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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:"40S ribosomal protein S17" AND release_date:[2023-01-01T00:00:00Z TO 2023-12-31T23:59:59Z] AND author_orcid:"0000-0002-5794-4841"

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EMD-16525

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Cryo-EM structure of native Otu2-bound ubiquitinated 43S pre-initiation complex

Release date: May 24, 2023
Resolution: 3.0 Å
EM Method: Single-particle
Fitted PDBs: 8cah
Q-score: 0.43

Ikeuchi K, Ivic N, Buschauer R, Cheng J, Frohlich T, Matsuo Y, Berninghausen O, Inada T, Becker T, Beckmann R

Nat Commun (2023) 14 pp. 2730-2730 [ DOI: doi:10.1038/s41467-023-38161-w Pubmed: 37169754 ]

Sample:

Rps15 isoform 1 (16 kDa, Protein from Saccharomyces cerevisiae W303)
40s ribosomal protein s9-a (22 kDa, Protein from Saccharomyces cerevisiae W303)
Eukaryotic translation initiation factor 3 subunit a (110 kDa, Protein from Saccharomyces cerevisiae W303)
Rli1 isoform 1 (68 kDa, Protein from Saccharomyces cerevisiae W303)
18s ribosomal rna (579 kDa, RNA from Saccharomyces cerevisiae W303)
40s ribosomal protein s13 (17 kDa, Protein from Saccharomyces cerevisiae W303)
40s ribosomal protein s23-a (16 kDa, Protein from Saccharomyces cerevisiae W303)
40s ribosomal protein s5 (25 kDa, Protein from Saccharomyces cerevisiae W303)
60s ribosomal protein l41-a (3 kDa, Protein from Saccharomyces cerevisiae W303)
40s ribosomal protein s12 (15 kDa, Protein from Saccharomyces cerevisiae W303)
Rps29a isoform 1 (6 kDa, Protein from Saccharomyces cerevisiae W303)
Adenosine-5'-diphosphate (427 Da, Ligand)
40s ribosomal protein s25-a (12 kDa, Protein from Saccharomyces cerevisiae W303)
40s ribosomal protein s30-a (7 kDa, Protein from Saccharomyces cerevisiae W303)
Eukaryotic translation initiation factor 3 subunit j (29 kDa, Protein from Saccharomyces cerevisiae W303)
Rna recognition motif (unknown) (6 kDa, Protein from Saccharomyces cerevisiae W303)
Eukaryotic translation initiation factor 3 subunit i (38 kDa, Protein from Saccharomyces cerevisiae W303)
Guanine nucleotide-binding protein subunit beta-like protein (34 kDa, Protein from Saccharomyces cerevisiae W303)
40s ribosomal protein s22-a (14 kDa, Protein from Saccharomyces cerevisiae W303)
Eukaryotic translation initiation factor 3 subunit g (30 kDa, Protein from Saccharomyces cerevisiae W303)
40s ribosomal protein s17-a (15 kDa, Protein from Saccharomyces cerevisiae W303)
40s ribosomal protein s31 (8 kDa, Protein from Saccharomyces cerevisiae W303)
40s ribosomal protein s11-a (17 kDa, Protein from Saccharomyces cerevisiae W303)
40s ribosomal protein s10-a (12 kDa, Protein from Saccharomyces cerevisiae W303)
40s ribosomal protein s6-b (27 kDa, Protein from Saccharomyces cerevisiae W303)
40s ribosomal protein s20 (13 kDa, Protein from Saccharomyces cerevisiae W303)
40s ribosomal protein s18-a (17 kDa, Protein from Saccharomyces cerevisiae W303)
Zinc ion (65 Da, Ligand)
40s ribosomal protein s2 (27 kDa, Protein from Saccharomyces cerevisiae W303)
40s ribosomal protein s24-a (15 kDa, Protein from Saccharomyces cerevisiae W303)
40s ribosomal protein s4-b (29 kDa, Protein from Saccharomyces cerevisiae W303)
Sui1 isoform 1 (12 kDa, Protein from Saccharomyces cerevisiae W303)
40s ribosomal protein s16-a (15 kDa, Protein from Saccharomyces cerevisiae W303)
40s ribosomal protein s7-a (21 kDa, Protein from Saccharomyces cerevisiae W303)
40s ribosomal protein s21-a (9 kDa, Protein from Saccharomyces cerevisiae W303)
40s ribosomal protein s26-a (13 kDa, Protein from Saccharomyces cerevisiae W303)
40s ribosomal protein s8-a (22 kDa, Protein from Saccharomyces cerevisiae W303)
Eukaryotic translation initiation factor 3 subunit b (88 kDa, Protein from Saccharomyces cerevisiae W303)
40s ribosomal protein s28-a (7 kDa, Protein from Saccharomyces cerevisiae W303)
Magnesium ion (24 Da, Ligand)
Eukaryotic translation initiation factor 3 subunit c (93 kDa, Protein from Saccharomyces cerevisiae W303)
40s ribosomal protein s19-a (15 kDa, Protein from Saccharomyces cerevisiae W303)
Iron/sulfur cluster (351 Da, Ligand)
Yeast native 43s pre-initiation complex with deubiquitinating enzyme otu2 bound to ubiquitinated es7 (Complex from Saccharomyces cerevisiae)
40s ribosomal protein s14-a (14 kDa, Protein from Saccharomyces cerevisiae W303)
40s ribosomal protein s0-a (28 kDa, Protein from Saccharomyces cerevisiae W303)
60s ribosomal protein l40-a (8 kDa, Protein from Saccharomyces cerevisiae W303)
Eukaryotic translation initiation factor 4c (17 kDa, Protein from Saccharomyces cerevisiae W303)
Otu domain-containing protein 2 (36 kDa, Protein from Saccharomyces cerevisiae W303)
40s ribosomal protein s1-a (28 kDa, Protein from Saccharomyces cerevisiae W303)
40s ribosomal protein s27-a (8 kDa, Protein from Saccharomyces cerevisiae W303)
40s ribosomal protein s3 (26 kDa, Protein from Saccharomyces cerevisiae W303)

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EMD-16533

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Cryo-EM structure of native Otu2-bound ubiquitinated 48S initiation complex (partial)

Release date: May 24, 2023
Resolution: 3.3 Å
EM Method: Single-particle
Fitted PDBs: 8cas
Q-score: 0.366

Ikeuchi K, Ivic N, Buschauer R, Cheng J, Frohlich T, Matsuo Y, Berninghausen O, Inada T, Becker T, Beckmann R

Nat Commun (2023) 14 pp. 2730-2730 [ Pubmed: 37169754 DOI: doi:10.1038/s41467-023-38161-w ]

Sample:

Eukaryotic translation initiation factor 3 subunit g (30 kDa, Protein from Saccharomyces cerevisiae W303)
40s ribosomal protein s20 (13 kDa, Protein from Saccharomyces cerevisiae W303)
Guanine nucleotide-binding protein subunit beta-like protein (34 kDa, Protein from Saccharomyces cerevisiae W303)
Sui2 isoform 1 (34 kDa, Protein from Saccharomyces cerevisiae W303)
Adenosine-5'-diphosphate (427 Da, Ligand)
Protein-synthesizing gtpase (57 kDa, Protein from Saccharomyces cerevisiae W303)
Eukaryotic translation initiation factor 3 subunit a (110 kDa, Protein from Saccharomyces cerevisiae W303)
40s ribosomal protein s0-a (28 kDa, Protein from Saccharomyces cerevisiae W303)
40s ribosomal protein s22-a (14 kDa, Protein from Saccharomyces cerevisiae W303)
60s ribosomal protein l40-a (8 kDa, Protein from Saccharomyces cerevisiae W303)
Otu domain-containing protein 2 (36 kDa, Protein from Saccharomyces cerevisiae W303)
Adenosine-5'-triphosphate (507 Da, Ligand)
Eukaryotic translation initiation factor 3 subunit i (38 kDa, Protein from Saccharomyces cerevisiae W303)
Eukaryotic translation initiation factor 4c (17 kDa, Protein from Saccharomyces cerevisiae W303)
Magnesium ion (24 Da, Ligand)
40s ribosomal protein s7-a (21 kDa, Protein from Saccharomyces cerevisiae W303)
40s ribosomal protein s12 (15 kDa, Protein from Saccharomyces cerevisiae W303)
40s ribosomal protein s16-a (15 kDa, Protein from Saccharomyces cerevisiae W303)
40s ribosomal protein s17-a (15 kDa, Protein from Saccharomyces cerevisiae W303)
Phosphomethylphosphonic acid guanylate ester (521 Da, Ligand)
40s ribosomal protein s2 (27 kDa, Protein from Saccharomyces cerevisiae W303)
40s ribosomal protein s13 (17 kDa, Protein from Saccharomyces cerevisiae W303)
40s ribosomal protein s18-a (17 kDa, Protein from Saccharomyces cerevisiae W303)
40s ribosomal protein s31 (8 kDa, Protein from Saccharomyces cerevisiae W303)
Methionine (149 Da, Ligand)
40s ribosomal protein s27-a (8 kDa, Protein from Saccharomyces cerevisiae W303)
60s ribosomal protein l41-a (3 kDa, Protein from Saccharomyces cerevisiae W303)
Iron/sulfur cluster (351 Da, Ligand)
40s ribosomal protein s4-b (29 kDa, Protein from Saccharomyces cerevisiae W303)
40s ribosomal protein s3 (26 kDa, Protein from Saccharomyces cerevisiae W303)
Rps15 isoform 1 (16 kDa, Protein from Saccharomyces cerevisiae W303)
40s ribosomal protein s8-a (22 kDa, Protein from Saccharomyces cerevisiae W303)
40s ribosomal protein s28-a (7 kDa, Protein from Saccharomyces cerevisiae W303)
40s ribosomal protein s23-a (16 kDa, Protein from Saccharomyces cerevisiae W303)
Yeast native 48s initiation complex (partial) with deubiquitinating enzyme otu2 bound to ubiquitinated es7 (Complex from Saccharomyces cerevisiae)
Mrna (2 kDa, RNA from Saccharomyces cerevisiae)
Rli1 isoform 1 (68 kDa, Protein from Saccharomyces cerevisiae W303)
40s ribosomal protein s5 (25 kDa, Protein from Saccharomyces cerevisiae W303)
Zinc ion (65 Da, Ligand)
40s ribosomal protein s30-a (7 kDa, Protein from Saccharomyces cerevisiae W303)
Trna (24 kDa, RNA from Saccharomyces cerevisiae W303)
Eukaryotic translation initiation factor 3 subunit b (88 kDa, Protein from Saccharomyces cerevisiae W303)
40s ribosomal protein s14-a (14 kDa, Protein from Saccharomyces cerevisiae W303)
40s ribosomal protein s11-a (17 kDa, Protein from Saccharomyces cerevisiae W303)
40s ribosomal protein s19-a (15 kDa, Protein from Saccharomyces cerevisiae W303)
Sui3 isoform 1 (31 kDa, Protein from Saccharomyces cerevisiae W303)
40s ribosomal protein s25-a (12 kDa, Protein from Saccharomyces cerevisiae W303)
Eukaryotic translation initiation factor 3 subunit c (93 kDa, Protein from Saccharomyces cerevisiae W303)
40s ribosomal protein s10-a (12 kDa, Protein from Saccharomyces cerevisiae W303)
40s ribosomal protein s1-a (28 kDa, Protein from Saccharomyces cerevisiae W303)
18s ribosomal rna (579 kDa, RNA from Saccharomyces cerevisiae W303)
Rps29a isoform 1 (6 kDa, Protein from Saccharomyces cerevisiae W303)
40s ribosomal protein s26-a (13 kDa, Protein from Saccharomyces cerevisiae W303)
40s ribosomal protein s9-a (22 kDa, Protein from Saccharomyces cerevisiae W303)
40s ribosomal protein s6-b (27 kDa, Protein from Saccharomyces cerevisiae W303)
40s ribosomal protein s21-a (9 kDa, Protein from Saccharomyces cerevisiae W303)
Tif5 isoform 1 (45 kDa, Protein from Saccharomyces cerevisiae W303)
40s ribosomal protein s24-a (15 kDa, Protein from Saccharomyces cerevisiae W303)

[Show more]

EMD-16541

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Yeast cytoplasmic pre-40S ribosome biogenesis complex with deubiquitinating enzyme Otu2

Release date: May 24, 2023
Resolution: 3.8 Å
EM Method: Single-particle
Fitted PDBs: 8cbj
Q-score: 0.263

Ikeuchi K, Ivic N, Buschauer R, Cheng J, Frohlich T, Matsuo Y, Berninghausen O, Inada T, Becker T, Beckmann R

Nat Commun (2023) 14 pp. 2730-2730 [ DOI: doi:10.1038/s41467-023-38161-w Pubmed: 37169754 ]

Sample:

Rps15 isoform 1 (16 kDa, Protein from Saccharomyces cerevisiae W303)
Enp1 isoform 1 (55 kDa, Protein from Saccharomyces cerevisiae W303)
40s ribosomal protein s9-a (22 kDa, Protein from Saccharomyces cerevisiae W303)
Pre-rrna-processing protein pno1 (30 kDa, Protein from Saccharomyces cerevisiae W303)
40s ribosomal protein s13 (17 kDa, Protein from Saccharomyces cerevisiae W303)
40s ribosomal protein s5 (25 kDa, Protein from Saccharomyces cerevisiae W303)
Ltv1 isoform 1 (53 kDa, Protein from Saccharomyces cerevisiae W303)
40s ribosomal protein s23-a (16 kDa, Protein from Saccharomyces cerevisiae W303)
Rps29a isoform 1 (6 kDa, Protein from Saccharomyces cerevisiae W303)
40s ribosomal protein s25-a (12 kDa, Protein from Saccharomyces cerevisiae W303)
Tsr1 isoform 1 (90 kDa, Protein from Saccharomyces cerevisiae W303)
40s ribosomal protein s30-a (7 kDa, Protein from Saccharomyces cerevisiae W303)
Guanine nucleotide-binding protein subunit beta-like protein (34 kDa, Protein from Saccharomyces cerevisiae W303)
40s ribosomal protein s22-a (14 kDa, Protein from Saccharomyces cerevisiae W303)
20s pre-ribosomal rna (647 kDa, RNA from Saccharomyces cerevisiae)
40s ribosomal protein s11-a (17 kDa, Protein from Saccharomyces cerevisiae W303)
40s ribosomal protein s6-b (27 kDa, Protein from Saccharomyces cerevisiae W303)
40s ribosomal protein s20 (13 kDa, Protein from Saccharomyces cerevisiae W303)
40s ribosomal protein s18-a (17 kDa, Protein from Saccharomyces cerevisiae W303)
Zinc ion (65 Da, Ligand)
40s ribosomal protein s2 (27 kDa, Protein from Saccharomyces cerevisiae W303)
Yeast cytoplasmic pre-40s ribosome biogenesis complex with deubiquitinating enzyme otu2 (Complex from Saccharomyces cerevisiae)
40s ribosomal protein s24-a (15 kDa, Protein from Saccharomyces cerevisiae W303)
40s ribosomal protein s0-a (28 kDa, Protein from Saccharomyces cerevisiae W303)
40s ribosomal protein s4-b (29 kDa, Protein from Saccharomyces cerevisiae W303)
Rrna adenine n(6)-methyltransferase (36 kDa, Protein from Saccharomyces cerevisiae W303)
40s ribosomal protein s7-a (21 kDa, Protein from Saccharomyces cerevisiae W303)
40s ribosomal protein s16-a (15 kDa, Protein from Saccharomyces cerevisiae W303)
40s ribosomal protein s21-a (9 kDa, Protein from Saccharomyces cerevisiae W303)
40s ribosomal protein s8-a (22 kDa, Protein from Saccharomyces cerevisiae W303)
40s ribosomal protein s28-a (7 kDa, Protein from Saccharomyces cerevisiae W303)
Magnesium ion (24 Da, Ligand)
40s ribosomal protein s12 (15 kDa, Protein from baker's yeast)
40s ribosomal protein s19-a (15 kDa, Protein from Saccharomyces cerevisiae W303)
20s-pre-rrna d-site endonuclease nob1 (51 kDa, Protein from Saccharomyces cerevisiae W303)
Non-specific serine/threonine protein kinase (49 kDa, Protein from Saccharomyces cerevisiae W303)
40s ribosomal protein s14-a (14 kDa, Protein from Saccharomyces cerevisiae W303)
40s ribosomal protein s17-a (15 kDa, Protein from baker's yeast)
Otu domain-containing protein 2 (36 kDa, Protein from Saccharomyces cerevisiae W303)
40s ribosomal protein s1-a (28 kDa, Protein from Saccharomyces cerevisiae W303)
40s ribosomal protein s27-a (8 kDa, Protein from Saccharomyces cerevisiae W303)
40s ribosomal protein s3 (26 kDa, Protein from Saccharomyces cerevisiae W303)

[Show more]

Sort by: Download

Showing 1 - 3 of 3. Page 1 of 1

Display: Statistics

Download

Select database:

EMDB [3]

Format:

Select the script type:

Shell (Unix-based) Batch (Windows-based)

Preview first 10

Field: