Electron Microscopy Data Bank

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EMD-11807

Download Map 3D View

Cryo-EM structure of the 90S-exosome super-complex (state Pre-A1-exosome)

Release date: Dec. 30, 2020
Resolution: 4.6 Å
EM Method: Single-particle
Fitted PDBs: 7ajt
Q-score: 0.308

Lau B, Cheng J, Flemming D, La Venuta G, Berninghausen O, Beckmann R, Hurt E

Mol Cell (2021) 81 pp. 293- [ DOI: doi:10.1016/j.molcel.2020.11.009 Pubmed: 33326748 ]

Sample:

Atp-dependent rna helicase dob1 (122 kDa, Protein from Baker's yeast)
Exosome complex component rrp43 (44 kDa, Protein from Baker's yeast)
Nucleolar complex protein 4 (63 kDa, Protein from Baker's yeast)
40s ribosomal protein s11-a (17 kDa, Protein from Baker's yeast)
Rrna biogenesis protein rrp5 (193 kDa, Protein from Baker's yeast)
40s ribosomal protein s18-a (17 kDa, Protein from Baker's yeast)
Protein bfr2 (61 kDa, Protein from Baker's yeast)
Exosome complex component mtr3 (27 kDa, Protein from Baker's yeast)
U3 small nucleolar rna-associated protein 18 (66 kDa, Protein from Baker's yeast)
Rrna-processing protein fcf2 (25 kDa, Protein from Baker's yeast)
U3 small nucleolar rna-associated protein 8 (80 kDa, Protein from Baker's yeast)
40s ribosomal protein s16-a (15 kDa, Protein from Baker's yeast)
Rna cytidine acetyltransferase (119 kDa, Protein from Baker's yeast)
Guanosine-5'-triphosphate (523 Da, Ligand)
U3 small nucleolar rna-associated protein 12 (106 kDa, Protein from Baker's yeast)
U3 small nucleolar rna-associated protein 4 (87 kDa, Protein from Baker's yeast)
40s ribosomal protein s27-a (8 kDa, Protein from Baker's yeast)
Protein sof1 (56 kDa, Protein from Baker's yeast)
40s ribosomal protein s23-a (16 kDa, Protein from Baker's yeast)
Pre-rrna-processing protein pno1 (30 kDa, Protein from Baker's yeast)
Net1-associated nuclear protein 1 (101 kDa, Protein from Baker's yeast)
40s ribosomal protein s22-a (14 kDa, Protein from Baker's yeast)
U3 small nucleolar rna-associated protein 13 (91 kDa, Protein from Baker's yeast)
40s ribosomal protein s9-a (22 kDa, Protein from Baker's yeast)
U3 small nucleolar rna-associated protein 11 (29 kDa, Protein from Baker's yeast)
Ribosomal rna-processing protein 9 (65 kDa, Protein from Baker's yeast)
U3 small nucleolar ribonucleoprotein protein imp3 (21 kDa, Protein from Baker's yeast)
Exosome complex component rrp45 (34 kDa, Protein from Baker's yeast)
Exosome complex component rrp46 (24 kDa, Protein from Baker's yeast)
40s ribosomal protein s13 (17 kDa, Protein from Baker's yeast)
U3 small nucleolar rna-associated protein 7 (62 kDa, Protein from Baker's yeast)
U3 small nucleolar rna-associated protein 21 (104 kDa, Protein from Baker's yeast)
18s rrna (582 kDa, RNA from Saccharomyces cerevisiae S288C)
Ribosome biogenesis protein enp2 (81 kDa, Protein from Baker's yeast)
Ribosome biogenesis protein utp30 (31 kDa, Protein from Baker's yeast)
U3 small nucleolar rna-associated protein 14 (103 kDa, Protein from Baker's yeast)
Exosome complex component rrp40 (26 kDa, Protein from Baker's yeast)
Regulator of rdna transcription protein 14 (23 kDa, Protein from Baker's yeast)
U3 small nucleolar rna-associated protein mpp10 (67 kDa, Protein from Baker's yeast)
Exosome complex component rrp42 (29 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Ribosomal rna-processing protein 7 (34 kDa, Protein from Baker's yeast)
Something about silencing protein 10 (70 kDa, Protein from Baker's yeast)
U3 small nucleolar rna-associated protein 22 (140 kDa, Protein from Baker's yeast)
Nucleolar protein 56 (56 kDa, Protein from Baker's yeast)
40s ribosomal protein s4-a (29 kDa, Protein from Baker's yeast)
40s ribosomal protein s1-a (28 kDa, Protein from Baker's yeast)
Ribosome biogenesis protein bms1 (135 kDa, Protein from Baker's yeast)
U3 small nucleolar rna-associated protein 20 (287 kDa, Protein from Baker's yeast)
Bud site selection protein 21 (24 kDa, Protein from Baker's yeast)
Exosome complex component ski6 (27 kDa, Protein from Baker's yeast)
Zinc ion (65 Da, Ligand)
U3 small nucleolar rna-associated protein 9 (65 kDa, Protein from Baker's yeast)
40s ribosomal protein s14-a (14 kDa, Protein from Baker's yeast)
Nucleolar protein 58 (57 kDa, Protein from Baker's yeast)
Ribosomal rna small subunit methyltransferase nep1 (27 kDa, Protein from Baker's yeast)
U3 small nucleolar ribonucleoprotein protein imp4 (33 kDa, Protein from Baker's yeast)
40s ribosomal protein s28-a (7 kDa, Protein from Baker's yeast)
Rrna-processing protein fcf1 (21 kDa, Protein from Baker's yeast)
Rna 3'-terminal phosphate cyclase-like protein (40 kDa, Protein from Baker's yeast)
40s ribosomal protein s6-a (27 kDa, Protein from Baker's yeast)
13 kda ribonucleoprotein-associated protein (13 kDa, Protein from Baker's yeast)
U3 small nucleolar rna-associated protein 10 (200 kDa, Protein from Baker's yeast)
U3 small nucleolar rna-associated protein 5 (72 kDa, Protein from Baker's yeast)
Protein faf1 (38 kDa, Protein from Baker's yeast)
5'ets rna (225 kDa, RNA from Saccharomyces cerevisiae S288C)
U3 small nucleolar rna-associated protein 6 (52 kDa, Protein from Baker's yeast)
40s ribosomal protein s24-a (15 kDa, Protein from Baker's yeast)
90s-exosome super-complex in state pre-a1-exosome (Complex from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
40s ribosomal protein s5 (25 kDa, Protein from Baker's yeast)
40s ribosomal protein s8-a (22 kDa, Protein from Baker's yeast)
U3 small nucleolar rna-associated protein 15 (57 kDa, Protein from Baker's yeast)
Exosome complex component csl4 (31 kDa, Protein from Baker's yeast)
Rna (6 kDa, RNA from Saccharomyces cerevisiae S288C)
Rrna 2'-o-methyltransferase fibrillarin (34 kDa, Protein from Baker's yeast)
Krr1 small subunit processome component (37 kDa, Protein from Baker's yeast)
Nucleolar complex protein 14 (94 kDa, Protein from Baker's yeast)
Exosome complex exonuclease dis3 (113 kDa, Protein from Baker's yeast)
40s ribosomal protein s7-a (21 kDa, Protein from Baker's yeast)
Exosome complex component rrp4 (39 kDa, Protein from Baker's yeast)
Essential nuclear protein 1 (55 kDa, Protein from Baker's yeast)
Magnesium ion (24 Da, Ligand)
Periodic tryptophan protein 2 (104 kDa, Protein from Baker's yeast)
U3 snorna (106 kDa, RNA from Saccharomyces cerevisiae S288C)

[Show more]

EMD-11808

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Cryo-EM structure of the 90S-exosome super-complex (state Post-A1-exosome)

Release date: Dec. 30, 2020
Resolution: 3.8 Å
EM Method: Single-particle
Fitted PDBs: 7aju
Q-score: 0.366

Lau B, Cheng J, Flemming D, La Venuta G, Berninghausen O, Beckmann R, Hurt E

Mol Cell (2021) 81 pp. 293- [ DOI: doi:10.1016/j.molcel.2020.11.009 Pubmed: 33326748 ]

Sample:

U3 small nucleolar rna-associated protein 10 (200 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Rrna-processing protein fcf2 (25 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
U3 small nucleolar rna-associated protein 13 (91 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Nucleolar complex protein 4 (63 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Exosome complex component rrp43 (44 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
U3 small nucleolar rna-associated protein 15 (57 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Dimethyladenosine transferase (36 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
40s ribosomal protein s4-a (29 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Ribosome biogenesis protein bms1 (135 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
U3 small nucleolar rna-associated protein 12 (106 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
18s rrna (580 kDa, RNA from Saccharomyces cerevisiae S288C)
U3 small nucleolar rna-associated protein 4 (87 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
U3 small nucleolar ribonucleoprotein protein imp4 (33 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Nucleolar protein 56 (56 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Probable atp-dependent rna helicase dhr1 (145 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
40s ribosomal protein s5 (25 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Bud site selection protein 21 (24 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
40s ribosomal protein s6-a (27 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
90s-exosome super-complex in state post-a1-exosome (Complex from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
U3 small nucleolar rna-associated protein 7 (62 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
13 kda ribonucleoprotein-associated protein (13 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
U3 small nucleolar rna-associated protein 9 (65 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
40s ribosomal protein s13 (17 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Exosome complex component rrp46 (24 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Ribosomal rna-processing protein 7 (34 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
40s ribosomal protein s22-a (14 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Periodic tryptophan protein 2 (104 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Ribosomal rna-processing protein 9 (65 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Exosome complex component rrp4 (39 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
U3 small nucleolar rna-associated protein 6 (52 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
40s ribosomal protein s8-a (22 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Rrna biogenesis protein rrp5 (193 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
40s ribosomal protein s24-a (15 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Net1-associated nuclear protein 1 (101 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
U3 small nucleolar ribonucleoprotein protein imp3 (21 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
U3 small nucleolar rna-associated protein 18 (66 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Rrna 2'-o-methyltransferase fibrillarin (34 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Exosome complex component mtr3 (27 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Rna (6 kDa, RNA from Saccharomyces cerevisiae S288C)
Nucleolar protein 58 (57 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Something about silencing protein 10 (70 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Guanosine-5'-triphosphate (523 Da, Ligand)
Exosome complex component csl4 (31 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
40s ribosomal protein s1-a (28 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
U3 small nucleolar rna-associated protein 8 (80 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Ribosomal rna small subunit methyltransferase nep1 (27 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
U3 small nucleolar rna-associated protein mpp10 (67 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
U3 small nucleolar rna-associated protein 5 (72 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Atp-dependent rna helicase dob1 (122 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
U3 small nucleolar rna-associated protein 22 (140 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
5'ets rna (26 kDa, RNA from Saccharomyces cerevisiae S288C)
Exosome complex component rrp42 (29 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Exosome complex component rrp45 (34 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
40s ribosomal protein s16-a (15 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Exosome complex component rrp40 (26 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Zinc ion (65 Da, Ligand)
Nucleolar complex protein 14 (94 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Exosome complex exonuclease dis3 (113 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Rrna-processing protein fcf1 (21 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Protein sof1 (56 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
40s ribosomal protein s9-a (22 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
U3 small nucleolar rna-associated protein 21 (104 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Rna 3'-terminal phosphate cyclase-like protein (40 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
40s ribosomal protein s18-a (17 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Pre-rrna-processing protein pno1 (30 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
40s ribosomal protein s14-a (14 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
U3 small nucleolar rna-associated protein 20 (287 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
40s ribosomal protein s19-a (15 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
40s ribosomal protein s23-a (16 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
U3 small nucleolar rna-associated protein 11 (29 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Exosome complex component ski6 (27 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
U3 small nucleolar rna-associated protein 14 (103 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
40s ribosomal protein s11-a (17 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
40s ribosomal protein s7-a (21 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
40s ribosomal protein s28-a (7 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Essential nuclear protein 1 (55 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Magnesium ion (24 Da, Ligand)
40s ribosomal protein s27-a (8 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
U3 snorna (106 kDa, RNA from Saccharomyces cerevisiae S288C)

[Show more]

EMD-11837

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Structure of the MTA1/HDAC1/MBD2 NURD deacetylase complex

Release date: Nov. 11, 2020
Resolution: 4.5 Å
EM Method: Single-particle
Fitted PDBs: 7ao8
Q-score: 0.105

Millard CJ, Fairall L, Ragan TJ, Savva CG, Schwabe JWR

Nucleic Acids Res (2020) 48 pp. 12972-12982 [ DOI: doi:10.1093/nar/gkaa1121 Pubmed: 33264408 ]

Sample:

Methyl-cpg-binding domain protein 2 (43 kDa, Protein from Homo sapiens)
Inositol hexakisphosphate (660 Da, Ligand)
Potassium ion (39 Da, Ligand)
Histone deacetylase 1 (55 kDa, Protein from Homo sapiens)
Metastasis-associated protein mta1 (80 kDa, Protein from Homo sapiens)
Nurd deacetylase complex containing two copies of mta1 and hdac1 and a single copy of mbd2 (220 kDa, Complex from Homo sapiens)
Zinc ion (65 Da, Ligand)

[Show more]

