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EMBL

was set up in 1974 as Europe’s flagship laboratory for the life sciences – an intergovernmental organisation with more than 80 independent research groups covering the spectrum of molecular biology:

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perform basic research in molecular biology

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offer vital services to scientists in the member states

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scientists, students and visitors at all levels

Transfer

and development of technology

Develop

new instruments and methods

Integrating

life science research in Europe

More about EMBL

Six sites

represent EMBL in Europe.

Barcelona

Tissue biology and disease modelling

Grenoble

Structural biology

Hamburg

Structural biology

Heidelberg

Main laboratory

Hinxton

EMBL-EBI: European Bioinformatics Institute

Rome

Epigenetics and neurobiology

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sample_name:"Nucleolar protein 58" AND assembly_molecular_weight:{5000000 TO 10000000]

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EMD-30574

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Cryo-EM structure of 90S small ribosomal precursors complex with the DEAH-box RNA helicase Dhr1 (State F)

Release date: Oct. 6, 2021
Resolution: 4.0 Å
EM Method: Single-particle
Fitted PDBs: 7d4i
Q-score: 0.339

To Be Published

Sample:

Something about silencing protein 10 (70 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Unassigned peptides 2 (59 kDa, Protein from Saccharomyces cerevisiae S288C)
U3 small nucleolar rna-associated protein 13 (91 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))
40s ribosomal protein s14-a (14 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))
Ribosomal rna small subunit methyltransferase nep1 (27 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 9 (65 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Protein sof1 (56 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
40s ribosomal protein s27-a (8 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))
Ribosomal rna-processing 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))
Essential nuclear protein 1 (54 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Exosome complex protein lrp1 (21 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 18 (66 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
40s ribosomal protein s22-b (14 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Exosome complex exonuclease dis3 (113 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Unassigned peptides 1 (52 kDa, Protein from Saccharomyces cerevisiae S288C)
13 kda ribonucleoprotein-associated protein (13 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 7 (62 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))
Rrna biogenesis protein rrp5 (193 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 22 (140 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
40s ribosomal protein s11-a (17 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Bud site selection protein 21 (24 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Exosome complex component rrp4 (39 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Ribosome biogenesis protein bms1 (135 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
40s ribosomal protein s28-a (7 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))
Rrna 2'-o-methyltransferase fibrillarin (34 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))
U3 small nucleolar rna-associated protein 5 (72 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))
5' ets (225 kDa, RNA from Saccharomyces cerevisiae S288C)
Nucleolar protein 58 (57 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))
Rrna-processing protein fcf2 (25 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))
18s rrna (583 kDa, RNA from Saccharomyces cerevisiae S288C)
90s pre-ribosome (state f) (5 MDa, Complex from Saccharomyces cerevisiae S288C)
40s ribosomal protein s6-a (27 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
M-phase phosphoprotein 6 homolog (21 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Periodic tryptophan protein 2 (101 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Exosome complex component rrp42 (29 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Magnesium ion (24 Da, Ligand)
Net1-associated nuclear protein 1 (101 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
40s ribosomal protein s16-a (15 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 ski6 (27 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 s1-a (28 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 s9-a (22 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Exosome complex component mtr3 (27 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Exosome complex exonuclease rrp6 (84 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
40s ribosomal protein s23-a (16 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Adenosine-5'-diphosphate (427 Da, Ligand)
40s ribosomal protein s7-a (21 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))
Exosome complex component rrp45 (34 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Nucleolar protein 56 (56 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Zinc ion (65 Da, Ligand)
40s ribosomal protein s18-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))
U3 small nucleolar rna-associated protein 10 (200 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))
U3 small nucleolar rna-associated protein 14 (103 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 s24-a (15 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))
U3 small nucleolar rna-associated protein 8 (80 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Exosome complex component rrp40 (26 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
40s ribosomal protein s4-a (29 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Pno1 (36 kDa, Protein from Saccharomyces cerevisiae S288C)
40s ribosomal protein s8-a (22 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Exosome complex component rrp43 (44 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
U3 snorna (106 kDa, RNA from Saccharomyces cerevisiae S288C)

[Show more]

EMD-23936

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Cryo-EM structure of the human SSU processome, state pre-A1

Release date: Sept. 22, 2021
Resolution: 3.6 Å
EM Method: Single-particle
Fitted PDBs: 7mq8
Q-score: 0.417

Singh S, Vanden Broeck A, Miller L, Chaker-Margot M, Klinge S

Science (2021) 373 pp. eabj5338-eabj5338 [ Pubmed: 34516797 DOI: doi:10.1126/science.abj5338 ]

Sample:

U3 small nucleolar rna-associated protein 18 homolog (62 kDa, Protein from Homo sapiens)
Small subunit processome component 20 homolog (318 kDa, Protein from Homo sapiens)
40s ribosomal protein s3a (30 kDa, Protein from Homo sapiens)
40s ribosomal protein s15a (14 kDa, Protein from Homo sapiens)
Krr1 small subunit processome component homolog (43 kDa, Protein from Homo sapiens)
40s ribosomal protein s6 (28 kDa, Protein from Homo sapiens)
Transducin beta-like protein 3 (89 kDa, Protein from Homo sapiens)
40s ribosomal protein s7 (22 kDa, Protein from Homo sapiens)
40s ribosomal protein s16 (16 kDa, Protein from Homo sapiens)
5'ets rrna (4 kDa, RNA from Homo sapiens)
Guanosine-5'-triphosphate (523 Da, Ligand)
40s ribosomal protein s23 (15 kDa, Protein from Homo sapiens)
Rna 3'-terminal phosphate cyclase-like protein (40 kDa, Protein from Homo sapiens)
40s ribosomal protein s18 (12 kDa, Protein from Homo sapiens)
40s ribosomal protein s28 (7 kDa, Protein from Homo sapiens)
Nucleolar protein 58 (59 kDa, Protein from Homo sapiens)
Nucleolar protein 14 (68 kDa, Protein from Homo sapiens)
Wd repeat-containing protein 36 (105 kDa, Protein from Homo sapiens)
Probable u3 small nucleolar rna-associated protein 11 (30 kDa, Protein from Homo sapiens)
Something about silencing protein 10 (54 kDa, Protein from Homo sapiens)
U3 small nucleolar rna-interacting protein 2 (51 kDa, Protein from Homo sapiens)
Nucleolar protein 56 (66 kDa, Protein from Homo sapiens)
U3 small nucleolar ribonucleoprotein protein imp4 (33 kDa, Protein from Homo sapiens)
Nucleolar protein 11 (73 kDa, Protein from Homo sapiens)
Ribosomal rna-processing protein 7 homolog a (32 kDa, Protein from Homo sapiens)
Nucleolar protein 10 (80 kDa, Protein from Homo sapiens)
Nucleolar protein 6 (127 kDa, Protein from Homo sapiens)
Human ssu processome (5 MDa, Complex from Homo sapiens)
Protein aatf (63 kDa, Protein from Homo sapiens)
Nucleolar complex protein 4 homolog (50 kDa, Protein from Homo sapiens)
Rna cytidine acetyltransferase (115 kDa, Protein from Homo sapiens)
U3 small nucleolar rna-associated protein 14 homolog a (88 kDa, Protein from Homo sapiens)
Heat repeat-containing protein 1 (242 kDa, Protein from Homo sapiens)
5'ets rrna (1 MDa, RNA from Homo sapiens)
40s ribosomal protein s14 (16 kDa, Protein from Homo sapiens)
Rna-binding protein pno1 (27 kDa, Protein from Homo sapiens)
Wd repeat-containing protein 75 (94 kDa, Protein from Homo sapiens)
Wd repeat-containing protein 46 (68 kDa, Protein from Homo sapiens)
Zinc ion (65 Da, Ligand)
40s ribosomal protein s12 (14 kDa, Protein from Homo sapiens)
Rrna 2'-o-methyltransferase fibrillarin (33 kDa, Protein from Homo sapiens)
40s ribosomal protein s24 (15 kDa, Protein from Homo sapiens)
Rrp12-like protein (73 kDa, Protein from Homo sapiens)
Ribosome biogenesis protein bms1 homolog (145 kDa, Protein from Homo sapiens)
Adenosine-5'-triphosphate (507 Da, Ligand)
40s ribosomal protein s9 (22 kDa, Protein from Homo sapiens)
Unassigned peptides (15 kDa, Protein from Homo sapiens)
40s ribosomal protein s5 (22 kDa, Protein from Homo sapiens)
Periodic tryptophan protein 2 homolog (102 kDa, Protein from Homo sapiens)
Wd repeat-containing protein 43 (74 kDa, Protein from Homo sapiens)
Wd repeat-containing protein 3 (106 kDa, Protein from Homo sapiens)
Nucleolar protein 7 (29 kDa, Protein from Homo sapiens)
40s ribosomal protein s13 (17 kDa, Protein from Homo sapiens)
S-adenosyl-l-homocysteine (384 Da, Ligand)
Ddb1- and cul4-associated factor 13 (51 kDa, Protein from Homo sapiens)
U3 small nucleolar rna-associated protein 15 homolog (58 kDa, Protein from Homo sapiens)
40s ribosomal protein s11 (18 kDa, Protein from Homo sapiens)
Rrna-processing protein fcf1 homolog (23 kDa, Protein from Homo sapiens)
Magnesium ion (24 Da, Ligand)
Neuroguidin (35 kDa, Protein from Homo sapiens)
U3 small nucleolar ribonucleoprotein protein imp3 (21 kDa, Protein from Homo sapiens)
Ribosomal rna small subunit methyltransferase nep1 (26 kDa, Protein from Homo sapiens)
Bystin (33 kDa, Protein from Homo sapiens)
18s rrna (602 kDa, RNA from Homo sapiens)
U3 small nucleolar rna-associated protein 4 homolog (76 kDa, Protein from Homo sapiens)
U3 small nucleolar ribonucleoprotein protein mpp10 (78 kDa, Protein from Homo sapiens)
Uncharacterized protein c1orf131 (32 kDa, Protein from Homo sapiens)
Nhp2-like protein 1 (14 kDa, Protein from Homo sapiens)
40s ribosomal protein s8 (24 kDa, Protein from Homo sapiens)
U3 small nucleolar rna-associated protein 6 homolog (70 kDa, Protein from Homo sapiens)
40s ribosomal protein s17 (15 kDa, Protein from Homo sapiens)
Ubiquitin-40s ribosomal protein s27a (18 kDa, Protein from Homo sapiens)
40s ribosomal protein s4, x isoform (29 kDa, Protein from Homo sapiens)
Deoxynucleotidyltransferase terminal-interacting protein 2 (84 kDa, Protein from Homo sapiens)
U3 snorna (70 kDa, RNA from Homo sapiens)
40s ribosomal protein s27 (9 kDa, Protein from Homo sapiens)

[Show more]

EMD-23937

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Cryo-EM structure of the human SSU processome, state pre-A1*

Release date: Sept. 22, 2021
Resolution: 3.87 Å
EM Method: Single-particle
Fitted PDBs: 7mq9
Q-score: 0.357

Singh S, Vanden Broeck A, Miller L, Chaker-Margot M, Klinge S

Science (2021) 373 pp. eabj5338-eabj5338 [ Pubmed: 34516797 DOI: doi:10.1126/science.abj5338 ]

Sample:

U3 small nucleolar rna-associated protein 18 homolog (62 kDa, Protein from Homo sapiens)
Small subunit processome component 20 homolog (318 kDa, Protein from Homo sapiens)
40s ribosomal protein s3a (30 kDa, Protein from Homo sapiens)
40s ribosomal protein s15a (14 kDa, Protein from Homo sapiens)
Krr1 small subunit processome component homolog (43 kDa, Protein from Homo sapiens)
18s rrna (603 kDa, RNA from Homo sapiens)
40s ribosomal protein s6 (28 kDa, Protein from Homo sapiens)
40s ribosomal protein s4 x isoform (29 kDa, Protein from Homo sapiens)
Transducin beta-like protein 3 (89 kDa, Protein from Homo sapiens)
40s ribosomal protein s7 (22 kDa, Protein from Homo sapiens)
40s ribosomal protein s16 (16 kDa, Protein from Homo sapiens)
Guanosine-5'-triphosphate (523 Da, Ligand)
40s ribosomal protein s23 (15 kDa, Protein from Homo sapiens)
Rna 3'-terminal phosphate cyclase-like protein (40 kDa, Protein from Homo sapiens)
40s ribosomal protein s18 (12 kDa, Protein from Homo sapiens)
40s ribosomal protein s28 (7 kDa, Protein from Homo sapiens)
Nucleolar protein 58 (59 kDa, Protein from Homo sapiens)
Nucleolar protein 14 (68 kDa, Protein from Homo sapiens)
Wd repeat-containing protein 36 (105 kDa, Protein from Homo sapiens)
Probable u3 small nucleolar rna-associated protein 11 (30 kDa, Protein from Homo sapiens)
Something about silencing protein 10 (54 kDa, Protein from Homo sapiens)
U3 small nucleolar rna-interacting protein 2 (51 kDa, Protein from Homo sapiens)
Nucleolar protein 56 (66 kDa, Protein from Homo sapiens)
U3 small nucleolar ribonucleoprotein protein imp4 (33 kDa, Protein from Homo sapiens)
Ribosome biogenesis protein bms1 homolog (146 kDa, Protein from Homo sapiens)
Nucleolar protein 10 (80 kDa, Protein from Homo sapiens)
Ribosomal rna-processing protein 7 homolog a (32 kDa, Protein from Homo sapiens)
Nucleolar protein 6 (127 kDa, Protein from Homo sapiens)
Human ssu processome (5 MDa, Complex from Homo sapiens)
Protein aatf (63 kDa, Protein from Homo sapiens)
Nucleolar complex protein 4 homolog (50 kDa, Protein from Homo sapiens)
Rna cytidine acetyltransferase (115 kDa, Protein from Homo sapiens)
U3 small nucleolar rna-associated protein 14 homolog a (88 kDa, Protein from Homo sapiens)
Heat repeat-containing protein 1 (242 kDa, Protein from Homo sapiens)
5'ets rrna (1 MDa, RNA from Homo sapiens)
40s ribosomal protein s14 (16 kDa, Protein from Homo sapiens)
Rna-binding protein pno1 (27 kDa, Protein from Homo sapiens)
Wd repeat-containing protein 75 (94 kDa, Protein from Homo sapiens)
Wd repeat-containing protein 46 (68 kDa, Protein from Homo sapiens)
Zinc ion (65 Da, Ligand)
40s ribosomal protein s12 (14 kDa, Protein from Homo sapiens)
Rrna 2'-o-methyltransferase fibrillarin (33 kDa, Protein from Homo sapiens)
40s ribosomal protein s24 (15 kDa, Protein from Homo sapiens)
Rrp12-like protein (73 kDa, Protein from Homo sapiens)
Adenosine-5'-triphosphate (507 Da, Ligand)
40s ribosomal protein s9 (22 kDa, Protein from Homo sapiens)
Unassigned peptides (15 kDa, Protein from Homo sapiens)
40s ribosomal protein s5 (22 kDa, Protein from Homo sapiens)
Periodic tryptophan protein 2 homolog (102 kDa, Protein from Homo sapiens)
Wd repeat-containing protein 43 (74 kDa, Protein from Homo sapiens)
Wd repeat-containing protein 3 (106 kDa, Protein from Homo sapiens)
Nucleolar protein 7 (29 kDa, Protein from Homo sapiens)
40s ribosomal protein s13 (17 kDa, Protein from Homo sapiens)
S-adenosyl-l-homocysteine (384 Da, Ligand)
Ddb1- and cul4-associated factor 13 (51 kDa, Protein from Homo sapiens)
U3 small nucleolar rna-associated protein 15 homolog (58 kDa, Protein from Homo sapiens)
40s ribosomal protein s11 (18 kDa, Protein from Homo sapiens)
Rrna-processing protein fcf1 homolog (23 kDa, Protein from Homo sapiens)
5' ets rrna (7 kDa, RNA from Homo sapiens)
Magnesium ion (24 Da, Ligand)
U3 small nucleolar ribonucleoprotein protein imp3 (21 kDa, Protein from Homo sapiens)
Nucleolar protein 11 (75 kDa, Protein from Homo sapiens)
Ribosomal rna small subunit methyltransferase nep1 (26 kDa, Protein from Homo sapiens)
Bystin (33 kDa, Protein from Homo sapiens)
U3 small nucleolar rna-associated protein 4 homolog (76 kDa, Protein from Homo sapiens)
U3 small nucleolar ribonucleoprotein protein mpp10 (78 kDa, Protein from Homo sapiens)
Uncharacterized protein c1orf131 (32 kDa, Protein from Homo sapiens)
Nhp2-like protein 1 (14 kDa, Protein from Homo sapiens)
40s ribosomal protein s8 (24 kDa, Protein from Homo sapiens)
U3 small nucleolar rna-associated protein 6 homolog (70 kDa, Protein from Homo sapiens)
40s ribosomal protein s17 (15 kDa, Protein from Homo sapiens)
Ubiquitin-40s ribosomal protein s27a (18 kDa, Protein from Homo sapiens)
Deoxynucleotidyltransferase terminal-interacting protein 2 (84 kDa, Protein from Homo sapiens)
U3 snorna (70 kDa, RNA from Homo sapiens)
40s ribosomal protein s27 (9 kDa, Protein from Homo sapiens)

[Show more]

EMD-23938

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Cryo-EM structure of the human SSU processome, state post-A1

Release date: Sept. 22, 2021
Resolution: 2.7 Å
EM Method: Single-particle
Fitted PDBs: 7mqa
Q-score: 0.526

Singh S, Vanden Broeck A, Miller L, Chaker-Margot M, Klinge S

Science (2021) 373 pp. eabj5338-eabj5338 [ Pubmed: 34516797 DOI: doi:10.1126/science.abj5338 ]

Sample:

40s ribosomal protein s8 (24 kDa, Protein from Human)
Deoxynucleotidyltransferase terminal-interacting protein 2 (84 kDa, Protein from Human)
Rrna 2'-o-methyltransferase fibrillarin (33 kDa, Protein from Human)
Human ssu processome (5 MDa, Complex from Homo sapiens)
U3 small nucleolar rna-associated protein 18 homolog (62 kDa, Protein from Human)
U3 small nucleolar rna-associated protein 14 homolog a (88 kDa, Protein from Human)
40s ribosomal protein s24 (15 kDa, Protein from Human)
Wd repeat-containing protein 36 (105 kDa, Protein from Human)
Nucleolar protein 14 (68 kDa, Protein from Human)
5'ets rrna (1 MDa, RNA from Human)
Nucleolar protein 7 (29 kDa, Protein from Human)
Nucleolar protein 11 (73 kDa, Protein from Human)
Ubiquitin-40s ribosomal protein s27a (18 kDa, Protein from Human)
40s ribosomal protein s14 (16 kDa, Protein from Human)
Ribosome biogenesis protein bms1 homolog (146 kDa, Protein from Human)
40s ribosomal protein s9 (22 kDa, Protein from Human)
40s ribosomal protein s4, x isoform (29 kDa, Protein from Human)
Probable dimethyladenosine transferase (35 kDa, Protein from Human)
Rna 3'-terminal phosphate cyclase-like protein (40 kDa, Protein from Human)
U3 small nucleolar ribonucleoprotein protein mpp10 (78 kDa, Protein from Human)
U3 small nucleolar rna-associated protein 6 homolog (70 kDa, Protein from Human)
Unassigned peptides (19 kDa, Protein from Human)
40s ribosomal protein s15a (14 kDa, Protein from Human)
U3 small nucleolar rna-interacting protein 2 (51 kDa, Protein from Human)
18s rrna (604 kDa, RNA from Human)
Adenosine-5'-triphosphate (507 Da, Ligand)
Ribosomal rna-processing protein 7 homolog a (32 kDa, Protein from Human)
Magnesium ion (24 Da, Ligand)
Guanosine-5'-triphosphate (523 Da, Ligand)
Small subunit processome component 20 homolog (318 kDa, Protein from Human)
Something about silencing protein 10 (54 kDa, Protein from Human)
Ddb1- and cul4-associated factor 13 (51 kDa, Protein from Human)
Heat repeat-containing protein 1 (242 kDa, Protein from Human)
Nucleolar complex protein 4 homolog (50 kDa, Protein from Human)
Exosome component 10 (100 kDa, Protein from Human)
40s ribosomal protein s19 (16 kDa, Protein from Human)
40s ribosomal protein s5 (22 kDa, Protein from Human)
Active regulator of sirt1 (15 kDa, Protein from Human)
Wd repeat-containing protein 3 (106 kDa, Protein from Human)
Wd repeat-containing protein 75 (94 kDa, Protein from Human)
40s ribosomal protein s27 (9 kDa, Protein from Human)
40s ribosomal protein s17 (15 kDa, Protein from Human)
Nhp2-like protein 1 (14 kDa, Protein from Human)
Periodic tryptophan protein 2 homolog (102 kDa, Protein from Human)
40s ribosomal protein s11 (18 kDa, Protein from Human)
Probable atp-dependent rna helicase dhx37 (129 kDa, Protein from Human)
40s ribosomal protein s12 (14 kDa, Protein from Human)
40s ribosomal protein s6 (28 kDa, Protein from Human)
Nucleolar protein 6 (127 kDa, Protein from Human)
U3 small nucleolar rna-associated protein 15 homolog (58 kDa, Protein from Human)
S-adenosyl-l-homocysteine (384 Da, Ligand)
Zinc ion (65 Da, Ligand)
40s ribosomal protein s23 (15 kDa, Protein from Human)
40s ribosomal protein s7 (22 kDa, Protein from Human)
40s ribosomal protein s18 (12 kDa, Protein from Human)
Rrna-processing protein fcf1 homolog (23 kDa, Protein from Human)
Rna-binding protein pno1 (27 kDa, Protein from Human)
U3 snorna (70 kDa, RNA from Human)
40s ribosomal protein s28 (7 kDa, Protein from Human)
40s ribosomal protein s13 (17 kDa, Protein from Human)
Nucleolar protein 58 (59 kDa, Protein from Human)
Rrp12-like protein (73 kDa, Protein from Human)
Wd repeat-containing protein 46 (68 kDa, Protein from Human)
40s ribosomal protein s16 (16 kDa, Protein from Human)
Ribosomal rna small subunit methyltransferase nep1 (26 kDa, Protein from Human)
40s ribosomal protein s3a (30 kDa, Protein from Human)
Bystin (33 kDa, Protein from Human)
Probable u3 small nucleolar rna-associated protein 11 (30 kDa, Protein from Human)
Wd repeat-containing protein 43 (74 kDa, Protein from Human)
U3 small nucleolar rna-associated protein 4 homolog (76 kDa, Protein from Human)
Transducin beta-like protein 3 (89 kDa, Protein from Human)
U3 small nucleolar ribonucleoprotein protein imp4 (33 kDa, Protein from Human)
Nucleolar protein 56 (66 kDa, Protein from Human)
U3 small nucleolar ribonucleoprotein protein imp3 (21 kDa, Protein from Human)

[Show more]

EMD-11807

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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- [ Pubmed: 33326748 DOI: doi:10.1016/j.molcel.2020.11.009 ]

Sample:

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

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EMD-0952

Download Map 3D View

Cryo-EM structure of 90S small subunit preribosomes in transition states (State D)

Release date: Sept. 16, 2020
Resolution: 3.8 Å
EM Method: Single-particle
Fitted PDBs: 6lqs
Q-score: 0.316

Du Y, An W, Zhu X, Sun Q, Qi J, Ye K

Science (2020) 369 pp. 1477-1481 [ DOI: doi:10.1126/science.aba9690 Pubmed: 32943522 ]

Sample:

U3 small nucleolar rna-associated protein 12 (106 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
40s ribosomal protein s22-b (14 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))
Nucleolar protein 56 (56 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 5 (72 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 s24-a (15 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Unassigned helices 2 (59 kDa, Protein from Saccharomyces cerevisiae S288C)
Something about silencing protein 10 (70 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
40s ribosomal protein s27-a (8 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Exosome complex exonuclease dis3 (113 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 rna-associated protein 22 (140 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Unassigned helices 1 (29 kDa, Protein from Saccharomyces cerevisiae S288C)
U3 small nucleolar ribonucleoprotein protein imp3 (21 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Exosome complex component rrp43 (44 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
40s ribosomal protein s8-a (22 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Ribosomal rna-processing protein 7 (34 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Ribosome biogenesis protein bms1 (135 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))
U3 small nucleolar rna-associated protein 18 (66 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))
Nucleolar complex protein 14 (94 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Exosome complex component rrp40 (26 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Exosome complex component rrp46 (24 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Pno1 (36 kDa, Protein from Saccharomyces cerevisiae S288C)
Guanosine-5'-triphosphate (523 Da, Ligand)
Exosome complex component rrp45 (34 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))
Periodic tryptophan protein 2 (101 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
40s ribosomal protein s14-a (14 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Rrna biogenesis protein rrp5 (193 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))
Atp-dependent rna helicase dob1 (122 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
40s ribosomal protein s6-a (27 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
40s ribosomal protein s28-a (7 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 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 10 (200 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Exosome complex component rrp4 (39 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
18s pre-rrna (582 kDa, RNA from Saccharomyces cerevisiae S288C)
Rrna 2'-o-methyltransferase fibrillarin (34 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))
Exosome complex protein lrp1 (21 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
40s ribosomal protein s9-a (22 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Nucleolar protein 58 (57 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Essential nuclear protein 1 (54 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))
Zinc ion (65 Da, Ligand)
40s ribosomal protein s4-a (29 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
5' ets (225 kDa, RNA from Saccharomyces cerevisiae S288C)
Rrna-processing protein fcf2 (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))
Protein sof1 (56 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
90s pre-ribosome (dhr1-depleted, state d) (5 MDa, Complex from Saccharomyces cerevisiae S288C)
Ribosomal rna-processing protein 9 (65 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 csl4 (31 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Exosome complex component ski6 (27 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Exosome complex component rrp42 (29 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))
U3 snorna (106 kDa, RNA from Saccharomyces cerevisiae S288C)
40s ribosomal protein s11-a (17 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Exosome complex component mtr3 (27 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Magnesium ion (24 Da, Ligand)
Rna 3'-terminal phosphate cyclase-like protein (40 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))
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))
Exosome complex exonuclease rrp6 (84 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
M-phase phosphoprotein 6 homolog (21 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))
40s ribosomal protein s5 (25 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 s7-a (21 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 mpp10 (67 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))

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