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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:

Research:

perform basic research in molecular biology

Services:

offer vital services to scientists in the member states

Training

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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primary_citation_author:"Banerjee A" AND xref_links:"pdb" AND xref_links:"go" AND author_name:"D"

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EMD-17653

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Mouse RPL39L integrated into the yeast 60S ribosomal subunit

Release date: June 26, 2024
Resolution: 2.15 Å
EM Method: Single-particle
Fitted PDBs: 8pfr
Q-score: 0.675

Banerjee A, Ataman M, Smialek MJ, Mookherjee D, Rabl J, Mironov A, Mues L, Enkler L, Coto-Llerena M, Schmidt A, Boehringer D, Piscuoglio S, Spang A, Mittal N, Zavolan M

Nucleic Acids Res (2024) 52 pp. 9028-9048 [ DOI: doi:10.1093/nar/gkae630 Pubmed: 39041433 ]

Sample:

60s ribosomal protein l20-a (20 kDa, Protein from Saccharomyces cerevisiae)
60s ribosomal protein l13-a (22 kDa, Protein from Saccharomyces cerevisiae)
60s ribosomal protein l19-a (21 kDa, Protein from Saccharomyces cerevisiae)
60s ribosomal protein l7-a (27 kDa, Protein from Saccharomyces cerevisiae)
60s ribosomal protein l33-a (12 kDa, Protein from Saccharomyces cerevisiae)
60s ribosomal protein l17-a (20 kDa, Protein from Saccharomyces cerevisiae)
60s ribosomal protein l30 (11 kDa, Protein from Saccharomyces cerevisiae)
60s ribosomal protein l32 (14 kDa, Protein from Saccharomyces cerevisiae)
60s ribosomal protein l4-a (39 kDa, Protein from Saccharomyces cerevisiae)
60s ribosomal protein l23-a (14 kDa, Protein from Saccharomyces cerevisiae)
60s ribosomal protein l24-a (17 kDa, Protein from Saccharomyces cerevisiae)
60s ribosomal protein l16-a (22 kDa, Protein from Saccharomyces cerevisiae)
60s ribosomal protein l42-a (12 kDa, Protein from Saccharomyces cerevisiae)
60s ribosomal protein l5 (33 kDa, Protein from Saccharomyces cerevisiae)
60s ribosomal protein l38 (8 kDa, Protein from Saccharomyces cerevisiae)
60s ribosomal protein l39-like (6 kDa, Protein from Mus musculus)
60s ribosomal protein l43-a (10 kDa, Protein from Saccharomyces cerevisiae)
25s rrna (1 MDa, RNA from Saccharomyces cerevisiae)
Spermine (202 Da, Ligand)
60s ribosomal protein l14-a (15 kDa, Protein from Saccharomyces cerevisiae)
60s ribosomal protein l31-a (12 kDa, Protein from Saccharomyces cerevisiae)
60s ribosomal protein l6-a (20 kDa, Protein from Saccharomyces cerevisiae)
60s ribosomal protein l18-a (20 kDa, Protein from Saccharomyces cerevisiae)
60s ribosomal protein l2-a (27 kDa, Protein from Saccharomyces cerevisiae)
5s rrna (38 kDa, RNA from Saccharomyces cerevisiae)
60s ribosomal protein l36-a (11 kDa, Protein from Saccharomyces cerevisiae)
60s ribosomal protein l9-a (21 kDa, Protein from Saccharomyces cerevisiae)
Chloride ion (35 Da, Ligand)
60s ribosomal protein l34-a (13 kDa, Protein from Saccharomyces cerevisiae)
Water (18 Da, Ligand)
Spermidine (145 Da, Ligand)
60s ribosomal protein l3 (43 kDa, Protein from Saccharomyces cerevisiae)
60s ribosomal protein l28 (16 kDa, Protein from Saccharomyces cerevisiae)
60s ribosomal protein l21-a (18 kDa, Protein from Saccharomyces cerevisiae)
Ubiquitin-60s ribosomal protein l40 (14 kDa, Protein from Saccharomyces cerevisiae)
60s ribosomal protein l29 (6 kDa, Protein from Saccharomyces cerevisiae)
Magnesium ion (24 Da, Ligand)
60s ribosomal protein l25 (15 kDa, Protein from Saccharomyces cerevisiae)
60s ribosomal protein l8-a (28 kDa, Protein from Saccharomyces cerevisiae)
Zinc ion (65 Da, Ligand)
60s ribosomal protein l11-a (19 kDa, Protein from Saccharomyces cerevisiae)
5.8s rrna (50 kDa, RNA from Saccharomyces cerevisiae)
60s ribosomal protein l10 (25 kDa, Protein from Saccharomyces cerevisiae)
60s ribosomal protein l27-a (15 kDa, Protein from Saccharomyces cerevisiae)
60s ribosomal protein l15-a (24 kDa, Protein from Saccharomyces cerevisiae)
60s ribosomal protein l37-a (9 kDa, Protein from Saccharomyces cerevisiae)
Mouse rpl39l in yeast 60s ribosomal subunit (1 MDa, Complex from Saccharomyces cerevisiae)
60s ribosomal protein l35-a (13 kDa, Protein from Saccharomyces cerevisiae)
60s ribosomal protein l26-a (14 kDa, Protein from Saccharomyces cerevisiae)
60s ribosomal protein l22-a (13 kDa, Protein from Saccharomyces cerevisiae)

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EMD-17549

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Yeast 60S ribosomal subunit, RPL39 deletion

Release date: June 12, 2024
Resolution: 2.66 Å
EM Method: Single-particle
Fitted PDBs: 8p8m
Q-score: 0.571

Banerjee A, Ataman M, Smialek MJ, Mookherjee D, Rabl J, Mironov A, Mues L, Enkler L, Coto-Llerena M, Schmidt A, Boehringer D, Piscuoglio S, Spang A, Mittal N, Zavolan M

Nucleic Acids Res (2024) 52 pp. 9028-9048 [ DOI: doi:10.1093/nar/gkae630 Pubmed: 39041433 ]

Sample:

60s acidic ribosomal protein p0 (33 kDa, Protein from Saccharomyces cerevisiae)
60s ribosomal protein l20-a (20 kDa, Protein from Saccharomyces cerevisiae)
60s ribosomal protein l13-a (22 kDa, Protein from Saccharomyces cerevisiae)
60s ribosomal protein l19-a (21 kDa, Protein from Saccharomyces cerevisiae)
60s ribosomal protein l7-a (27 kDa, Protein from Saccharomyces cerevisiae)
Yeast 60s ribosomal subunit without ribosomal protein rpl39 (1 MDa, Complex from Saccharomyces cerevisiae)
60s ribosomal protein l33-a (12 kDa, Protein from Saccharomyces cerevisiae)
60s ribosomal protein l17-a (20 kDa, Protein from Saccharomyces cerevisiae)
60s ribosomal protein l30 (11 kDa, Protein from Saccharomyces cerevisiae)
60s ribosomal protein l32 (14 kDa, Protein from Saccharomyces cerevisiae)
60s ribosomal protein l4-a (39 kDa, Protein from Saccharomyces cerevisiae)
60s ribosomal protein l23-a (14 kDa, Protein from Saccharomyces cerevisiae)
60s ribosomal protein l24-a (17 kDa, Protein from Saccharomyces cerevisiae)
60s ribosomal protein l16-a (22 kDa, Protein from Saccharomyces cerevisiae)
60s ribosomal protein l42-a (12 kDa, Protein from Saccharomyces cerevisiae)
60s ribosomal protein l5 (33 kDa, Protein from Saccharomyces cerevisiae)
60s ribosomal protein l38 (8 kDa, Protein from Saccharomyces cerevisiae)
60s ribosomal protein l43-a (10 kDa, Protein from Saccharomyces cerevisiae)
Spermine (202 Da, Ligand)
60s ribosomal protein l14-a (15 kDa, Protein from Saccharomyces cerevisiae)
60s ribosomal protein l31-a (12 kDa, Protein from Saccharomyces cerevisiae)
60s ribosomal protein l6-a (20 kDa, Protein from Saccharomyces cerevisiae)
5s rrna (38 kDa, RNA from Saccharomyces cerevisiae)
60s ribosomal protein l2-a (27 kDa, Protein from Saccharomyces cerevisiae)
60s ribosomal protein l18-a (20 kDa, Protein from Saccharomyces cerevisiae)
60s ribosomal protein l36-a (11 kDa, Protein from Saccharomyces cerevisiae)
60s ribosomal protein l9-a (21 kDa, Protein from Saccharomyces cerevisiae)
60s ribosomal protein l34-a (13 kDa, Protein from Saccharomyces cerevisiae)
Spermidine (145 Da, Ligand)
60s ribosomal protein l28 (16 kDa, Protein from Saccharomyces cerevisiae)
60s ribosomal protein l3 (43 kDa, Protein from Saccharomyces cerevisiae)
60s ribosomal protein l21-a (18 kDa, Protein from Saccharomyces cerevisiae)
Ubiquitin-60s ribosomal protein l40 (14 kDa, Protein from Saccharomyces cerevisiae)
60s ribosomal protein l29 (6 kDa, Protein from Saccharomyces cerevisiae)
Magnesium ion (24 Da, Ligand)
60s ribosomal protein l25 (15 kDa, Protein from Saccharomyces cerevisiae)
60s ribosomal protein l8-a (28 kDa, Protein from Saccharomyces cerevisiae)
Zinc ion (65 Da, Ligand)
60s ribosomal protein l11-a (19 kDa, Protein from Saccharomyces cerevisiae)
5.8s rrna (50 kDa, RNA from Saccharomyces cerevisiae)
60s ribosomal protein l10 (25 kDa, Protein from Saccharomyces cerevisiae)
60s ribosomal protein l27-a (15 kDa, Protein from Saccharomyces cerevisiae)
60s ribosomal protein l15-a (24 kDa, Protein from Saccharomyces cerevisiae)
60s ribosomal protein l37-a (9 kDa, Protein from Saccharomyces cerevisiae)
60s ribosomal protein l35-a (13 kDa, Protein from Saccharomyces cerevisiae)
60s ribosomal protein l26-a (14 kDa, Protein from Saccharomyces cerevisiae)
25s rrna (1 MDa, RNA from Saccharomyces cerevisiae)
60s ribosomal protein l22-a (13 kDa, Protein from Saccharomyces cerevisiae)

