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CryoEM structure of DDB1-VprBP-Vpr-UNG2(94-313) complex
Resolution: 3.7 Å
EM Method: Single-particle
Fitted PDBs: 7v7c
Q-score: 0.283
To Be Published
- Ddb1-vprbp-vpr-ung2(94-313) complex (660 kDa, Complex from Homo sapiens)
- Uracil-dna glycosylase (25 kDa, Protein from Homo sapiens)
- Ddb1- and cul4-associated factor 1 (169 kDa, Protein from Homo sapiens)
- Protein vpr (11 kDa, Protein from Human immunodeficiency virus 1)
- Dna damage-binding protein 1 (127 kDa, Protein from Homo sapiens)
Structure of yeast Ubr1 in complex with Ubc2 and monoubiquitinated N-degron
Resolution: 3.67 Å
EM Method: Single-particle
Fitted PDBs: 7mey
Q-score: 0.407
Pan M, Zheng Q, Wang T, Liang L, Mao J, Zuo C, Ding R, Ai H, Xie Y, Si D, Yu Y, Liu L, Zhao M
Nature (2021) 600 pp. 334-338 [ DOI: doi:10.1038/s41586-021-04097-8 Pubmed: 34789879 ]
- Ubiquitin (8 kDa, Protein from Homo sapiens)
- Yeast ubr1 in complex with ubc2 and monoubiquitinated n-degron (Complex from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Ubiquitin (8 kDa, Protein from Homo sapiens)
- Ubiquitin-conjugating enzyme e2 2 (19 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Monoubiquitinated n-degron (4 kDa, Protein from Saccharomyces cerevisiae S288C)
- E3 ubiquitin-protein ligase ubr1 (225 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- 2-(ethylamino)ethane-1-thiol (105 Da, Ligand)
- Zinc ion (65 Da, Ligand)
Resolution: 3.9 Å
EM Method: Single-particle
Fitted PDBs: 7ohp
Q-score: 0.295
Poll G, Pilsl M, Griesenbeck J, Tschochner H, Milkereit P
PLoS One (2021) 16 pp. e0252497-e0252497 [ DOI: doi:10.1371/journal.pone.0252497 Pubmed: 34813592 ]
- 60s ribosomal protein l26-a (14 kDa, Protein from Baker's yeast)
- 60s ribosomal protein l3 (43 kDa, Protein from Baker's yeast)
- 60s ribosomal protein l6-a (20 kDa, Protein from Baker's yeast)
- 60s ribosomal protein l17-a (20 kDa, Protein from Baker's yeast)
- 60s ribosomal protein l14-a (15 kDa, Protein from Baker's yeast)
- 60s ribosomal protein l20-a (20 kDa, Protein from Baker's yeast)
- Ribosome biogenesis protein 15 (25 kDa, Protein from Baker's yeast)
- 60s ribosomal protein l33-a (12 kDa, Protein from Baker's yeast)
- Eukaryotic translation initiation factor 6 (26 kDa, Protein from Baker's yeast)
- 60s ribosomal protein l23-a (14 kDa, Protein from Baker's yeast)
- 60s ribosomal protein l15-a (24 kDa, Protein from Baker's yeast)
- 25s rrna (1 MDa, RNA from Saccharomyces cerevisiae S288C)
- Proteasome-interacting protein cic1 (42 kDa, Protein from Baker's yeast)
- 60s ribosomal protein l9-a (21 kDa, Protein from Baker's yeast)
- 60s ribosomal protein l37-a (9 kDa, Protein from Baker's yeast)
- 60s ribosomal protein l7-a (27 kDa, Protein from Baker's yeast)
- Atp-dependent rna helicase has1 (56 kDa, Protein from Baker's yeast)
- Ribosome assembly factor mrt4 (27 kDa, Protein from Baker's yeast)
- 60s ribosomal protein l4-a (39 kDa, Protein from Baker's yeast)
- Nucleolar gtp-binding protein 1 (74 kDa, Protein from Baker's yeast)
- 5.8s rrna (50 kDa, RNA from Saccharomyces cerevisiae S288c)
- 60s ribosomal protein l36-a (11 kDa, Protein from Baker's yeast)
- Pescadillo homolog (69 kDa, Protein from Baker's yeast)
- 60s ribosomal protein l8-a (28 kDa, Protein from Baker's yeast)
- Ribosome biogenesis protein rlp7 (36 kDa, Protein from Baker's yeast)
- 60s ribosomal protein l35-a (13 kDa, Protein from Baker's yeast)
- Nucleolar protein 16 (26 kDa, Protein from Baker's yeast)
- 60s ribosomal protein l18-a (20 kDa, Protein from Baker's yeast)
- Zinc ion (65 Da, Ligand)
- Nog1-tap associated immature ribosomal particles from cells depleted of rpl25. (Complex from Saccharomyces cerevisiae S288C)
- 60s ribosomal protein l16-a (22 kDa, Protein from Baker's yeast)
- Ribosome biogenesis protein nsa2 (29 kDa, Protein from Baker's yeast)
- 60s ribosomal protein l13-a (22 kDa, Protein from Baker's yeast)
- Its2 (74 kDa, RNA from Saccharomyces cerevisiae S288C)
- 60s ribosomal protein l32 (14 kDa, Protein from Baker's yeast)
- Ribosome biogenesis protein erb1 (91 kDa, Protein from Baker's yeast)
Nog1-TAP associated immature ribosomal particle population C from S. cerevisiae
Resolution: 3.1 Å
EM Method: Single-particle
Fitted PDBs: 7ohq
Q-score: 0.417
Poll G, Pilsl M, Griesenbeck J, Tschochner H, Milkereit P
PLoS One (2021) 16 pp. e0252497-e0252497 [ DOI: doi:10.1371/journal.pone.0252497 Pubmed: 34813592 ]
- 60s ribosomal protein l26-a (14 kDa, Protein from Baker's yeast)
- 60s ribosomal protein l3 (43 kDa, Protein from Baker's yeast)
- 60s ribosomal protein l19-a (21 kDa, Protein from Baker's yeast)
- 60s ribosomal protein l6-a (20 kDa, Protein from Baker's yeast)
- 60s ribosomal protein l17-a (20 kDa, Protein from Baker's yeast)
- 60s ribosomal protein l14-a (15 kDa, Protein from Baker's yeast)
- 60s ribosomal protein l20-a (20 kDa, Protein from Baker's yeast)
- 60s ribosomal protein l30 (11 kDa, Protein from Baker's yeast)
- 60s ribosomal protein l34-a (13 kDa, Protein from Baker's yeast)
- 60s ribosomal protein l43-a (10 kDa, Protein from Baker's yeast)
- 60s ribosomal protein l21-a (18 kDa, Protein from Baker's yeast)
- Ribosome biogenesis protein 15 (25 kDa, Protein from Baker's yeast)
- 60s ribosomal protein l33-a (12 kDa, Protein from Baker's yeast)
- Nog1-tap associated immature ribosomal particles. (Complex from Saccharomyces cerevisiae S288C)
- 60s ribosomal protein l39 (6 kDa, Protein from Baker's yeast)
- Nuclear gtp-binding protein nug1 (57 kDa, Protein from Baker's yeast)
- Regulator of ribosome biosynthesis (23 kDa, Protein from Baker's yeast)
- 60s ribosomal protein l5 (33 kDa, Protein from Baker's yeast)
- Eukaryotic translation initiation factor 6 (26 kDa, Protein from Baker's yeast)
- 60s ribosomal protein l11-a (19 kDa, Protein from Baker's yeast)
- 60s ribosomal protein l22-a (13 kDa, Protein from Baker's yeast)
- 60s ribosomal protein l23-a (14 kDa, Protein from Baker's yeast)
- 60s ribosomal protein l28 (16 kDa, Protein from Baker's yeast)
- 60s ribosomal protein l15-a (24 kDa, Protein from Baker's yeast)
- 60s ribosomal protein l25 (15 kDa, Protein from Baker's yeast)
- Rrna-processing protein cgr1 (14 kDa, Protein from Baker's yeast)
- 60s ribosomal protein l9-a (21 kDa, Protein from Baker's yeast)
- Proteasome-interacting protein cic1 (42 kDa, Protein from Baker's yeast)
- 60s ribosomal protein l37-a (9 kDa, Protein from Baker's yeast)
- Ribosome biogenesis protein nop53 (52 kDa, Protein from Baker's yeast)
- 60s ribosomal protein l7-a (27 kDa, Protein from Baker's yeast)
- Ribosome assembly protein 4 (57 kDa, Protein from Baker's yeast)
- Ribosome assembly factor mrt4 (27 kDa, Protein from Baker's yeast)
- Nucleolar gtp-binding protein 2 (55 kDa, Protein from Baker's yeast)
- 60s ribosomal protein l31-a (12 kDa, Protein from Baker's yeast)
- 60s ribosomal protein l4-a (39 kDa, Protein from Baker's yeast)
- Nucleolar gtp-binding protein 1 (74 kDa, Protein from Baker's yeast)
- Upf0642 protein ybl028c (12 kDa, Protein from Baker's yeast)
- 5.8s rrna (50 kDa, RNA from Saccharomyces cerevisiae S288c)
- 60s ribosomal protein l36-a (11 kDa, Protein from Baker's yeast)
- Pescadillo homolog (69 kDa, Protein from Baker's yeast)
- 60s ribosomal protein l8-a (28 kDa, Protein from Baker's yeast)
- 5s rrna (38 kDa, RNA from Saccharomyces cerevisiae S288c)
- Ribosome biogenesis protein rlp7 (36 kDa, Protein from Baker's yeast)
- 60s ribosomal protein l2-a (27 kDa, Protein from Baker's yeast)
- 60s ribosomal protein l35-a (13 kDa, Protein from Baker's yeast)
- 60s ribosomal protein l18-a (20 kDa, Protein from Baker's yeast)
- Zinc ion (65 Da, Ligand)
- 60s ribosomal protein l16-a (22 kDa, Protein from Baker's yeast)
- Ribosome biogenesis protein nsa2 (29 kDa, Protein from Baker's yeast)
- 60s ribosomal protein l13-a (22 kDa, Protein from Baker's yeast)
- Its2 (74 kDa, RNA from Saccharomyces cerevisiae S288C)
- Ribosome biogenesis protein rlp24 (24 kDa, Protein from Baker's yeast)
- 25s rrna (1 MDa, RNA from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Magnesium ion (24 Da, Ligand)
- 60s ribosomal protein l38 (8 kDa, Protein from Baker's yeast)
- 60s ribosomal protein l32 (14 kDa, Protein from Baker's yeast)
- Ribosome biogenesis protein rpf2 (39 kDa, Protein from Baker's yeast)
- 60s ribosomal protein l27-a (15 kDa, Protein from Baker's yeast)
Resolution: 3.9 Å
EM Method: Single-particle
Fitted PDBs: 7ohv
Q-score: 0.324
Poll G, Pilsl M, Griesenbeck J, Tschochner H, Milkereit P
PLoS One (2021) 16 pp. e0252497-e0252497 [ DOI: doi:10.1371/journal.pone.0252497 Pubmed: 34813592 ]
- 60s ribosomal protein l26-a (14 kDa, Protein from Baker's yeast)
- 60s ribosomal protein l3 (43 kDa, Protein from Baker's yeast)
- 60s ribosomal protein l19-a (21 kDa, Protein from Baker's yeast)
- 60s ribosomal protein l6-a (20 kDa, Protein from Baker's yeast)
- 60s ribosomal protein l17-a (20 kDa, Protein from Baker's yeast)
- 60s ribosomal protein l14-a (15 kDa, Protein from Baker's yeast)
- 60s ribosomal protein l20-a (20 kDa, Protein from Baker's yeast)
- Ribosome biogenesis protein 15 (25 kDa, Protein from Baker's yeast)
- 60s ribosomal protein l33-a (12 kDa, Protein from Baker's yeast)
- Nog1-tap associated immature ribosomal particles from cells depleted of rpl2. (Complex from Saccharomyces cerevisiae S288C)
- Eukaryotic translation initiation factor 6 (26 kDa, Protein from Baker's yeast)
- Rrna-processing protein ebp2 (49 kDa, Protein from Baker's yeast)
- 60s ribosomal protein l22-a (13 kDa, Protein from Baker's yeast)
- 60s ribosomal protein l23-a (14 kDa, Protein from Baker's yeast)
- Ribosome biogenesis protein brx1 (33 kDa, Protein from Baker's yeast)
- 60s ribosomal protein l28 (16 kDa, Protein from Baker's yeast)