EMD-11838

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Structure of the core MTA1/HDAC1/MBD2 NURD deacetylase complex

Release date: Nov. 11, 2020
Resolution: 6.1 Å
EM Method: Single-particle
Fitted PDBs: 7ao9
Q-score: 0.13

Millard CJ, Fairall L, Ragan TJ, Savva CG, Schwabe JWR

Nucleic Acids Res (2020) 48 pp. 12972-12982 [ DOI: doi:10.1093/nar/gkaa1121 Pubmed: 33264408 ]

Sample:

Methyl-cpg-binding domain protein 2 (43 kDa, Protein from Homo sapiens)
Inositol hexakisphosphate (660 Da, Ligand)
Potassium ion (39 Da, Ligand)
Histone deacetylase 1 (55 kDa, Protein from Homo sapiens)
Metastasis-associated protein mta1 (80 kDa, Protein from Homo sapiens)
Core nurd deacetylase complex containing two copies of mta1 and hdac1 and a single copy of mbd2 (170 kDa, Complex from Homo sapiens)
Zinc ion (65 Da, Ligand)

[Show more]

EMD-11839

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Structure of the extended MTA1/HDAC1/MBD2/RBBP4 NURD deacetylase complex

Release date: Nov. 11, 2020
Resolution: 19.4 Å
EM Method: Single-particle
Fitted PDBs: 7aoa
Q-score: 0.06

Millard CJ, Fairall L, Ragan TJ, Savva CG, Schwabe JWR

Nucleic Acids Res (2020) 48 pp. 12972-12982 [ DOI: doi:10.1093/nar/gkaa1121 Pubmed: 33264408 ]

Sample:

Methyl-cpg-binding domain protein 2 (43 kDa, Protein from Homo sapiens)
Inositol hexakisphosphate (660 Da, Ligand)
Potassium ion (39 Da, Ligand)
Extended nurd deacetylase complex containing two copies of mta1, hdac1 and rbbp4 and a single copy of mbd2 (340 kDa, Complex from Homo sapiens)
Histone deacetylase 1 (55 kDa, Protein from Homo sapiens)
Histone-binding protein rbbp4 (47 kDa, Protein from Homo sapiens)
Metastasis-associated protein mta1 (80 kDa, Protein from Homo sapiens)
Zinc ion (65 Da, Ligand)

[Show more]

EMD-30174

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Cryo-EM structure of pre-60S ribosome from Saccharomyces cerevisiae rpl4delta63-87 strain at 3.22 Angstroms resolution(state R2)

Release date: Oct. 28, 2020
Resolution: 3.22 Å
EM Method: Single-particle
Fitted PDBs: 7btb
Q-score: 0.51

Wilson DM, Li Y, LaPeruta A, Gamalinda M, Gao N, Woolford Jr JL

Nat Commun (2020) 11 pp. 5111-5111 [ Pubmed: 33037216 DOI: doi:10.1038/s41467-020-18878-8 ]

Sample:

60s ribosomal protein l34-a (13 kDa, Protein from Baker's yeast)
60s ribosomal protein l3 (43 kDa, Protein from Baker's yeast)
60s ribosomal protein l43-a (10 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)
60s ribosomal protein l14-a (15 kDa, Protein from Baker's yeast)
Ribosome biogenesis protein rlp7 (36 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)
Eukaryotic translation initiation factor 6 (26 kDa, Protein from Baker's yeast)
Eukaryotic pre-60s ribosomal subunits from saccharomyces cerevisiae rpl4delta63-87 strain(stater2) (Complex from Saccharomyces cerevisiae S288C)
Regulator of ribosome biosynthesis (23 kDa, Protein from Baker's yeast)
60s ribosomal protein l8-a (28 kDa, Protein from Baker's yeast)
60s ribosomal protein l5 (33 kDa, Protein from Baker's yeast)
60s ribosomal protein l18-a (20 kDa, Protein from Baker's yeast)
60s ribosomal protein l19-a (21 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 l31-a (12 kDa, Protein from Baker's yeast)
60s ribosomal protein l28 (16 kDa, Protein from Baker's yeast)
Ribosome biogenesis protein nsa2 (29 kDa, Protein from Baker's yeast)
Nucleolar gtp-binding protein 1 (74 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)
60s ribosomal protein l25 (15 kDa, Protein from Baker's yeast)
Rdn5-2 rrna (38 kDa, RNA from Baker's yeast)
Magnesium ion (24 Da, Ligand)
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)
Ribosome biogenesis protein rpf2 (39 kDa, Protein from Baker's yeast)
Ribosome assembly protein 4 (57 kDa, Protein from Baker's yeast)
Its2-1 miscrna (74 kDa, RNA from Baker's yeast)
60s ribosomal protein l38 (8 kDa, Protein from Baker's yeast)
Nucleolar gtp-binding protein 2 (55 kDa, Protein from Baker's yeast)
60s ribosomal protein l16-a (22 kDa, Protein from Baker's yeast)
Upf0642 protein ybl028c (12 kDa, Protein from Baker's yeast)
60s ribosomal protein l36-a (11 kDa, Protein from Baker's yeast)
Pescadillo homolog (69 kDa, Protein from Baker's yeast)
Guanosine-5'-triphosphate (523 Da, Ligand)
60s ribosomal protein l9-a (21 kDa, Protein from Baker's yeast)
Rdn25-1 rrna (1 MDa, RNA 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)
Zinc ion (65 Da, Ligand)
60s ribosomal protein l4-a (39 kDa, Protein from Baker's yeast)
60s ribosomal protein l33-a (12 kDa, Protein 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)
Ribosome biogenesis protein rlp24 (24 kDa, Protein from Baker's yeast)
Rdn5.8-1 rrna (50 kDa, RNA from Baker's yeast)
60s ribosomal protein l7-a (27 kDa, Protein from Baker's yeast)
60s ribosomal protein l30 (11 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)
Ribosome assembly factor mrt4 (27 kDa, Protein from Baker's yeast)

