Electron Microscopy Data Bank

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proteasome* AND author_name:"Ameismeier M"

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EMD-16036

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human MDM2-5S RNP

Release date: June 14, 2023
Resolution: 4.1 Å
EM Method: Single-particle
Fitted PDBs: 8bgu
Q-score: 0.321

Castillo Duque de Estrada NM, Thoms M, Flemming D, Hammaren HM, Buschauer R, Ameismeier M, Bassler J, Beck M, Beckmann R, Hurt E

Nat Struct Mol Biol (2023) 30 pp. 1119-1131 [ Pubmed: 37291423 DOI: doi:10.1038/s41594-023-01006-7 ]

Sample:

60s ribosomal protein l11 (20 kDa, Protein from Homo sapiens)
60s ribosomal protein l5 (34 kDa, Protein from Homo sapiens)
5s rrna (38 kDa, RNA from Saccharomyces cerevisiae)
Zinc ion (65 Da, Ligand)
E3 ubiquitin-protein ligase mdm2 (55 kDa, Protein from Homo sapiens)
Human mdm2-5s rnp (Complex from Homo sapiens)

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EMD-32792

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Cryo-EM structure of a yeast pre-40S ribosomal subunit - State Tsr1-1 (with Rps2)

Release date: Oct. 19, 2022
Resolution: 3.4 Å
EM Method: Single-particle
Fitted PDBs: 7wtn
Q-score: 0.47

Cheng J, Lau B, Thoms M, Ameismeier M, Berninghausen O, Hurt E, Beckmann R

Nucleic Acids Res (2022) 50 pp. 11924-11937 [ Pubmed: 36321656 DOI: doi:10.1093/nar/gkac961 ]

Sample:

40s ribosomal protein s1-a (28 kDa, Protein from baker's yeast)
40s ribosomal protein s30-a (7 kDa, Protein from baker's yeast)
40s ribosomal protein s4-a (29 kDa, Protein from baker's yeast)
Zinc ion (65 Da, Ligand)
Pre-rrna-processing protein pno1 (30 kDa, Protein from baker's yeast)
40s ribosomal protein s9-a (22 kDa, Protein from baker's yeast)
40s ribosomal protein s23-a (16 kDa, Protein from baker's yeast)
40s ribosomal protein s24-a (15 kDa, Protein from baker's yeast)
40s ribosomal protein s27-a (8 kDa, Protein from baker's yeast)
40s ribosomal protein s8-a (22 kDa, Protein from baker's yeast)
40s ribosomal protein s11-a (17 kDa, Protein from baker's yeast)
18s rrna (579 kDa, RNA from Saccharomyces cerevisiae)
40s ribosomal protein s14-a (14 kDa, Protein from baker's yeast)
Yeast pre-40s ribosomal subunit (Complex from Saccharomyces cerevisiae)
40s ribosomal protein s6-a (27 kDa, Protein from baker's yeast)
40s ribosomal protein s22-a (14 kDa, Protein from baker's yeast)
40s ribosomal protein s7-a (21 kDa, Protein from baker's yeast)
40s ribosomal protein s2 (27 kDa, Protein from baker's yeast)
18s rrna (guanine(1575)-n(7))-methyltransferase (30 kDa, Protein from baker's yeast)
40s ribosomal protein s13 (17 kDa, Protein from baker's yeast)

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EMD-32793

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Cryo-EM structure of a yeast pre-40S ribosomal subunit - State Tsr1-1 (without Rps2)

Release date: Oct. 19, 2022
Resolution: 3.5 Å
EM Method: Single-particle
Fitted PDBs: 7wto
Q-score: 0.457

Cheng J, Lau B, Thoms M, Ameismeier M, Berninghausen O, Hurt E, Beckmann R

Nucleic Acids Res (2022) 50 pp. 11924-11937 [ Pubmed: 36321656 DOI: doi:10.1093/nar/gkac961 ]

Sample:

40s ribosomal protein s8-a (22 kDa, Protein from baker's yeast)
40s ribosomal protein s11-a (17 kDa, Protein from baker's yeast)
40s ribosomal protein s6-a (27 kDa, Protein from baker's yeast)
18s rrna (579 kDa, RNA from Saccharomyces cerevisiae)
40s ribosomal protein s22-a (14 kDa, Protein from baker's yeast)
Pre-rrna-processing protein pno1 (30 kDa, Protein from baker's yeast)
40s ribosomal protein s1-a (28 kDa, Protein from baker's yeast)
40s ribosomal protein s7-a (21 kDa, Protein from baker's yeast)
40s ribosomal protein s9-a (22 kDa, Protein from baker's yeast)
40s ribosomal protein s23-a (16 kDa, Protein from baker's yeast)
40s ribosomal protein s24-a (15 kDa, Protein from baker's yeast)
40s ribosomal protein s4-a (29 kDa, Protein from baker's yeast)
40s ribosomal protein s27-a (8 kDa, Protein from baker's yeast)
40s ribosomal protein s30-a (7 kDa, Protein from baker's yeast)
Zinc ion (65 Da, Ligand)
Yeast pre-40s ribosomal subunit (Complex from Homo sapiens)
40s ribosomal protein s14-a (14 kDa, Protein from baker's yeast)
40s ribosomal protein s13 (17 kDa, Protein from baker's yeast)

[Show more]

EMD-32794

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Cryo-EM structure of a yeast pre-40S ribosomal subunit - State Tsr1-2 (with Rps2)

Release date: Oct. 19, 2022
Resolution: 3.8 Å
EM Method: Single-particle
Fitted PDBs: 7wtp
Q-score: 0.399

Cheng J, Lau B, Thoms M, Ameismeier M, Berninghausen O, Hurt E, Beckmann R

Nucleic Acids Res (2022) 50 pp. 11924-11937 [ Pubmed: 36321656 DOI: doi:10.1093/nar/gkac961 ]

Sample:

40s ribosomal protein s1-a (28 kDa, Protein from baker's yeast)
40s ribosomal protein s30-a (7 kDa, Protein from baker's yeast)
40s ribosomal protein s4-a (29 kDa, Protein from baker's yeast)
Zinc ion (65 Da, Ligand)
Pre-rrna-processing protein pno1 (30 kDa, Protein from baker's yeast)
40s ribosomal protein s9-a (22 kDa, Protein from baker's yeast)
40s ribosomal protein s23-a (16 kDa, Protein from baker's yeast)
40s ribosomal protein s24-a (15 kDa, Protein from baker's yeast)
40s ribosomal protein s27-a (8 kDa, Protein from baker's yeast)
Ribosome biogenesis protein tsr1 (90 kDa, Protein from baker's yeast)
40s ribosomal protein s8-a (22 kDa, Protein from baker's yeast)
40s ribosomal protein s11-a (17 kDa, Protein from baker's yeast)
18s rrna (579 kDa, RNA from Saccharomyces cerevisiae)
40s ribosomal protein s14-a (14 kDa, Protein from baker's yeast)
Yeast pre-40s ribosomal subunit (Complex from Saccharomyces cerevisiae)
40s ribosomal protein s6-a (27 kDa, Protein from baker's yeast)
40s ribosomal protein s22-a (14 kDa, Protein from baker's yeast)
40s ribosomal protein s7-a (21 kDa, Protein from baker's yeast)
40s ribosomal protein s2 (27 kDa, Protein from baker's yeast)
18s rrna (guanine(1575)-n(7))-methyltransferase (30 kDa, Protein from baker's yeast)
40s ribosomal protein s13 (17 kDa, Protein from baker's yeast)

[Show more]

EMD-32795

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Cryo-EM structure of a yeast pre-40S ribosomal subunit - State Tsr1-2 (without Rps2)

Release date: Oct. 19, 2022
Resolution: 3.7 Å
EM Method: Single-particle
Fitted PDBs: 7wtq
Q-score: 0.382

Cheng J, Lau B, Thoms M, Ameismeier M, Berninghausen O, Hurt E, Beckmann R

Nucleic Acids Res (2022) 50 pp. 11924-11937 [ Pubmed: 36321656 DOI: doi:10.1093/nar/gkac961 ]

Sample:

40s ribosomal protein s1-a (28 kDa, Protein from baker's yeast)
40s ribosomal protein s30-a (7 kDa, Protein from baker's yeast)
40s ribosomal protein s4-a (29 kDa, Protein from baker's yeast)
Zinc ion (65 Da, Ligand)
Pre-rrna-processing protein pno1 (30 kDa, Protein from baker's yeast)
40s ribosomal protein s9-a (22 kDa, Protein from baker's yeast)
40s ribosomal protein s23-a (16 kDa, Protein from baker's yeast)
40s ribosomal protein s24-a (15 kDa, Protein from baker's yeast)
40s ribosomal protein s27-a (8 kDa, Protein from baker's yeast)
Ribosome biogenesis protein tsr1 (90 kDa, Protein from baker's yeast)
40s ribosomal protein s8-a (22 kDa, Protein from baker's yeast)
40s ribosomal protein s11-a (17 kDa, Protein from baker's yeast)
18s rrna (579 kDa, RNA from Saccharomyces cerevisiae)
40s ribosomal protein s14-a (14 kDa, Protein from baker's yeast)
40s ribosomal protein s6-a (27 kDa, Protein from baker's yeast)
Yeast pre-40s ribosomal subunit (Complex from Saccharomyces cerevisiae)
40s ribosomal protein s22-a (14 kDa, Protein from baker's yeast)
40s ribosomal protein s7-a (21 kDa, Protein from baker's yeast)
18s rrna (guanine(1575)-n(7))-methyltransferase (30 kDa, Protein from baker's yeast)
40s ribosomal protein s13 (17 kDa, Protein from baker's yeast)

[Show more]

EMD-32796

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Cryo-EM structure of a yeast pre-40S ribosomal subunit - State Tsr1-3

Release date: Oct. 19, 2022
Resolution: 3.5 Å
EM Method: Single-particle
Fitted PDBs: 7wtr
Q-score: 0.435

Cheng J, Lau B, Thoms M, Ameismeier M, Berninghausen O, Hurt E, Beckmann R

Nucleic Acids Res (2022) 50 pp. 11924-11937 [ Pubmed: 36321656 DOI: doi:10.1093/nar/gkac961 ]

Sample:

40s ribosomal protein s1-a (28 kDa, Protein from baker's yeast)
40s ribosomal protein s30-a (7 kDa, Protein from baker's yeast)
40s ribosomal protein s4-a (29 kDa, Protein from baker's yeast)
Zinc ion (65 Da, Ligand)
Pre-rrna-processing protein pno1 (30 kDa, Protein from baker's yeast)
40s ribosomal protein s9-a (22 kDa, Protein from baker's yeast)
40s ribosomal protein s23-a (16 kDa, Protein from baker's yeast)
40s ribosomal protein s24-a (15 kDa, Protein from baker's yeast)
40s ribosomal protein s27-a (8 kDa, Protein from baker's yeast)
Ribosome biogenesis protein tsr1 (90 kDa, Protein from baker's yeast)
40s ribosomal protein s8-a (22 kDa, Protein from baker's yeast)
40s ribosomal protein s11-a (17 kDa, Protein from baker's yeast)
18s rrna (579 kDa, RNA from Saccharomyces cerevisiae)
40s ribosomal protein s14-a (14 kDa, Protein from baker's yeast)
Yeast pre-40s ribosomal subunit (Complex from Saccharomyces cerevisiae)
40s ribosomal protein s6-a (27 kDa, Protein from baker's yeast)
40s ribosomal protein s22-a (14 kDa, Protein from baker's yeast)
40s ribosomal protein s7-a (21 kDa, Protein from baker's yeast)
40s ribosomal protein s2 (27 kDa, Protein from baker's yeast)
18s rrna (guanine(1575)-n(7))-methyltransferase (30 kDa, Protein from baker's yeast)
40s ribosomal protein s13 (17 kDa, Protein from baker's yeast)

[Show more]

EMD-32800

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Cryo-EM structure of a human pre-40S ribosomal subunit - State RRP12-A1 (with CK1)

Release date: Oct. 19, 2022
Resolution: 3.1 Å
EM Method: Single-particle
Fitted PDBs: 7wtt
Q-score: 0.426

Cheng J, Lau B, Thoms M, Ameismeier M, Berninghausen O, Hurt E, Beckmann R

Nucleic Acids Res (2022) 50 pp. 11924-11937 [ Pubmed: 36321656 DOI: doi:10.1093/nar/gkac961 ]

Sample:

40s ribosomal protein s18 (17 kDa, Protein from human)
40s ribosomal protein s16 (16 kDa, Protein from human)
40s ribosomal protein s8 (24 kDa, Protein from human)
Rrp12-like protein (143 kDa, Protein from human)
40s ribosomal protein s9 (22 kDa, Protein from human)
Pre-rrna-processing protein tsr1 homolog (91 kDa, Protein from human)
Zinc ion (65 Da, Ligand)
Yeast pre-40s ribosomal subunit (Complex from Homo sapiens)
40s ribosomal protein s15 (17 kDa, Protein from human)
40s ribosomal protein s4, x isoform (29 kDa, Protein from human)
40s ribosomal protein s24 (15 kDa, Protein from human)
40s ribosomal protein s23 (15 kDa, Protein from human)
40s ribosomal protein s28 (7 kDa, Protein from human)
Bystin (49 kDa, Protein from human)
40s ribosomal protein s11 (18 kDa, Protein from human)
40s ribosomal protein s6 (28 kDa, Protein from human)
Ribosome biogenesis protein slx9 homolog (25 kDa, Protein from human)
40s ribosomal protein s7 (22 kDa, Protein from human)
40s ribosomal protein s25 (13 kDa, Protein from human)
Probable 18s rrna (guanine-n(7))-methyltransferase (31 kDa, Protein from human)
Rna-binding protein pno1 (27 kDa, Protein from human)
40s ribosomal protein s3a (30 kDa, Protein from human)
40s ribosomal protein s19 (16 kDa, Protein from human)
40s ribosomal protein s15a (14 kDa, Protein from human)
40s ribosomal protein s12 (14 kDa, Protein from human)
S-adenosyl-l-homocysteine (384 Da, Ligand)
18s rrna (604 kDa, RNA from Homo sapiens)
Ubiquitin-40s ribosomal protein s27a (18 kDa, Protein from human)
40s ribosomal protein s5 (22 kDa, Protein from human)
40s ribosomal protein s14 (16 kDa, Protein from human)
Multifunctional methyltransferase subunit trm112-like protein (14 kDa, Protein from human)
40s ribosomal protein s17 (15 kDa, Protein from human)
Casein kinase i isoform alpha (38 kDa, Protein from human)
40s ribosomal protein s13 (17 kDa, Protein from human)
Protein ltv1 homolog (54 kDa, Protein from human)
40s ribosomal protein s27 (9 kDa, Protein from human)
40s ribosomal protein s30 (6 kDa, Protein from human)

[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 [ DOI: doi:10.1126/science.abb4119 Pubmed: 32943521 ]

Sample:

Nucleolar protein 56 (56 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))
Ribosome biogenesis protein bms1 (135 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))
Ribosomal rna small subunit methyltransferase nep1 (27 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Protein sof1 (56 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 s14-a (14 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Zinc ion (65 Da, Ligand)
Nucleolar protein 58 (57 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
40s ribosomal protein s22-a (14 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
U3 snorna (56 kDa, RNA from Saccharomyces cerevisiae S288C)
Rps5p (25 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
40s ribosomal protein s7-a (21 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 10 (200 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Something about silencing protein 10 (70 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Ribosome biogenesis protein utp30 (31 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 s16-a (15 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
5ets rna (225 kDa, RNA from Saccharomyces cerevisiae S288C)
U3 small nucleolar rna-associated protein 18 (66 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Essential nuclear protein 1 (55 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))
18s rrna (444 kDa, RNA from Saccharomyces cerevisiae S288C)
Guanosine-5'-triphosphate (523 Da, Ligand)
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))
U3 small nucleolar rna-associated protein 5 (72 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 ribonucleoprotein protein imp3 (21 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Pre-rrna-processing protein pno1 (30 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 s27-a (8 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 14 (103 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Nucleolar complex protein 14 (94 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Periodic tryptophan protein 2 (104 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Nucleolar complex protein 4 (63 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 21 (104 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
40s ribosomal protein s9-a (22 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / 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))
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))
U3 small nucleolar rna-associated protein 8 (80 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))
90s pre-ribbosome state a (Complex from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
U3 small nucleolar rna-associated protein 15 (57 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 rna-associated protein 9 (65 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Rrna-processing protein fcf1 (21 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Magnesium ion (24 Da, Ligand)
U3 small nucleolar rna-associated protein 12 (106 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))
Ribosomal rna-processing protein 7 (34 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))
Rrna 2'-o-methyltransferase fibrillarin (34 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
40s ribosomal protein s18-a (17 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Ribosomal rna-processing protein 9 (65 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))

[Show more]

EMD-11358

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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 [ DOI: doi:10.1126/science.abb4119 Pubmed: 32943521 ]

Sample:

40s ribosomal protein s8-a (22 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Nucleolar protein 56 (56 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))
Ribosome biogenesis protein bms1 (135 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))
Ribosome biogenesis protein enp2 (81 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
40s ribosomal protein s11-a (17 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))
Protein sof1 (56 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 s14-a (14 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Zinc ion (65 Da, Ligand)
Nucleolar protein 58 (57 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
40s ribosomal protein s22-a (14 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
U3 snorna (56 kDa, RNA from Saccharomyces cerevisiae S288C)
40s ribosomal protein s4-a (29 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Rps5p (25 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
40s ribosomal protein s7-a (21 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 10 (200 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Something about silencing protein 10 (70 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Ribosome biogenesis protein utp30 (31 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Protein bfr2 (61 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 s16-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))
Essential nuclear protein 1 (55 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))
5ets rna (225 kDa, RNA from Saccharomyces cerevisiae S288C)
40s ribosomal protein s24-a (15 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Guanosine-5'-triphosphate (523 Da, Ligand)
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))
U3 small nucleolar rna-associated protein 5 (72 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 20 (287 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 ribonucleoprotein protein lcp5 (40 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Pre-rrna-processing protein pno1 (30 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 s27-a (8 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
40s ribosomal protein s13 (17 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Nucleolar complex protein 14 (94 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Periodic tryptophan protein 2 (104 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Nucleolar complex protein 4 (63 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 21 (104 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
40s ribosomal protein s6-a (27 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Rrna-processing protein fcf2 (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))
Bud site selection protein 21 (24 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))
U3 small nucleolar rna-associated protein 8 (80 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 15 (57 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 rna-associated protein 9 (65 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Rrna-processing protein fcf1 (21 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
18s rrna (582 kDa, RNA from Saccharomyces cerevisiae S288C)
U3 small nucleolar rna-associated protein 12 (106 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))
U3 small nucleolar rna-associated protein 14,u3 small nucleolar rna-associated protein 14 (17 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 7 (62 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Rrna 2'-o-methyltransferase fibrillarin (34 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Rna cytidine acetyltransferase (119 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
90s pre-ribosome state b2 (Complex 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 s18-a,40s ribosomal protein s18-a,rps18 (16 kDa, Protein from Saccharomyces cerevisiae S288C)

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EMD-11359

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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 [ DOI: doi:10.1126/science.abb4119 Pubmed: 32943521 ]

Sample:

40s ribosomal protein s8-a (22 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Nucleolar protein 56 (56 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))
Ribosome biogenesis protein bms1 (135 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))
Ribosome biogenesis protein enp2 (81 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
40s ribosomal protein s11-a (17 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 snorna (106 kDa, RNA from Saccharomyces cerevisiae S288C)
Protein sof1 (56 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 s14-a (14 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Zinc ion (65 Da, Ligand)
Nucleolar protein 58 (57 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
40s ribosomal protein s22-a (14 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 s7-a (21 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 10 (200 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Something about silencing protein 10 (70 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Ribosome biogenesis protein utp30 (31 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Protein bfr2 (61 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 s16-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))
Essential nuclear protein 1 (55 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))
5ets rna (225 kDa, RNA from Saccharomyces cerevisiae S288C)
40s ribosomal protein s24-a (15 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Guanosine-5'-triphosphate (523 Da, Ligand)
40s ribosomal protein s28-a (7 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))
Regulator of rdna transcription protein 14 (23 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 ribonucleoprotein protein imp3 (21 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Pre-rrna-processing protein pno1 (30 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 s27-a (8 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 14 (103 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Nucleolar complex protein 14 (94 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Periodic tryptophan protein 2 (104 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Nucleolar complex protein 4 (63 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 21 (104 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
40s ribosomal protein s6-a (27 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Rrna-processing protein fcf2 (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))
Bud site selection protein 21 (24 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))
U3 small nucleolar rna-associated protein 8 (80 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 15 (57 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
90s pre-ribbosome state pre-a1 (Complex 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 rna-associated protein 9 (65 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Rrna-processing protein fcf1 (21 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
18s rrna (582 kDa, RNA from Saccharomyces cerevisiae S288C)
Magnesium ion (24 Da, Ligand)
U3 small nucleolar rna-associated protein 12 (106 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))
Ribosomal rna-processing protein 7 (34 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))
Rrna 2'-o-methyltransferase fibrillarin (34 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 s18-a (17 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 s5 (25 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Rrna biogenesis protein rrp5 (193 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))

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