20 kDa, Protein from human)
- Potassium ion (39 Da, Ligand)
- Probable rrna-processing protein ebp2 (34 kDa, Protein from human)
- 60s ribosomal protein l23 (14 kDa, Protein from human)
- 60s ribosomal protein l12 (17 kDa, Protein from human)
- 60s ribosomal protein l17 (21 kDa, Protein from human)
- Adenosine-5'-diphosphate (427 Da, Ligand)
- 60s ribosomal protein l10a (24 kDa, Protein from human)
- 60s ribosomal protein l37 (11 kDa, Protein from human)
- 60s ribosomal protein l32 (15 kDa, Protein from human)
- 60s ribosomal protein l7 (29 kDa, Protein from human)
- Eukaryotic translation initiation factor 6 (26 kDa, Protein from human)
- 60s ribosomal protein l14 (23 kDa, Protein from human)
- Human nucleolar pre-60s ribosomal subunit (state c2) (Complex from Homo sapiens)
- Pescadillo homolog (68 kDa, Protein from human)
- Magnesium ion (24 Da, Ligand)
- 60s ribosomal protein l13a (23 kDa, Protein from human)
- 60s ribosomal protein l18 (21 kDa, Protein from human)
- 60s ribosome subunit biogenesis protein nip7 homolog (20 kDa, Protein from human)
- 60s ribosomal protein l13 (24 kDa, Protein from human)
- Gtp-binding protein 4 (74 kDa, Protein from human)
- Its2 rrna (376 kDa, RNA from human)
- 60s ribosomal protein l3 (46 kDa, Protein from human)
- 60s ribosomal protein l26 (17 kDa, Protein from human)
- Probable 28s rrna (cytosine(4447)-c(5))-methyltransferase (89 kDa, Protein from human)
- 60s ribosomal protein l28 (15 kDa, Protein from human)
- Atp-dependent rna helicase ddx18 (75 kDa, Protein from human)
- 5.8s rrna (50 kDa, RNA from human)
- Ribosome biogenesis regulatory protein homolog (41 kDa, Protein from human)
- Guanosine-5'-diphosphate (443 Da, Ligand)
- 60s ribosomal protein l27a (16 kDa, Protein from human)
- 60s ribosomal protein l23a (17 kDa, Protein from human)
- 60s ribosomal protein l36 (12 kDa, Protein from human)
- Nucleolar protein 16 (21 kDa, Protein from human)
- 28s rrna (1 MDa, RNA from human)
- Ribosomal l1 domain-containing protein 1 (55 kDa, Protein from human)
- 60s ribosomal protein l6 (32 kDa, Protein from human)
- Protein llp homolog (15 kDa, Protein from human)
- Zinc ion (65 Da, Ligand)
- 60s ribosomal protein l4 (47 kDa, Protein from human)
- 60s ribosomal protein l35 (14 kDa, Protein from human)
- Ribosome biogenesis protein nsa2 homolog (30 kDa, Protein from human)
- 60s ribosomal protein l35a (12 kDa, Protein from human)
- Pre-rrna 2'-o-ribose rna methyltransferase ftsj3 (96 kDa, Protein from human)
- 60s ribosomal protein l7a (30 kDa, Protein from human)
- 60s ribosomal protein l15 (24 kDa, Protein from human)
- 60s ribosomal protein l7-like 1 (29 kDa, Protein from human)
- Ribosome biogenesis protein bop1 (83 kDa, Protein from human)
- Mki67 fha domain-interacting nucleolar phosphoprotein (34 kDa, Protein from human)
- Guanine nucleotide-binding protein-like 3 (62 kDa, Protein from human)
- Atp-dependent rna helicase ddx54 (98 kDa, Protein from human)
- 60s ribosomal protein l21 (18 kDa, Protein from human)
- Ribosome biogenesis protein brx1 homolog (41 kDa, Protein from human)
- 60s ribosomal protein l9 (21 kDa, Protein from human)
- Mrna turnover protein 4 homolog (27 kDa, Protein from human)
Human nucleolar pre-60S ribosomal subunit (State D1) - Composite map
Resolution: 2.47 Å
EM Method: Single-particle
Fitted PDBs: 8fkv
Q-score: 0.549
Science (2023) 381 pp. eadh3892-eadh3892 [ DOI: doi:10.1126/science.adh3892 Pubmed: 37410842 ]
- Probable ribosome biogenesis protein rlp24 (19 kDa, Protein from human)
- 60s ribosomal protein l18a (20 kDa, Protein from human)
- Potassium ion (39 Da, Ligand)
- Probable rrna-processing protein ebp2 (34 kDa, Protein from human)
- 60s ribosomal protein l23 (14 kDa, Protein from human)
- 60s ribosomal protein l12 (17 kDa, Protein from human)
- 60s ribosomal protein l17 (21 kDa, Protein from human)
- Adenosine-5'-diphosphate (427 Da, Ligand)
- 60s ribosomal protein l10a (24 kDa, Protein from human)
- 60s ribosomal protein l37 (11 kDa, Protein from human)
- 60s ribosomal protein l32 (15 kDa, Protein from human)
- 60s ribosomal protein l7 (29 kDa, Protein from human)
- Eukaryotic translation initiation factor 6 (26 kDa, Protein from human)
- Nucleolar complex protein 3 homolog (92 kDa, Protein from human)
- Human nucleolar pre-60s ribosomal subunit (state d1) (Complex from Homo sapiens)
- 60s ribosomal protein l14 (23 kDa, Protein from human)
- Pescadillo homolog (68 kDa, Protein from human)
- Magnesium ion (24 Da, Ligand)
- Protein mak16 homolog (35 kDa, Protein from human)
- 60s ribosomal protein l13a (23 kDa, Protein from human)
- 60s ribosomal protein l18 (21 kDa, Protein from human)
- 60s ribosome subunit biogenesis protein nip7 homolog (20 kDa, Protein from human)
- Ribosome production factor 1 (40 kDa, Protein from human)
- 60s ribosomal protein l13 (24 kDa, Protein from human)
- Gtp-binding protein 4 (74 kDa, Protein from human)
- Its2 rrna (376 kDa, RNA from human)
- 60s ribosomal protein l3 (46 kDa, Protein from human)
- 60s ribosomal protein l26 (17 kDa, Protein from human)
- Wd repeat-containing protein 74 (42 kDa, Protein from human)
- Probable 28s rrna (cytosine(4447)-c(5))-methyltransferase (89 kDa, Protein from human)
- Atp-dependent rna helicase ddx18 (75 kDa, Protein from human)
- Iron/sulfur cluster (351 Da, Ligand)
- 5.8s rrna (50 kDa, RNA from human)
- Ribosome biogenesis regulatory protein homolog (41 kDa, Protein from human)
- Guanosine-5'-diphosphate (443 Da, Ligand)
- 60s ribosomal protein l27a (16 kDa, Protein from human)
- 60s ribosomal protein l23a (17 kDa, Protein from human)
- 60s ribosomal protein l36 (12 kDa, Protein from human)
- Nucleolar protein 16 (21 kDa, Protein from human)
- 28s rrna (1 MDa, RNA from human)
- Nucleolar complex protein 2 homolog (85 kDa, Protein from human)
- 60s ribosomal protein l6 (32 kDa, Protein from human)
- Ribosomal l1 domain-containing protein 1 (55 kDa, Protein from human)
- Protein llp homolog (15 kDa, Protein from human)
- Zinc ion (65 Da, Ligand)
- Ribosomal rna processing protein 1 homolog a (52 kDa, Protein from human)
- 60s ribosomal protein l4 (47 kDa, Protein from human)
- 60s ribosomal protein l35 (14 kDa, Protein from human)
- Ribosome biogenesis protein nsa2 homolog (30 kDa, Protein from human)
- 60s ribosomal protein l35a (12 kDa, Protein from human)
- Pre-rrna 2'-o-ribose rna methyltransferase ftsj3 (96 kDa, Protein from human)
- 60s ribosomal protein l7a (30 kDa, Protein from human)
- 60s ribosomal protein l15 (24 kDa, Protein from human)
- 60s ribosomal protein l31 (14 kDa, Protein from human)
- 60s ribosomal protein l7-like 1 (29 kDa, Protein from human)
- Ribosome biogenesis protein bop1 (83 kDa, Protein from human)
- Mki67 fha domain-interacting nucleolar phosphoprotein (34 kDa, Protein from human)
- Guanine nucleotide-binding protein-like 3 (62 kDa, Protein from human)
- Atp-dependent rna helicase ddx54 (98 kDa, Protein from human)
- 60s ribosomal protein l21 (18 kDa, Protein from human)
- Ribosome biogenesis protein brx1 homolog (41 kDa, Protein from human)
- 60s ribosomal protein l9 (21 kDa, Protein from human)
- Mrna turnover protein 4 homolog (27 kDa, Protein from human)
Human nucleolar pre-60S ribosomal subunit (State D2) - Composite map
Resolution: 2.5 Å
EM Method: Single-particle
Fitted PDBs: 8fkw
Q-score: 0.546
Science (2023) 381 pp. eadh3892-eadh3892 [ DOI: doi:10.1126/science.adh3892 Pubmed: 37410842 ]
- 60s ribosomal protein l32 (15 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l18 (21 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l7a (30 kDa, Protein from Homo sapiens)