[Show more]

EMD-17550

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Mouse RPL39 integrated into the yeast 60S ribosomal subunit

Release date: June 12, 2024
Resolution: 2.15 Å
EM Method: Single-particle
Fitted PDBs: 8p8n
Q-score: 0.665

Banerjee A, Ataman M, Smialek MJ, Mookherjee D, Rabl J, Mironov A, Mues L, Enkler L, Coto-Llerena M, Schmidt A, Boehringer D, Piscuoglio S, Spang A, Mittal N, Zavolan M

Nucleic Acids Res (2024) 52 pp. 9028-9048 [ DOI: doi:10.1093/nar/gkae630 Pubmed: 39041433 ]

Sample:

60s ribosomal protein l20-a (20 kDa, Protein from Saccharomyces cerevisiae)
60s ribosomal protein l13-a (22 kDa, Protein from Saccharomyces cerevisiae)
60s ribosomal protein l19-a (21 kDa, Protein from Saccharomyces cerevisiae)
Mouse rpl39 integrated into yeast 60s ribosomal subunit (1 MDa, Complex from Saccharomyces cerevisiae)
60s ribosomal protein l7-a (27 kDa, Protein from Saccharomyces cerevisiae)
60s ribosomal protein l17-a (20 kDa, Protein from Saccharomyces cerevisiae)
60s ribosomal protein l33-a (12 kDa, Protein from Saccharomyces cerevisiae)
60s ribosomal protein l30 (11 kDa, Protein from Saccharomyces cerevisiae)
60s ribosomal protein l32 (14 kDa, Protein from Saccharomyces cerevisiae)
60s ribosomal protein l4-a (39 kDa, Protein from Saccharomyces cerevisiae)
60s ribosomal protein l26-a (14 kDa, Protein from Saccharomyces cerevisiae)
60s ribosomal protein l23-a (14 kDa, Protein from Saccharomyces cerevisiae)
60s ribosomal protein l24-a (17 kDa, Protein from Saccharomyces cerevisiae)
60s ribosomal protein l16-a (22 kDa, Protein from Saccharomyces cerevisiae)
60s ribosomal protein l42-a (12 kDa, Protein from Saccharomyces cerevisiae)
60s ribosomal protein l5 (33 kDa, Protein from Saccharomyces cerevisiae)
60s ribosomal protein l38 (8 kDa, Protein from Saccharomyces cerevisiae)
60s ribosomal protein l43-a (10 kDa, Protein from Saccharomyces cerevisiae)
25s rrna (1 MDa, RNA from Saccharomyces cerevisiae)
Spermine (202 Da, Ligand)
60s ribosomal protein l14-a (15 kDa, Protein from Saccharomyces cerevisiae)
60s ribosomal protein l31-a (12 kDa, Protein from Saccharomyces cerevisiae)
60s ribosomal protein l18-a (20 kDa, Protein from Saccharomyces cerevisiae)
5s rrna (38 kDa, RNA from Saccharomyces cerevisiae)
60s ribosomal protein l2-a (27 kDa, Protein from Saccharomyces cerevisiae)
60s ribosomal protein l6-a (20 kDa, Protein from Saccharomyces cerevisiae)
60s ribosomal protein l36-a (11 kDa, Protein from Saccharomyces cerevisiae)
60s ribosomal protein l9-a (21 kDa, Protein from Saccharomyces cerevisiae)
Chloride ion (35 Da, Ligand)
60s ribosomal protein l34-a (13 kDa, Protein from Saccharomyces cerevisiae)
Water (18 Da, Ligand)
Spermidine (145 Da, Ligand)
60s ribosomal protein l28 (16 kDa, Protein from Saccharomyces cerevisiae)
60s ribosomal protein l3 (43 kDa, Protein from Saccharomyces cerevisiae)
60s ribosomal protein l21-a (18 kDa, Protein from Saccharomyces cerevisiae)
Ubiquitin-60s ribosomal protein l40 (14 kDa, Protein from Saccharomyces cerevisiae)
60s ribosomal protein l29 (6 kDa, Protein from Saccharomyces cerevisiae)
Magnesium ion (24 Da, Ligand)
60s ribosomal protein l25 (15 kDa, Protein from Saccharomyces cerevisiae)
60s ribosomal protein l8-a (28 kDa, Protein from Saccharomyces cerevisiae)
Zinc ion (65 Da, Ligand)
5.8s rrna (50 kDa, RNA from Saccharomyces cerevisiae)
60s ribosomal protein l10 (25 kDa, Protein from Saccharomyces cerevisiae)
60s ribosomal protein l27-a (15 kDa, Protein from Saccharomyces cerevisiae)
60s ribosomal protein l15-a (24 kDa, Protein from Saccharomyces cerevisiae)
60s ribosomal protein l37-a (9 kDa, Protein from Saccharomyces cerevisiae)
Large ribosomal subunit protein el39 (6 kDa, Protein from Mus musculus)
60s ribosomal protein l35-a (13 kDa, Protein from Saccharomyces cerevisiae)
60s ribosomal protein l11-a (19 kDa, Protein from Saccharomyces cerevisiae)
60s ribosomal protein l22-a (13 kDa, Protein from Saccharomyces cerevisiae)

[Show more]

EMD-17552

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Yeast 60S ribosomal subunit

Release date: June 12, 2024
Resolution: 2.23 Å
EM Method: Single-particle
Fitted PDBs: 8p8u
Q-score: 0.653

Banerjee A, Ataman M, Smialek MJ, Mookherjee D, Rabl J, Mironov A, Mues L, Enkler L, Coto-Llerena M, Schmidt A, Boehringer D, Piscuoglio S, Spang A, Mittal N, Zavolan M

Nucleic Acids Res (2024) 52 pp. 9028-9048 [ DOI: doi:10.1093/nar/gkae630 Pubmed: 39041433 ]

Sample:

60s ribosomal protein l20-a (20 kDa, Protein from Saccharomyces cerevisiae)
60s ribosomal protein l13-a (22 kDa, Protein from Saccharomyces cerevisiae)
60s ribosomal protein l19-a (21 kDa, Protein from Saccharomyces cerevisiae)
60s ribosomal protein l7-a (27 kDa, Protein from Saccharomyces cerevisiae)
60s ribosomal protein l17-a (20 kDa, Protein from Saccharomyces cerevisiae)
60s ribosomal protein l33-a (12 kDa, Protein from Saccharomyces cerevisiae)
60s ribosomal protein l30 (11 kDa, Protein from Saccharomyces cerevisiae)
60s ribosomal protein l32 (14 kDa, Protein from Saccharomyces cerevisiae)
60s ribosomal protein l4-a (39 kDa, Protein from Saccharomyces cerevisiae)
60s ribosomal protein l26-a (14 kDa, Protein from Saccharomyces cerevisiae)
60s ribosomal protein l23-a (14 kDa, Protein from Saccharomyces cerevisiae)
60s ribosomal protein l24-a (17 kDa, Protein from Saccharomyces cerevisiae)
60s ribosomal protein l16-a (22 kDa, Protein from Saccharomyces cerevisiae)
60s ribosomal protein l42-a (12 kDa, Protein from Saccharomyces cerevisiae)
60s ribosomal protein l5 (33 kDa, Protein from Saccharomyces cerevisiae)
Yeast 60s ribosomal subunit (1 MDa, Complex from Saccharomyces cerevisiae)
60s ribosomal protein l38 (8 kDa, Protein from Saccharomyces cerevisiae)
60s ribosomal protein l43-a (10 kDa, Protein from Saccharomyces cerevisiae)
25s rrna (1 MDa, RNA from Saccharomyces cerevisiae)
Spermine (202 Da, Ligand)
60s ribosomal protein l14-a (15 kDa, Protein from Saccharomyces cerevisiae)
60s ribosomal protein l31-a (12 kDa, Protein from Saccharomyces cerevisiae)
60s ribosomal protein l18-a (20 kDa, Protein from Saccharomyces cerevisiae)
5s rrna (38 kDa, RNA from Saccharomyces cerevisiae)
60s ribosomal protein l2-a (27 kDa, Protein from Saccharomyces cerevisiae)
60s ribosomal protein l6-a (20 kDa, Protein from Saccharomyces cerevisiae)
60s ribosomal protein l36-a (11 kDa, Protein from Saccharomyces cerevisiae)
60s ribosomal protein l9-a (21 kDa, Protein from Saccharomyces cerevisiae)
Chloride ion (35 Da, Ligand)
60s ribosomal protein l34-a (13 kDa, Protein from Saccharomyces cerevisiae)
Water (18 Da, Ligand)
Spermidine (145 Da, Ligand)