- 60s ribosomal protein l15-a (24 kDa, Protein from Baker's yeast)
- 60s ribosomal protein l25 (15 kDa, Protein from Baker's yeast)
- Proteasome-interacting protein cic1 (42 kDa, Protein from Baker's yeast)
- 60s ribosomal protein l9-a (21 kDa, Protein from Baker's yeast)
- 60s ribosomal protein l37-a (9 kDa, Protein from Baker's yeast)
- 60s ribosomal protein l7-a (27 kDa, Protein from Baker's yeast)
- 27s pre-rrna (guanosine(2922)-2'-o)-methyltransferase (96 kDa, Protein from Baker's yeast)
- Ribosome biogenesis protein erb1 (91 kDa, Protein from Baker's yeast)
- Atp-dependent rna helicase has1 (56 kDa, Protein from Baker's yeast)
- Ribosome assembly factor mrt4 (27 kDa, Protein from Baker's yeast)
- 60s ribosomal protein l31-a (12 kDa, Protein from Baker's yeast)
- 60s ribosomal protein l4-a (39 kDa, Protein from Baker's yeast)
- Nucleolar gtp-binding protein 1 (74 kDa, Protein from Baker's yeast)
- 5.8s rrna (50 kDa, RNA from Saccharomyces cerevisiae S288c)
- 60s ribosomal protein l36-a (11 kDa, Protein from Baker's yeast)
- Pescadillo homolog (69 kDa, Protein from Baker's yeast)
- 60s ribosomal protein l8-a (28 kDa, Protein from Baker's yeast)
- Ribosome biogenesis protein rlp7 (36 kDa, Protein from Baker's yeast)
- 60s ribosomal protein l35-a (13 kDa, Protein from Baker's yeast)
- Nucleolar protein 16 (26 kDa, Protein from Baker's yeast)
- 60s ribosomal protein l18-a (20 kDa, Protein from Baker's yeast)
- Zinc ion (65 Da, Ligand)
- 60s ribosomal protein l16-a (22 kDa, Protein from Baker's yeast)
- Ribosome biogenesis protein nsa2 (29 kDa, Protein from Baker's yeast)
- 60s ribosomal protein l13-a (22 kDa, Protein from Baker's yeast)
- Its2 (74 kDa, RNA from Saccharomyces cerevisiae S288C)
- Ribosome biogenesis protein rlp24 (24 kDa, Protein from Baker's yeast)
- Ribosome biogenesis protein ytm1 (51 kDa, Protein from Baker's yeast)
- 25s rrna (1 MDa, RNA from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- 60s ribosomal protein l38 (8 kDa, Protein from Baker's yeast)
- 60s ribosomal protein l32 (14 kDa, Protein from Baker's yeast)
- 60s ribosomal protein l27-a (15 kDa, Protein from Baker's yeast)
Resolution: 3.5 Å
EM Method: Single-particle
Fitted PDBs: 7ohw
Q-score: 0.361
Poll G, Pilsl M, Griesenbeck J, Tschochner H, Milkereit P
PLoS One (2021) 16 pp. e0252497-e0252497 [ DOI: doi:10.1371/journal.pone.0252497 Pubmed: 34813592 ]
- 60s ribosomal protein l26-a (14 kDa, Protein from Baker's yeast)
- 60s ribosomal protein l3 (43 kDa, Protein from Baker's yeast)
- 60s ribosomal protein l6-a (20 kDa, Protein from Baker's yeast)
- 60s ribosomal protein l17-a (20 kDa, Protein from Baker's yeast)
- 60s ribosomal protein l14-a (15 kDa, Protein from Baker's yeast)
- 60s ribosomal protein l20-a (20 kDa, Protein from Baker's yeast)
- Ribosome biogenesis protein 15 (25 kDa, Protein from Baker's yeast)
- 60s ribosomal protein l33-a (12 kDa, Protein from Baker's yeast)
- Eukaryotic translation initiation factor 6 (26 kDa, Protein from Baker's yeast)
- Protein mak16 (35 kDa, Protein from Baker's yeast)
- Rrna-processing protein ebp2 (49 kDa, Protein from Baker's yeast)
- 60s ribosomal protein l23-a (14 kDa, Protein from Baker's yeast)
- Ribosome biogenesis protein brx1 (33 kDa, Protein from Baker's yeast)
- 60s ribosomal protein l15-a (24 kDa, Protein from Baker's yeast)
- 25s rrna (1 MDa, RNA from Saccharomyces cerevisiae S288C)
- Proteasome-interacting protein cic1 (42 kDa, Protein from Baker's yeast)
- 60s ribosomal protein l9-a (21 kDa, Protein from Baker's yeast)
- 60s ribosomal protein l37-a (9 kDa, Protein from Baker's yeast)
- 60s ribosomal protein l7-a (27 kDa, Protein from Baker's yeast)
- Ribosome production factor 1 (35 kDa, Protein from Baker's yeast)
- Ribosomal rna-processing protein 1 (33 kDa, Protein from Baker's yeast)
- Atp-dependent rna helicase has1 (56 kDa, Protein from Baker's yeast)
- Ribosome assembly factor mrt4 (27 kDa, Protein from Baker's yeast)
- 60s ribosomal protein l4-a (39 kDa, Protein from Baker's yeast)
- Nucleolar gtp-binding protein 1 (74 kDa, Protein from Baker's yeast)
- 5.8s rrna (50 kDa, RNA from Saccharomyces cerevisiae S288c)
- 60s ribosomal protein l36-a (11 kDa, Protein from Baker's yeast)
- Pescadillo homolog (69 kDa, Protein from Baker's yeast)
- Ribosome biogenesis protein nsa1 (51 kDa, Protein from Baker's yeast)
- 60s ribosomal protein l8-a (28 kDa, Protein from Baker's yeast)
- Ribosome biogenesis protein rlp7 (36 kDa, Protein from Baker's yeast)
- 60s ribosomal protein l35-a (13 kDa, Protein from Baker's yeast)
- Nucleolar protein 16 (26 kDa, Protein from Baker's yeast)
- 60s ribosomal protein l18-a (20 kDa, Protein from Baker's yeast)
- Zinc ion (65 Da, Ligand)
- Nog1-tap associated immature ribosomal particles from cells depleted of rpl25. (Complex from Saccharomyces cerevisiae S288C)
- 60s ribosomal protein l16-a (22 kDa, Protein from Baker's yeast)
- Ribosome biogenesis protein nsa2 (29 kDa, Protein from Baker's yeast)
- 60s ribosomal protein l13-a (22 kDa, Protein from Baker's yeast)
- Its2 (74 kDa, RNA from Saccharomyces cerevisiae S288C)
- 60s ribosomal protein l32 (14 kDa, Protein from Baker's yeast)
- Ribosome biogenesis protein erb1 (91 kDa, Protein from Baker's yeast)
Resolution: 3.3 Å
EM Method: Single-particle
Fitted PDBs: 7ohx
Q-score: 0.345
Poll G, Pilsl M, Griesenbeck J, Tschochner H, Milkereit P
PLoS One (2021) 16 pp. e0252497-e0252497 [ DOI: doi:10.1371/journal.pone.0252497 Pubmed: 34813592 ]
- Nog1-tap associated immature ribosomal particles from cells depleted of rpl34. (Complex from Saccharomyces cerevisiae S288C)
- 60s ribosomal protein l26-a (14 kDa, Protein from Baker's yeast)
- 60s ribosomal protein l3 (43 kDa, Protein from Baker's yeast)
- 60s ribosomal protein l6-a (20 kDa, Protein from Baker's yeast)
- 60s ribosomal protein l17-a (20 kDa, Protein from Baker's yeast)
- 60s ribosomal protein l14-a (15 kDa, Protein from Baker's yeast)
- 60s ribosomal protein l20-a (20 kDa, Protein from Baker's yeast)
- Ribosome biogenesis protein 15 (25 kDa, Protein from Baker's yeast)
- 60s ribosomal protein l33-a (12 kDa, Protein from Baker's yeast)
- Eukaryotic translation initiation factor 6 (26 kDa, Protein from Baker's yeast)
- Protein mak16 (35 kDa, Protein from Baker's yeast)
- 60s ribosomal protein l15-a (24 kDa, Protein from Baker's yeast)
- 25s rrna (1 MDa, RNA from Saccharomyces cerevisiae S288C)
- Proteasome-interacting protein cic1 (42 kDa, Protein from Baker's yeast)
- 60s ribosomal protein l9-a (21 kDa, Protein from Baker's yeast)
- 60s ribosomal protein l37-a (9 kDa, Protein from Baker's yeast)
- 60s ribosomal protein l7-a (27 kDa, Protein from Baker's yeast)
- Ribosome production factor 1 (35 kDa, Protein from Baker's yeast)
- Ribosomal rna-processing protein 1 (33 kDa, Protein from Baker's yeast)
- Atp-dependent rna helicase has1 (56 kDa, Protein from Baker's yeast)
- Ribosome assembly factor mrt4 (27 kDa, Protein from Baker's yeast)
- 60s ribosomal protein l4-a (39 kDa, Protein from Baker's yeast)
- Nucleolar gtp-binding protein 1 (74 kDa, Protein from Baker's yeast)
- 5.8s rrna (50 kDa, RNA from Saccharomyces cerevisiae S288c)
- 60s ribosomal protein l36-a (11 kDa, Protein from Baker's yeast)
- Pescadillo homolog (69 kDa, Protein from Baker's yeast)
- Ribosome biogenesis protein nsa1 (51 kDa, Protein from Baker's yeast)
- 60s ribosomal protein l8-a (28 kDa, Protein from Baker's yeast)
- Ribosome biogenesis protein rlp7 (36 kDa, Protein from Baker's yeast)
- 60s ribosomal protein l35-a (13 kDa, Protein from Baker's yeast)
- Nucleolar protein 16 (26 kDa, Protein from Baker's yeast)
- 60s ribosomal protein l18-a (20 kDa, Protein from Baker's yeast)
- Zinc ion (65 Da, Ligand)
- 60s ribosomal protein l16-a (22 kDa, Protein from Baker's yeast)
- 60s ribosomal protein l13-a (22 kDa, Protein from Baker's yeast)
- Its2 (74 kDa, RNA from Saccharomyces cerevisiae S288C)
- Ribosome biogenesis protein rlp24 (24 kDa, Protein from Baker's yeast)
- 60s ribosomal protein l32 (14 kDa, Protein from Baker's yeast)
- Ribosome biogenesis protein erb1 (91 kDa, Protein from Baker's yeast)
Akirin2 bound human proteasome
Resolution: 3.2 Å
EM Method: Single-particle
Fitted PDBs: 7nht
Q-score: 0.547
de Almeida M, Hinterndorfer M, Brunner H, Grishkovskaya I, Singh K, Schleiffer A, Jude J, Deswal S, Kalis R, Vunjak M, Lendl T, Imre R, Roitinger E, Neumann T, Kandolf S, Schutzbier M, Mechtler K, Versteeg GA, Haselbach D, Zuber J
Nature (2021) 599 pp. 491-496 [ DOI: doi:10.1038/s41586-021-04035-8 Pubmed: 34711951 ]
- 20s proteasome (Complex from Homo sapiens)
- Proteasome subunit alpha type-2 (25 kDa, Protein from Human)
- Proteasome subunit alpha type-5 (26 kDa, Protein from Human)
- Proteasome subunit beta type-7 (30 kDa, Protein from Human)
- Proteasome subunit alpha type-4 (29 kDa, Protein from Human)
- Proteasome subunit alpha type-1 (29 kDa, Protein from Human)
- Proteasome subunit beta type-4 (29 kDa, Protein from Human)
- Proteasome subunit beta type-3 (22 kDa, Protein from Human)
- Potassium ion (39 Da, Ligand)
- Akirin2 (Complex from Homo sapiens)
- Akirin2 bound to 20s proteasome (780 kDa, Complex)
- Proteasome subunit alpha type-6 (27 kDa, Protein from Human)
- Proteasome subunit beta type-6 (25 kDa, Protein from Human)
- Proteasome subunit beta type-5 (28 kDa, Protein from Human)
- Proteasome subunit beta type-1 (26 kDa, Protein from Human)
- Proteasome subunit alpha type-3 (28 kDa, Protein from Human)
- Akirin-2 (22 kDa, Protein from Homo sapiens)
- Proteasome subunit beta type-2 (22 kDa, Protein from Human)
- Proteasome subunit alpha type-7 (27 kDa, Protein from Human)
Cryo-EM structure of a nucleolar pre-60S ribosome (Rpf1-TAP)
Resolution: 3.65 Å
EM Method: Single-particle
Fitted PDBs: 5z3g
Q-score: 0.422
Zhou D, Zhu X, Zheng S, Tan D, Dong MQ, Ye K