[Show more]

EMD-11357

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Cryo-EM structure of the 90S pre-ribosome from Saccharomyces cerevisiae, state A (Poly-Ala)

Release date: Sept. 23, 2020
Resolution: 4.4 Å
EM Method: Single-particle
Fitted PDBs: 6zqa
Q-score: 0.346

Cheng J, Lau B, La Venuta G, Ameismeier M, Berninghausen O, Hurt E, Beckmann R

Science (2020) 369 pp. 1470-1476 [ Pubmed: 32943521 DOI: doi:10.1126/science.abb4119 ]

Sample:

Bud site selection protein 21 (24 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
U3 small nucleolar rna-associated protein 10 (200 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Rrna-processing protein fcf2 (25 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Protein sof1 (56 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Nucleolar protein 58 (57 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
U3 small nucleolar rna-associated protein 13 (91 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Nucleolar complex protein 4 (63 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Something about silencing protein 10 (70 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
U3 small nucleolar rna-associated protein 7 (62 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Guanosine-5'-triphosphate (523 Da, Ligand)
Ribosome biogenesis protein utp30 (31 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
13 kda ribonucleoprotein-associated protein (13 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
U3 small nucleolar rna-associated protein 9 (65 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
40s ribosomal protein s9-a (22 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
40s ribosomal protein s13 (17 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
U3 small nucleolar rna-associated protein 21 (104 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
90s pre-ribbosome state a (Complex from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
U3 snorna (56 kDa, RNA from Saccharomyces cerevisiae S288C)
Ribosomal rna-processing protein 7 (34 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
40s ribosomal protein s22-a (14 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
5ets rna (225 kDa, RNA from Saccharomyces cerevisiae S288C)
Periodic tryptophan protein 2 (104 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Ribosomal rna-processing protein 9 (65 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Rna 3'-terminal phosphate cyclase-like protein (40 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
U3 small nucleolar rna-associated protein 8 (80 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Krr1 small subunit processome component (37 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
40s ribosomal protein s18-a (17 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Regulator of rdna transcription protein 14 (23 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
18s rrna (444 kDa, RNA from Saccharomyces cerevisiae S288C)
Ribosomal rna small subunit methyltransferase nep1 (27 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Pre-rrna-processing protein pno1 (30 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
40s ribosomal protein s27-a (8 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
40s ribosomal protein s14-a (14 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
U3 small nucleolar rna-associated protein mpp10 (67 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
U3 small nucleolar rna-associated protein 5 (72 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Rps5p (25 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
U3 small nucleolar rna-associated protein 15 (57 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
U3 small nucleolar rna-associated protein 6 (52 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
U3 small nucleolar rna-associated protein 22 (140 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Net1-associated nuclear protein 1 (101 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
40s ribosomal protein s23-a (16 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Protein faf1 (38 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Ribosome biogenesis protein bms1 (135 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
U3 small nucleolar rna-associated protein 12 (106 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
40s ribosomal protein s16-a (15 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
U3 small nucleolar rna-associated protein 11 (29 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Zinc ion (65 Da, Ligand)
U3 small nucleolar ribonucleoprotein protein imp3 (21 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Nucleolar complex protein 14 (94 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
U3 small nucleolar rna-associated protein 18 (66 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
U3 small nucleolar rna-associated protein 4 (87 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
U3 small nucleolar ribonucleoprotein protein imp4 (33 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
U3 small nucleolar rna-associated protein 14 (103 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Rrna 2'-o-methyltransferase fibrillarin (34 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
40s ribosomal protein s7-a (21 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
40s ribosomal protein s28-a (7 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Rrna-processing protein fcf1 (21 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Nucleolar protein 56 (56 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Essential nuclear protein 1 (55 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Magnesium ion (24 Da, Ligand)
40s ribosomal protein s1-a (28 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))

[Show more]

EMD-11358

Download Map 3D View

Cryo-EM structure of the 90S pre-ribosome from Saccharomyces cerevisiae, state B2

Release date: Sept. 23, 2020
Resolution: 3.9 Å
EM Method: Single-particle
Fitted PDBs: 6zqb
Q-score: 0.418

Cheng J, Lau B, La Venuta G, Ameismeier M, Berninghausen O, Hurt E, Beckmann R

Science (2020) 369 pp. 1470-1476 [ Pubmed: 32943521 DOI: doi:10.1126/science.abb4119 ]

Sample:

Bud site selection protein 21 (24 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Protein bfr2 (61 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
U3 small nucleolar rna-associated protein 10 (200 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Rrna-processing protein fcf2 (25 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Protein sof1 (56 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Nucleolar protein 58 (57 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
40s ribosomal protein s6-a (27 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
U3 small nucleolar rna-associated protein 13 (91 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Nucleolar complex protein 4 (63 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
U3 small nucleolar ribonucleoprotein protein lcp5 (40 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Something about silencing protein 10 (70 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
U3 small nucleolar rna-associated protein 7 (62 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Guanosine-5'-triphosphate (523 Da, Ligand)
Ribosome biogenesis protein utp30 (31 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
13 kda ribonucleoprotein-associated protein (13 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
U3 small nucleolar rna-associated protein 9 (65 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
40s ribosomal protein s9-a (22 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
40s ribosomal protein s13 (17 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
U3 small nucleolar rna-associated protein 21 (104 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
U3 snorna (56 kDa, RNA from Saccharomyces cerevisiae S288C)
Ribosomal rna-processing protein 7 (34 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
40s ribosomal protein s22-a (14 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
5ets rna (225 kDa, RNA from Saccharomyces cerevisiae S288C)
Periodic tryptophan protein 2 (104 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Ribosomal rna-processing protein 9 (65 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Rna 3'-terminal phosphate cyclase-like protein (40 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
U3 small nucleolar rna-associated protein 8 (80 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Krr1 small subunit processome component (37 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
90s pre-ribosome state b2 (Complex from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Regulator of rdna transcription protein 14 (23 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Ribosomal rna small subunit methyltransferase nep1 (27 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Pre-rrna-processing protein pno1 (30 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
40s ribosomal protein s27-a (8 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
40s ribosomal protein s14-a (14 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
U3 small nucleolar rna-associated protein mpp10 (67 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
U3 small nucleolar rna-associated protein 5 (72 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Rps5p (25 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
U3 small nucleolar rna-associated protein 15 (57 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
U3 small nucleolar rna-associated protein 20 (287 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
U3 small nucleolar rna-associated protein 6 (52 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
U3 small nucleolar rna-associated protein 22 (140 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
40s ribosomal protein s8-a (22 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
18s rrna (582 kDa, RNA from Saccharomyces cerevisiae S288C)
40s ribosomal protein s24-a (15 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Net1-associated nuclear protein 1 (101 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Rna cytidine acetyltransferase (119 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
40s ribosomal protein s23-a (16 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
U3 small nucleolar rna-associated protein 14,u3 small nucleolar rna-associated protein 14 (17 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Ribosome biogenesis protein bms1 (135 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
U3 small nucleolar rna-associated protein 12 (106 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Ribosome biogenesis protein enp2 (81 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
U3 small nucleolar rna-associated protein 11 (29 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Protein faf1 (38 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
40s ribosomal protein s4-a (29 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
40s ribosomal protein s16-a (15 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Zinc ion (65 Da, Ligand)
40s ribosomal protein s18-a,40s ribosomal protein s18-a,rps18 (16 kDa, Protein from Saccharomyces cerevisiae S288C)
U3 small nucleolar ribonucleoprotein protein imp3 (21 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Nucleolar complex protein 14 (94 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
U3 small nucleolar rna-associated protein 18 (66 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
U3 small nucleolar rna-associated protein 4 (87 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
U3 small nucleolar ribonucleoprotein protein imp4 (33 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
40s ribosomal protein s11-a (17 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Rrna 2'-o-methyltransferase fibrillarin (34 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
40s ribosomal protein s7-a (21 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
40s ribosomal protein s28-a (7 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Rrna-processing protein fcf1 (21 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Nucleolar protein 56 (56 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Essential nuclear protein 1 (55 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
40s ribosomal protein s1-a (28 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))