- Ribosome biogenesis protein brx1 homolog (41 kDa, Protein from Homo sapiens)
- Mrna turnover protein 4 homolog (27 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l36 (12 kDa, Protein from Homo sapiens)
- Ribosome biogenesis regulatory protein homolog (41 kDa, Protein from Homo sapiens)
- Nucleolar complex protein 3 homolog (92 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l18a (20 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l7 (29 kDa, Protein from Homo sapiens)
- Probable ribosome biogenesis protein rlp24 (19 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l10a (24 kDa, Protein from Homo sapiens)
- Probable rrna-processing protein ebp2 (34 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l15 (24 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l6 (32 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l27a (16 kDa, Protein from Homo sapiens)
- Atp-dependent rna helicase ddx18 (75 kDa, Protein from Homo sapiens)
- Adenosine-5'-diphosphate (427 Da, Ligand)
- Pescadillo homolog (68 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l28 (15 kDa, Protein from Homo sapiens)
- Ribosome biogenesis protein bop1 (83 kDa, Protein from Homo sapiens)
- 28s rrna (1 MDa, RNA from Homo sapiens)
- 60s ribosomal protein l31 (14 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l23a (17 kDa, Protein from Homo sapiens)
- Guanosine-5'-diphosphate (443 Da, Ligand)
- 60s ribosomal protein l21 (18 kDa, Protein from Homo sapiens)
- Potassium ion (39 Da, Ligand)
- 60s ribosomal protein l13 (24 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l14 (23 kDa, Protein from Homo sapiens)
- Zinc ion (65 Da, Ligand)
- 60s ribosomal protein l35 (14 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l9 (21 kDa, Protein from Homo sapiens)
- Pre-rrna 2'-o-ribose rna methyltransferase ftsj3 (96 kDa, Protein from Homo sapiens)
- Atp-dependent rna helicase ddx54 (98 kDa, Protein from Homo sapiens)
- Probable 28s rrna (cytosine(4447)-c(5))-methyltransferase (89 kDa, Protein from Homo sapiens)
- Human nucleolar pre-60s ribosomal subunit (state d2) (Complex from Homo sapiens)
- 60s ribosomal protein l26 (17 kDa, Protein from Homo sapiens)
- Its2 rrna (376 kDa, RNA from Homo sapiens)
- Nucleolar complex protein 2 homolog (85 kDa, Protein from Homo sapiens)
- Nucleolar protein 16 (21 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l37 (11 kDa, Protein from Homo sapiens)
- 5.8s rrna (50 kDa, RNA from Homo sapiens)
- Guanine nucleotide-binding protein-like 3 (62 kDa, Protein from Homo sapiens)
- Mki67 fha domain-interacting nucleolar phosphoprotein (34 kDa, Protein from Homo sapiens)
- Protein llp homolog (15 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l7-like 1 (29 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l12 (17 kDa, Protein from Homo sapiens)
- Gtp-binding protein 4 (74 kDa, Protein from Homo sapiens)
- Magnesium ion (24 Da, Ligand)
- Eukaryotic translation initiation factor 6 (26 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l23 (14 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l4 (47 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l35a (12 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l13a (23 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l3 (46 kDa, Protein from Homo sapiens)
- Ribosome biogenesis protein nsa2 homolog (30 kDa, Protein from Homo sapiens)
- Ribosomal l1 domain-containing protein 1 (55 kDa, Protein from Homo sapiens)
- 60s ribosome subunit biogenesis protein nip7 homolog (20 kDa, Protein from Homo sapiens)
- 60s ribosomal protein l17 (21 kDa, Protein from Homo sapiens)
Human nucleolar pre-60S ribosomal subunit (State E) - Composite map
Resolution: 2.59 Å
EM Method: Single-particle
Fitted PDBs: 8fkx
Q-score: 0.535
Science (2023) 381 pp. eadh3892-eadh3892 [ DOI: doi:10.1126/science.adh3892 Pubmed: 37410842 ]
- Probable ribosome biogenesis protein rlp24 (19 kDa, Protein from human)
- 60s ribosomal protein l18a (20 kDa, Protein from human)
- Potassium ion (39 Da, Ligand)
- Probable rrna-processing protein ebp2 (34 kDa, Protein from human)
- 60s ribosomal protein l23 (14 kDa, Protein from human)
- 60s ribosomal protein l12 (17 kDa, Protein from human)
- 60s ribosomal protein l17 (21 kDa, Protein from human)
- Adenosine-5'-diphosphate (427 Da, Ligand)
- 60s ribosomal protein l10a (24 kDa, Protein from human)
- 60s ribosomal protein l37 (11 kDa, Protein from human)
- 60s ribosomal protein l32 (15 kDa, Protein from human)
- 60s ribosomal protein l7 (29 kDa, Protein from human)
- Eukaryotic translation initiation factor 6 (26 kDa, Protein from human)
- Nucleolar complex protein 3 homolog (92 kDa, Protein from human)
- 60s ribosomal protein l14 (23 kDa, Protein from human)
- Pescadillo homolog (68 kDa, Protein from human)
- Magnesium ion (24 Da, Ligand)
- 60s ribosomal protein l13a (23 kDa, Protein from human)
- 60s ribosomal protein l18 (21 kDa, Protein from human)
- 60s ribosome subunit biogenesis protein nip7 homolog (20 kDa, Protein from human)
- 60s ribosomal protein l13 (24 kDa, Protein from human)
- Gtp-binding protein 4 (74 kDa, Protein from human)
- Its2 rrna (376 kDa, RNA from human)
- 60s ribosomal protein l3 (46 kDa, Protein from human)
- 60s ribosomal protein l26 (17 kDa, Protein from human)
- Probable 28s rrna (cytosine(4447)-c(5))-methyltransferase (89 kDa, Protein from human)
- 60s ribosomal protein l28 (15 kDa, Protein from human)
- Atp-dependent rna helicase ddx18 (75 kDa, Protein from human)
- 5.8s rrna (50 kDa, RNA from human)
- Ribosome biogenesis regulatory protein homolog (41 kDa, Protein from human)
- Guanosine-5'-diphosphate (443 Da, Ligand)
- 60s ribosomal protein l27a (16 kDa, Protein from human)
- 60s ribosomal protein l23a (17 kDa, Protein from human)
- 60s ribosomal protein l36 (12 kDa, Protein from human)
- Nucleolar protein 16 (21 kDa, Protein from human)
- 28s rrna (1 MDa, RNA from human)
- Nucleolar complex protein 2 homolog (85 kDa, Protein from human)
- 60s ribosomal protein l6 (32 kDa, Protein from human)
- Ribosomal l1 domain-containing protein 1 (55 kDa, Protein from human)
- Protein llp homolog (15 kDa, Protein from human)
- Zinc ion (65 Da, Ligand)
- 60s ribosomal protein l4 (47 kDa, Protein from human)
- Human nucleolar pre-60s ribosomal subunit (state e) (Complex from Homo sapiens)
- 60s ribosomal protein l35 (14 kDa, Protein from human)
- Ribosome biogenesis protein nsa2 homolog (30 kDa, Protein from human)
- 60s ribosomal protein l35a (12 kDa, Protein from human)
- Pre-rrna 2'-o-ribose rna methyltransferase ftsj3 (96 kDa, Protein from human)
- 60s ribosomal protein l7a (30 kDa, Protein from human)
- 60s ribosomal protein l15 (24 kDa, Protein from human)
- 60s ribosomal protein l31 (14 kDa, Protein from human)
- 60s ribosomal protein l7-like 1 (29 kDa, Protein from human)
- Ribosome biogenesis protein bop1 (83 kDa, Protein from human)
- Mki67 fha domain-interacting nucleolar phosphoprotein (34 kDa, Protein from human)
- Guanine nucleotide-binding protein-like 3 (62 kDa, Protein from human)
- Atp-dependent rna helicase ddx54 (98 kDa, Protein from human)
- 60s ribosomal protein l21 (18 kDa, Protein from human)
- Ribosome biogenesis protein brx1 homolog (41 kDa, Protein from human)
- 60s ribosomal protein l9 (21 kDa, Protein from human)
- Mrna turnover protein 4 homolog (27 kDa, Protein from human)
Human nucleolar pre-60S ribosomal subunit (State F) - Composite map
Resolution: 2.67 Å
EM Method: Single-particle
Fitted PDBs: 8fky
Q-score: 0.519
Science (2023) 381 pp. eadh3892-eadh3892 [ DOI: doi:10.1126/science.adh3892 Pubmed: 37410842 ]
- Gtp-binding protein 4 (74 kDa, Protein from human)
- 60s ribosomal protein l26 (17 kDa, Protein from human)
- Pescadillo homolog (68 kDa, Protein from human)
- 60s ribosome subunit biogenesis protein nip7 homolog (20 kDa, Protein from human)
- 60s ribosomal protein l36 (12 kDa, Protein from human)
- 60s ribosomal protein l15 (24 kDa, Protein from human)
- Ribosomal l1 domain-containing protein 1 (55 kDa, Protein from human)
- 60s ribosomal protein l27a (16 kDa, Protein from human)
- Pre-rrna 2'-o-ribose rna methyltransferase ftsj3 (96 kDa, Protein from human)
- Adenosine-5'-diphosphate (427 Da, Ligand)
- 60s ribosomal protein l18a (20 kDa, Protein from human)
- Human nucleolar pre-60s ribosomal subunit (state f) (Complex from Homo sapiens)
- Protein llp homolog (15 kDa, Protein from human)
- Mki67 fha domain-interacting nucleolar phosphoprotein (34 kDa, Protein from human)
- Nucleolar complex protein 3 homolog (92 kDa, Protein from human)
- Nucleolar protein 16 (21 kDa, Protein from human)
- 60s ribosomal protein l23a (17 kDa, Protein from human)
- 28s rrna (1 MDa, RNA from human)
- 60s ribosomal protein l7-like 1 (29 kDa, Protein from human)
- Wd repeat-containing protein 55 (42 kDa, Protein from human)
- 60s ribosomal protein l35a (12 kDa, Protein from human)
- Guanosine-5'-diphosphate (443 Da, Ligand)
- 60s ribosomal protein l37 (11 kDa, Protein from human)
- Potassium ion (39 Da, Ligand)
- 60s ribosomal protein l30 (12 kDa, Protein from human)
- 60s ribosomal protein l18 (21 kDa, Protein from human)
- 60s ribosomal protein l13 (24 kDa, Protein from human)
- 60s ribosomal protein l34 (13 kDa, Protein from human)
- Guanine nucleotide-binding protein-like 3 (62 kDa, Protein from human)
- 60s ribosomal protein l35 (14 kDa, Protein from human)
- Eukaryotic translation initiation factor 6 (26 kDa, Protein from human)
- Zinc ion (65 Da, Ligand)
- Ribosome biogenesis protein bop1 (83 kDa, Protein from human)
- 5.8s rrna (50 kDa, RNA from human)
- 60s ribosomal protein l10a (24 kDa, Protein from human)
- Atp-dependent rna helicase ddx18 (75 kDa, Protein from human)
- 60s ribosomal protein l23 (14 kDa, Protein from human)
- Its2 rrna (376 kDa, RNA from human)
- 60s ribosomal protein l7 (29 kDa, Protein from human)
- 60s ribosomal protein l32 (15 kDa, Protein from human)
- 60s ribosomal protein l7a (30 kDa, Protein from human)
- 60s ribosomal protein l9 (21 kDa, Protein from human)
- 60s ribosomal protein l4 (47 kDa, Protein from human)
- 60s ribosomal protein l21 (18 kDa, Protein from human)
- 60s ribosomal protein l27 (15 kDa, Protein from human)
- Ribosome biogenesis protein brx1 homolog (41 kDa, Protein from human)
- Ribosome biogenesis regulatory protein homolog (41 kDa, Protein from human)
- Probable ribosome biogenesis protein rlp24 (19 kDa, Protein from human)
- 60s ribosomal protein l6 (32 kDa, Protein from human)
- Magnesium ion (24 Da, Ligand)
- 60s ribosomal protein l13a (23 kDa, Protein from human)
- 60s ribosomal protein l31 (14 kDa, Protein from human)
- 60s ribosomal protein l17 (21 kDa, Protein from human)
- Ribosome biogenesis protein nsa2 homolog (30 kDa, Protein from human)
- Atp-dependent rna helicase ddx54 (98 kDa, Protein from human)
- 60s ribosomal protein l28 (15 kDa, Protein from human)
- 60s ribosomal protein l12 (17 kDa, Protein from human)
- Probable 28s rrna (cytosine(4447)-c(5))-methyltransferase (89 kDa, Protein from human)
- Mrna turnover protein 4 homolog (27 kDa, Protein from human)
- 60s ribosomal protein l19 (23 kDa, Protein from human)
- 60s ribosomal protein l14 (23 kDa, Protein from human)
- 60s ribosomal protein l3 (46 kDa, Protein from human)
- Nucleolar complex protein 2 homolog (85 kDa, Protein from human)
- Ribosome biogenesis protein wdr12 (47 kDa, Protein from human)
- Probable rrna-processing protein ebp2 (34 kDa, Protein from human)