Protein Cell (2019) 10 pp. 120-130 [ Pubmed: 29557065 DOI: doi:10.1007/s13238-018-0526-7 ]
- 60s ribosomal protein l3 (43 kDa, Protein from Baker's yeast)
- Ribosome biogenesis protein rlp7 (36 kDa, Protein from Baker's yeast)
- 60s ribosomal protein l6-a (20 kDa, Protein from Baker's yeast)
- 60s ribosomal protein l20-a (20 kDa, Protein from Baker's yeast)
- 5.8s rrna (50 kDa, RNA from Baker's yeast)
- 60s ribosomal protein l14-a (15 kDa, Protein from Baker's yeast)
- Ribosome biogenesis protein 15 (25 kDa, Protein from Baker's yeast)
- 25s rrna (1 MDa, RNA from Baker's yeast)
- Eukaryotic translation initiation factor 6 (26 kDa, Protein from Baker's yeast)
- Nucleolar protein 7 (69 kDa, Protein from Baker's yeast)
- Ribosome biogenesis protein brx1 (33 kDa, Protein from Baker's yeast)
- Rrna-processing protein ebp2 (49 kDa, Protein from Baker's yeast)
- 60s ribosomal protein l8-a (28 kDa, Protein from Baker's yeast)
- 60s ribosomal protein l18-a (20 kDa, Protein from Baker's yeast)
- Protein mak16 (35 kDa, Protein from Baker's yeast)
- 60s ribosomal protein l26-a (14 kDa, Protein from Baker's yeast)
- 60s ribosomal protein l15-a (24 kDa, Protein from Baker's yeast)
- Proteasome-interacting protein cic1 (42 kDa, Protein from Baker's yeast)
- Unassigned (13 kDa, Protein from Baker's yeast)
- 60s ribosomal protein l37-a (9 kDa, Protein from Baker's yeast)
- Ribosome production factor 1 (35 kDa, Protein from Baker's yeast)
- Ribosomal rna-processing protein 1 (33 kDa, Protein from Baker's yeast)
- Atp-dependent rna helicase has1 (56 kDa, Protein from Baker's yeast)
- 60s ribosomal protein l16-a (22 kDa, Protein from Baker's yeast)
- 60s ribosomal protein l36-a (11 kDa, Protein from Baker's yeast)
- Ribosome biogenesis protein nsa1 (51 kDa, Protein from Baker's yeast)
- 60s ribosomal protein l9-a (21 kDa, Protein from Baker's yeast)
- Rpf1-tap pre-60s (Complex from Saccharomyces cerevisiae)
- 60s ribosomal protein l35-a (13 kDa, Protein from Baker's yeast)
- 60s ribosomal protein l4-a (39 kDa, Protein from Baker's yeast)
- 60s ribosomal protein l33-a (12 kDa, Protein from Baker's yeast)
- Its2 rna (74 kDa, RNA from Baker's yeast)
- 60s ribosomal protein l13-a (22 kDa, Protein from Baker's yeast)
- 60s ribosomal protein l17-a (20 kDa, Protein from Baker's yeast)
- 60s ribosomal protein l7-a (27 kDa, Protein from Baker's yeast)
- 60s ribosomal protein l32 (14 kDa, Protein from Baker's yeast)
Yeast nucleolar pre-60S ribosomal subunit (state 2)
Resolution: 3.7 Å
EM Method: Single-particle
Fitted PDBs: 6c0f
Q-score: 0.339
Sanghai ZA, Miller L, Molloy KR, Barandun J, Hunziker M, Chaker-Margot M, Wang J, Chait BT, Klinge S
Nature (2018) 556 pp. 126-129 [ Pubmed: 29512650 DOI: doi:10.1038/nature26156 ]
- Atp-dependent rna helicase has1 (56 kDa, Protein from Saccharomyces cerevisiae BY4741)
- Protein mak16 (35 kDa, Protein from Saccharomyces cerevisiae BY4741)
- Saccharomyces cerevisiae s288c 35s pre-ribosomal rna miscrna (1 MDa, RNA from Saccharomyces cerevisiae BY4741)
- 60s ribosomal protein l17-a (20 kDa, Protein from Saccharomyces cerevisiae BY4741)
- Ribosome biogenesis protein rlp7 (36 kDa, Protein from Saccharomyces cerevisiae BY4741)
- 60s ribosomal protein l23-a (14 kDa, Protein from Saccharomyces cerevisiae BY4741)
- 60s ribosomal protein l14-a (15 kDa, Protein from Saccharomyces cerevisiae BY4741)
- 60s ribosomal protein l37-a (9 kDa, Protein from Saccharomyces cerevisiae BY4741)
- Ribosome production factor 1 (35 kDa, Protein from Saccharomyces cerevisiae BY4741)
- 60s ribosomal protein l13-a (22 kDa, Protein from Saccharomyces cerevisiae BY4741)
- Pescadillo homolog (69 kDa, Protein from Saccharomyces cerevisiae BY4741)
- 60s ribosomal protein l18-a (20 kDa, Protein from Saccharomyces cerevisiae BY4741)
- Brx1-associated peptide (2 kDa, Protein from Saccharomyces cerevisiae BY4741)
- Protein mak11 (24 kDa, Protein from Saccharomyces cerevisiae BY4741)
- Ribosome biogenesis protein 15 (25 kDa, Protein from Saccharomyces cerevisiae BY4741)
- Ribosome biogenesis protein ssf1 (51 kDa, Protein from Saccharomyces cerevisiae BY4741)
- Ribosomal rna-processing protein 14 (50 kDa, Protein from Saccharomyces cerevisiae BY4741)
- 60s ribosomal protein l36-a (11 kDa, Protein from Saccharomyces cerevisiae BY4741)
- Ribosome biogenesis protein nsa1 (51 kDa, Protein from Saccharomyces cerevisiae BY4741)
- 60s ribosomal protein l6-a (20 kDa, Protein from Saccharomyces cerevisiae BY4741)
- Rrna-processing protein ebp2 (6 kDa, Protein from Saccharomyces cerevisiae BY4741)
- 60s ribosomal protein l35-a (13 kDa, Protein from Saccharomyces cerevisiae BY4741)
- Ribosome biogenesis protein erb1 (89 kDa, Protein from Saccharomyces cerevisiae BY4741)
- Eukaryotic translation initiation factor 6 (26 kDa, Protein from Saccharomyces cerevisiae BY4741)
- 60s ribosomal protein l3 (43 kDa, Protein from Saccharomyces cerevisiae BY4741)
- 60s ribosomal protein l8-a (28 kDa, Protein from Saccharomyces cerevisiae BY4741)
- Ribosome biogenesis protein brx1 (33 kDa, Protein from Saccharomyces cerevisiae BY4741)
- Ribosome biogenesis protein rlp24 (24 kDa, Protein from Saccharomyces cerevisiae BY4741)
- 60s ribosomal protein l7-a (27 kDa, Protein from Saccharomyces cerevisiae BY4741)
- 5.8s rrna (50 kDa, RNA from Saccharomyces cerevisiae BY4741)
- 60s ribosomal protein l4-a (39 kDa, Protein from Saccharomyces cerevisiae BY4741)
- 60s ribosomal protein l32 (14 kDa, Protein from Saccharomyces cerevisiae BY4741)
- Zinc ion (65 Da, Ligand)
- Ribosomal rna-processing protein 1 (33 kDa, Protein from Saccharomyces cerevisiae BY4741)
- Nucleolar gtp-binding protein 1 (74 kDa, Protein from Saccharomyces cerevisiae BY4741)
- Yeast large subunit processome (Complex from Saccharomyces cerevisiae BY4741)
- 60s ribosomal protein l20-a (20 kDa, Protein from Saccharomyces cerevisiae BY4741)
- Its2 (74 kDa, RNA from Saccharomyces cerevisiae BY4741)
- Nucleolar protein 16 (26 kDa, Protein from Saccharomyces cerevisiae BY4741)
- 60s ribosomal protein l16-a (22 kDa, Protein from Saccharomyces cerevisiae BY4741)
- 60s ribosomal protein l15-a (24 kDa, Protein from Saccharomyces cerevisiae BY4741)
- 60s ribosomal protein l33-a (12 kDa, Protein from Saccharomyces cerevisiae BY4741)
- 60s ribosomal protein l26-a (14 kDa, Protein from Saccharomyces cerevisiae BY4741)
- Ribosomal rna-processing protein 15 (28 kDa, Protein from Saccharomyces cerevisiae BY4741)
- Proteasome-interacting protein cic1 (42 kDa, Protein from Saccharomyces cerevisiae BY4741)