[Show more]

EMD-11359

Download Map 3D View

Cryo-EM structure of the 90S pre-ribosome from Saccharomyces cerevisiae, state Pre-A1

Release date: Sept. 23, 2020
Resolution: 3.8 Å
EM Method: Single-particle
Fitted PDBs: 6zqc
Q-score: 0.41

Cheng J, Lau B, La Venuta G, Ameismeier M, Berninghausen O, Hurt E, Beckmann R

Science (2020) 369 pp. 1470-1476 [ Pubmed: 32943521 DOI: doi:10.1126/science.abb4119 ]

Sample:

Bud site selection protein 21 (24 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Protein bfr2 (61 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
U3 small nucleolar rna-associated protein 10 (200 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Rrna-processing protein fcf2 (25 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Protein sof1 (56 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Nucleolar protein 58 (57 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
40s ribosomal protein s6-a (27 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
U3 small nucleolar rna-associated protein 13 (91 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Nucleolar complex protein 4 (63 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Something about silencing protein 10 (70 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
U3 small nucleolar rna-associated protein 7 (62 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Guanosine-5'-triphosphate (523 Da, Ligand)
90s pre-ribbosome state pre-a1 (Complex from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Ribosome biogenesis protein utp30 (31 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
13 kda ribonucleoprotein-associated protein (13 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
U3 small nucleolar rna-associated protein 9 (65 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
40s ribosomal protein s9-a (22 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
40s ribosomal protein s13 (17 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
U3 snorna (106 kDa, RNA from Saccharomyces cerevisiae S288C)
U3 small nucleolar rna-associated protein 21 (104 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Ribosomal rna-processing protein 7 (34 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
40s ribosomal protein s22-a (14 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
5ets rna (225 kDa, RNA from Saccharomyces cerevisiae S288C)
Periodic tryptophan protein 2 (104 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Ribosomal rna-processing protein 9 (65 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Rna 3'-terminal phosphate cyclase-like protein (40 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
U3 small nucleolar rna-associated protein 8 (80 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Krr1 small subunit processome component (37 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
40s ribosomal protein s18-a (17 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Regulator of rdna transcription protein 14 (23 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Magnesium ion (24 Da, Ligand)
Ribosomal rna small subunit methyltransferase nep1 (27 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Pre-rrna-processing protein pno1 (30 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
40s ribosomal protein s27-a (8 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
40s ribosomal protein s14-a (14 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
U3 small nucleolar rna-associated protein mpp10 (67 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
U3 small nucleolar rna-associated protein 5 (72 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
U3 small nucleolar rna-associated protein 15 (57 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
U3 small nucleolar rna-associated protein 20 (287 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
U3 small nucleolar rna-associated protein 6 (52 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
U3 small nucleolar rna-associated protein 22 (140 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
40s ribosomal protein s8-a (22 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Rrna biogenesis protein rrp5 (193 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
18s rrna (582 kDa, RNA from Saccharomyces cerevisiae S288C)
40s ribosomal protein s24-a (15 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Net1-associated nuclear protein 1 (101 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Rna cytidine acetyltransferase (119 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
40s ribosomal protein s23-a (16 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Ribosome biogenesis protein enp2 (81 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Ribosome biogenesis protein bms1 (135 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
U3 small nucleolar rna-associated protein 12 (106 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Protein faf1 (38 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
U3 small nucleolar rna-associated protein 11 (29 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
40s ribosomal protein s4-a (29 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
40s ribosomal protein s16-a (15 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Zinc ion (65 Da, Ligand)
U3 small nucleolar ribonucleoprotein protein imp3 (21 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Nucleolar complex protein 14 (94 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
U3 small nucleolar rna-associated protein 18 (66 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
U3 small nucleolar rna-associated protein 4 (87 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
U3 small nucleolar ribonucleoprotein protein imp4 (33 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
U3 small nucleolar rna-associated protein 14 (103 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Rrna 2'-o-methyltransferase fibrillarin (34 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
40s ribosomal protein s7-a (21 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
40s ribosomal protein s11-a (17 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Rrna-processing protein fcf1 (21 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
40s ribosomal protein s28-a (7 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Nucleolar protein 56 (56 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Essential nuclear protein 1 (55 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
40s ribosomal protein s5 (25 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
40s ribosomal protein s1-a (28 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))

[Show more]

EMD-11360

Download Map 3D View

Cryo-EM structure of the 90S pre-ribosome from Saccharomyces cerevisiae, state Post-A1

Release date: Sept. 23, 2020
Resolution: 3.8 Å
EM Method: Single-particle
Fitted PDBs: 6zqd
Q-score: 0.387

Cheng J, Lau B, La Venuta G, Ameismeier M, Berninghausen O, Hurt E, Beckmann R

Science (2020) 369 pp. 1470-1476 [ Pubmed: 32943521 DOI: doi:10.1126/science.abb4119 ]

Sample:

Bud site selection protein 21 (24 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
U3 small nucleolar rna-associated protein 10 (200 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Rrna-processing protein fcf2 (25 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Protein sof1 (56 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Nucleolar protein 58 (57 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
40s ribosomal protein s6-a (27 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
U3 small nucleolar rna-associated protein 13 (91 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Nucleolar complex protein 4 (63 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Something about silencing protein 10 (70 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
90s pre-ribbosome state post-a1 (Complex from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
U3 small nucleolar rna-associated protein 7 (62 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Guanosine-5'-triphosphate (523 Da, Ligand)
40s ribosomal protein s1-a (28 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
13 kda ribonucleoprotein-associated protein (13 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
U3 small nucleolar rna-associated protein 9 (65 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
40s ribosomal protein s9-a (22 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
40s ribosomal protein s13 (17 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
U3 snorna (106 kDa, RNA from Saccharomyces cerevisiae S288C)
U3 small nucleolar rna-associated protein 21 (104 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Ribosomal rna-processing protein 7 (34 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
40s ribosomal protein s22-a (14 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
18s rrna (580 kDa, RNA from Saccharomyces cerevisiae S288C)
Periodic tryptophan protein 2 (104 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Ribosomal rna-processing protein 9 (65 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Rna 3'-terminal phosphate cyclase-like protein (40 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
U3 small nucleolar rna-associated protein 8 (80 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
40s ribosomal protein s18-a (17 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
5ets rna (26 kDa, RNA from Saccharomyces cerevisiae S288C)
Ribosomal rna small subunit methyltransferase nep1 (27 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Pre-rrna-processing protein pno1 (30 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
40s ribosomal protein s14-a (14 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
U3 small nucleolar rna-associated protein mpp10 (67 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
U3 small nucleolar rna-associated protein 5 (72 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Rps5p (25 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
U3 small nucleolar rna-associated protein 15 (57 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
U3 small nucleolar rna-associated protein 20 (287 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
40s ribosomal protein s19-a (15 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
U3 small nucleolar rna-associated protein 6 (52 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
U3 small nucleolar rna-associated protein 22 (140 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
40s ribosomal protein s8-a (22 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Rrna biogenesis protein rrp5 (193 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
40s ribosomal protein s24-a (15 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Net1-associated nuclear protein 1 (101 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Dimethyladenosine transferase (36 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
40s ribosomal protein s23-a (16 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
40s ribosomal protein s4-a (29 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Ribosome biogenesis protein bms1 (135 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
U3 small nucleolar rna-associated protein 12 (106 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
40s ribosomal protein s16-a (15 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
U3 small nucleolar rna-associated protein 11 (29 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Zinc ion (65 Da, Ligand)
U3 small nucleolar ribonucleoprotein protein imp3 (21 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Nucleolar complex protein 14 (94 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
U3 small nucleolar rna-associated protein 18 (66 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
U3 small nucleolar rna-associated protein 4 (87 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
U3 small nucleolar ribonucleoprotein protein imp4 (33 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
U3 small nucleolar rna-associated protein 14 (103 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Rrna 2'-o-methyltransferase fibrillarin (34 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
40s ribosomal protein s7-a (21 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
40s ribosomal protein s11-a (17 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Rrna-processing protein fcf1 (21 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
40s ribosomal protein s28-a (7 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Nucleolar protein 56 (56 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Essential nuclear protein 1 (55 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Probable atp-dependent rna helicase dhr1 (145 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Magnesium ion (24 Da, Ligand)
40s ribosomal protein s27-a (8 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))

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