60s ribosomal protein l28 (16 kDa, Protein from Saccharomyces cerevisiae)
60s ribosomal protein l39 (6 kDa, Protein from Saccharomyces cerevisiae)
60s ribosomal protein l21-a (18 kDa, Protein from Saccharomyces cerevisiae)
60s ribosomal protein l3 (43 kDa, Protein from Saccharomyces cerevisiae)
Ubiquitin-60s ribosomal protein l40 (14 kDa, Protein from Saccharomyces cerevisiae)
60s ribosomal protein l29 (6 kDa, Protein from Saccharomyces cerevisiae)
Magnesium ion (24 Da, Ligand)
60s ribosomal protein l25 (15 kDa, Protein from Saccharomyces cerevisiae)
60s ribosomal protein l8-a (28 kDa, Protein from Saccharomyces cerevisiae)
Zinc ion (65 Da, Ligand)
5.8s rrna (50 kDa, RNA from Saccharomyces cerevisiae)
60s ribosomal protein l10 (25 kDa, Protein from Saccharomyces cerevisiae)
60s ribosomal protein l27-a (15 kDa, Protein from Saccharomyces cerevisiae)
60s ribosomal protein l15-a (24 kDa, Protein from Saccharomyces cerevisiae)
60s ribosomal protein l37-a (9 kDa, Protein from Saccharomyces cerevisiae)
60s ribosomal protein l35-a (13 kDa, Protein from Saccharomyces cerevisiae)
60s ribosomal protein l11-a (19 kDa, Protein from Saccharomyces cerevisiae)
60s ribosomal protein l22-a (13 kDa, Protein from Saccharomyces cerevisiae)

[Show more]

EMD-27439

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Cryo-EM structure of SARS-CoV-2 Beta (B.1.351) spike protein in complex with VH domain F6 (focused refinement of RBD and VH F6)

Release date: Aug. 24, 2022
Resolution: 3.04 Å
EM Method: Single-particle
Fitted PDBs: 8di5
Q-score: 0.51

Chen C, Saville JW, Marti MM, Schafer A, Cheng MH, Mannar D, Zhu X, Berezuk AM, Banerjee A, Sobolewski MD, Kim A, Treat BR, Da Silva Castanha PM, Enick N, McCormick KD, Liu X, Adams C, Hines MG, Sun Z, Chen W, Jacobs JL, Barratt-Boyes SM, Mellors JW, Baric RS, Bahar I, Dimitrov DS, Subramaniam S, Martinez DR, Li W

iScience (2022) 25 pp. 104798-104798 [ DOI: doi:10.1016/j.isci.2022.104798 Pubmed: 35875685 ]

Sample:

2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
Vh f6 (13 kDa, Protein from Homo sapiens)
Sars-cov-2 beta (b.1.351) spike protein in complex with vh domain f6 (Complex from Severe acute respiratory syndrome coronavirus 2)
Spike glycoprotein (142 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
Sars-cov-2 beta (b.1.351) spike protein (Complex from Severe acute respiratory syndrome coronavirus 2)
Vh f6 (Complex from Homo sapiens)

[Show more]

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Showing 1 - 5 of 5. Page 1 of 1

Display: Statistics

Download

Select database:

EMDB [5]

Format:

Select the script type:

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

Preview first 10

Field: