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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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sample_name:"30S ribosomal protein S4" AND structure_determination_method:"singleparticle" AND natural_source_ncbi_code:"663"

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EMD-13958

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Structure of the SmrB-bound E. coli disome - collided 70S ribosome

Release date: June 22, 2022
Resolution: 5.7 Å
EM Method: Single-particle
Fitted PDBs: 7qgr
Q-score: 0.112

Saito K, Kratzat H, Campbell A, Buschauer R, Burroughs AM, Berninghausen O, Aravind L, Green R, Beckmann R, Buskirk AR

Nature (2022) 603 pp. 503-508 [ DOI: doi:10.1038/s41586-022-04416-7 Pubmed: 35264790 ]

Sample:

30s ribosomal protein s10 (11 kDa, Protein from Escherichia coli)
50s ribosomal protein l20 (13 kDa, Protein from Escherichia coli)
30s ribosomal protein s3 (24 kDa, Protein from Escherichia coli)
30s ribosomal protein s14 (11 kDa, Protein from Escherichia coli)
30s ribosomal protein s5 (17 kDa, Protein from Escherichia coli)
30s ribosomal protein s16 (9 kDa, Protein from Escherichia coli)
50s ribosomal protein l22 (12 kDa, Protein from Escherichia coli)
30s ribosomal protein s12 (13 kDa, Protein from Escherichia coli)
Upf0115 protein yfcn (20 kDa, Protein from Escherichia coli)
30s ribosomal protein s21 (8 kDa, Protein from Escherichia coli)
30s ribosomal protein s7 (16 kDa, Protein from Escherichia coli)
50s ribosomal protein l11 (14 kDa, Protein from Escherichia coli)
50s ribosomal protein l13 (16 kDa, Protein from Escherichia coli)
30s ribosomal protein s9 (14 kDa, Protein from Escherichia coli)
30s ribosomal protein s13 (13 kDa, Protein from Escherichia coli)
50s ribosomal protein l23 (11 kDa, Protein from Escherichia coli)
50s ribosomal protein l14 (13 kDa, Protein from Escherichia coli)
50s ribosomal protein l27 (9 kDa, Protein from Escherichia coli)
23s rrna (941 kDa, RNA from Escherichia coli)
16s rrna (498 kDa, RNA from Escherichia coli)
50s ribosomal protein l17 (14 kDa, Protein from Escherichia coli)
50s ribosomal protein l4 (22 kDa, Protein from Escherichia coli)
50s ribosomal protein l5 (20 kDa, Protein from Escherichia coli)
30s ribosomal protein s6, non-modified isoform (15 kDa, Protein from Escherichia coli)
Potassium ion (39 Da, Ligand)
50s ribosomal protein l28 (9 kDa, Protein from Escherichia coli)
50s ribosomal protein l9 (15 kDa, Protein from Escherichia coli)
50s ribosomal protein l18 (12 kDa, Protein from Escherichia coli)
30s ribosomal protein s11 (13 kDa, Protein from Escherichia coli)
30s ribosomal protein s20 (9 kDa, Protein from Escherichia coli)
50s ribosomal protein l24 (11 kDa, Protein from Escherichia coli)
50s ribosomal protein l34 (5 kDa, Protein from Escherichia coli)
50s ribosomal protein l21 (11 kDa, Protein from Escherichia coli)
30s ribosomal protein s2 (26 kDa, Protein from Escherichia coli)
50s ribosomal protein l19 (13 kDa, Protein from Escherichia coli)
50s ribosomal protein l35 (7 kDa, Protein from Escherichia coli)
50s ribosomal protein l1 (23 kDa, Protein from Escherichia coli)
P-site trna (24 kDa, RNA from Escherichia coli)
30s ribosomal protein s4 (23 kDa, Protein from Escherichia coli)
50s ribosomal protein l33 (6 kDa, Protein from Escherichia coli)
30s ribosomal protein s17 (9 kDa, Protein from Escherichia coli)
30s ribosomal protein s18 (9 kDa, Protein from Escherichia coli)
Water (18 Da, Ligand)
A-site trna (23 kDa, RNA from Escherichia coli)
50s ribosomal protein l3 (22 kDa, Protein from Escherichia coli)
Magnesium ion (24 Da, Ligand)
50s ribosomal protein l6 (18 kDa, Protein from Escherichia coli)
50s ribosomal protein l32 (6 kDa, Protein from Escherichia coli)
Mrna (221 kDa, RNA from Vibrio alginolyticus)
50s ribosomal protein l15 (15 kDa, Protein from Escherichia coli)
30s ribosomal protein s15 (10 kDa, Protein from Escherichia coli)
30s ribosomal protein s19 (10 kDa, Protein from Escherichia coli)
30s ribosomal protein s1 (61 kDa, Protein from Escherichia coli)
50s ribosomal protein l2 (29 kDa, Protein from Escherichia coli)
50s ribosomal protein l30 (6 kDa, Protein from Escherichia coli)
50s ribosomal protein l25 (10 kDa, Protein from Escherichia coli)
50s ribosomal protein l16 (15 kDa, Protein from Escherichia coli)
5s rrna (38 kDa, RNA from Escherichia coli)
50s ribosomal protein l29 (7 kDa, Protein from Escherichia coli)
50s ribosomal protein l36 (6 kDa, Protein from Escherichia coli)
30s ribosomal protein s8 (14 kDa, Protein from Escherichia coli)
Collided ribosome of the smrb-bound disome structure (Complex from Escherichia coli)
50s ribosomal protein l31 (7 kDa, Protein from Escherichia coli)

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EMD-13956

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Structure of the SmrB-bound E. coli disome - stalled 70S ribosome

Release date: April 27, 2022
Resolution: 3.37 Å
EM Method: Single-particle
Fitted PDBs: 7qgn
Q-score: 0.181

Saito K, Kratzat H, Campbell A, Buschauer R, Burroughs AM, Berninghausen O, Aravind L, Green R, Beckmann R, Buskirk AR

Nature (2022) 603 pp. 503-508 [ DOI: doi:10.1038/s41586-022-04416-7 Pubmed: 35264790 ]

Sample:

Potassium ion (39 Da, Ligand)
30s ribosomal protein s2 (26 kDa, Protein from Escherichia coli)
23s rrna (941 kDa, RNA from Escherichia coli)
30s ribosomal protein s18 (9 kDa, Protein from Escherichia coli)
50s ribosomal protein l18 (12 kDa, Protein from Escherichia coli)
30s ribosomal protein s3 (24 kDa, Protein from Escherichia coli)
50s ribosomal protein l23 (11 kDa, Protein from Escherichia coli)
50s ribosomal protein l2 (29 kDa, Protein from Escherichia coli)
50s ribosomal protein l27 (9 kDa, Protein from Escherichia coli)
50s ribosomal protein l28 (9 kDa, Protein from Escherichia coli)
Ribosomal protein s7 (17 kDa, Protein from Escherichia coli)
30s ribosomal protein s8 (14 kDa, Protein from Escherichia coli)
50s ribosomal protein l36 (6 kDa, Protein from Escherichia coli)
30s ribosomal protein s5 (17 kDa, Protein from Escherichia coli)
50s ribosomal protein l5 (20 kDa, Protein from Escherichia coli)
50s ribosomal protein l21 (11 kDa, Protein from Escherichia coli)
30s ribosomal protein s10 (11 kDa, Protein from Escherichia coli)
30s ribosomal protein s17 (9 kDa, Protein from Escherichia coli)
50s ribosomal protein l9 (15 kDa, Protein from Escherichia coli)
50s ribosomal protein l25 (10 kDa, Protein from Escherichia coli)
50s ribosomal protein l33 (6 kDa, Protein from Escherichia coli)
Magnesium ion (24 Da, Ligand)
30s ribosomal protein s15 (10 kDa, Protein from Escherichia coli)
50s ribosomal protein l16 (15 kDa, Protein from Escherichia coli)
P-site trna (24 kDa, RNA from Escherichia coli)
50s ribosomal protein l1 (23 kDa, Protein from Escherichia coli)
30s ribosomal protein s12 (13 kDa, Protein from Escherichia coli)
50s ribosomal protein l32 (6 kDa, Protein from Escherichia coli)
Vemp nascent chain (20 kDa, Protein from Vibrio alginolyticus)
30s ribosomal protein s21 (10 kDa, Protein from Escherichia coli)
16s rrna (498 kDa, RNA from Escherichia coli)
50s ribosomal protein l15 (15 kDa, Protein from Escherichia coli)
50s ribosomal protein l35 (7 kDa, Protein from Escherichia coli)
50s ribosomal protein l34 (5 kDa, Protein from Escherichia coli)
50s ribosomal protein l14 (13 kDa, Protein from Escherichia coli)
50s ribosomal protein l22 (12 kDa, Protein from Escherichia coli)
50s ribosomal protein l24 (11 kDa, Protein from Escherichia coli)
30s ribosomal protein s20 (9 kDa, Protein from Escherichia coli)
30s ribosomal protein s19 (10 kDa, Protein from Escherichia coli)
50s ribosomal protein l30 (6 kDa, Protein from Escherichia coli)
Ribosomal protein l17 (14 kDa, Protein from Escherichia coli)
30s ribosomal protein s6 (15 kDa, Protein from Escherichia coli K-12)
50s ribosomal protein l19 (13 kDa, Protein from Escherichia coli)
50s ribosomal protein l6 (18 kDa, Protein from Escherichia coli)
5s rrna (38 kDa, RNA from Escherichia coli)
30s ribosomal protein s11 (13 kDa, Protein from Escherichia coli)
Stalled/leading ribosome of the smrb-bound disome structure (Complex from Escherichia coli)
50s ribosomal protein l20 (13 kDa, Protein from Escherichia coli)
50s ribosomal protein l31 (7 kDa, Protein from Escherichia coli)
Upf0115 protein yfcn (20 kDa, Protein from Escherichia coli)
50s ribosomal protein l3 (22 kDa, Protein from Escherichia coli)
Water (18 Da, Ligand)
50s ribosomal protein l13 (16 kDa, Protein from Escherichia coli)
30s ribosomal protein s13 (13 kDa, Protein from Escherichia coli)
50s ribosomal protein l4 (22 kDa, Protein from Escherichia coli)
50s ribosomal protein l11 (14 kDa, Protein from Escherichia coli)
30s ribosomal protein s16 (9 kDa, Protein from Escherichia coli UMEA 3162-1)
30s ribosomal protein s9 (14 kDa, Protein from Escherichia coli)
A-site trna (23 kDa, RNA from Escherichia coli)
30s ribosomal protein s4 (23 kDa, Protein from Escherichia coli)
50s ribosomal protein l29 (7 kDa, Protein from Escherichia coli)
30s ribosomal protein s14 (11 kDa, Protein from Escherichia coli)

[Show more]

EMD-13952

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Structure of the collided E. coli disome - VemP-stalled 70S ribosome

Release date: March 16, 2022
Resolution: 3.97 Å
EM Method: Single-particle
Fitted PDBs: 7qg8
Q-score: 0.145

Saito K, Kratzat H, Campbell A, Buschauer R, Burroughs AM, Berninghausen O, Aravind L, Green R, Beckmann R, Buskirk AR

Nature (2022) 603 pp. 503-508 [ DOI: doi:10.1038/s41586-022-04416-7 Pubmed: 35264790 ]

Sample:

50s ribosomal protein l34 (5 kDa, Protein from Escherichia coli K-12)
P-site trna (24 kDa, RNA from Escherichia coli K-12)
50s ribosomal protein l14 (13 kDa, Protein from Escherichia coli K-12)
30s ribosomal protein s7 (17 kDa, Protein from Escherichia coli K-12)
50s ribosomal protein l16 (15 kDa, Protein from Escherichia coli K-12)
16s rrna (498 kDa, RNA from Escherichia coli K-12)
50s ribosomal protein l32 (6 kDa, Protein from Escherichia coli K-12)
30s ribosomal protein s9 (14 kDa, Protein from Escherichia coli K-12)
30s ribosomal protein s18 (9 kDa, Protein from Escherichia coli K-12)
50s ribosomal protein l31 (7 kDa, Protein from Escherichia coli K-12)
30s ribosomal protein s4 (23 kDa, Protein from Escherichia coli K-12)
50s ribosomal protein l13 (16 kDa, Protein from Escherichia coli K-12)
50s ribosomal protein l21 (11 kDa, Protein from Escherichia coli K-12)
Vemp nascent chain (20 kDa, Protein from Vibrio alginolyticus)
50s ribosomal protein l22 (12 kDa, Protein from Escherichia coli K-12)
50s ribosomal protein l24 (11 kDa, Protein from Escherichia coli K-12)
30s ribosomal protein s21 (10 kDa, Protein from Escherichia coli K-12)
50s ribosomal protein l4 (22 kDa, Protein from Escherichia coli K-12)
50s ribosomal protein l5 (20 kDa, Protein from Escherichia coli K-12)
Stalled/leading ribosome of the collided disome structure (Complex)
50s ribosomal protein l33 (6 kDa, Protein from Escherichia coli K-12)
30s ribosomal protein s12 (13 kDa, Protein from Escherichia coli K-12)
50s ribosomal protein l3 (22 kDa, Protein from Escherichia coli K-12)
50s ribosomal protein l35 (7 kDa, Protein from Escherichia coli K-12)
50s ribosomal protein l28 (9 kDa, Protein from Escherichia coli K-12)
50s ribosomal protein l36 (6 kDa, Protein from Escherichia coli K-12)
23s rrna (941 kDa, RNA from Escherichia coli K-12)
30s ribosomal protein s11 (13 kDa, Protein from Escherichia coli K-12)
50s ribosomal protein l15 (15 kDa, Protein from Escherichia coli K-12)
50s ribosomal protein l2 (29 kDa, Protein from Escherichia coli K-12)
50s ribosomal protein l18 (12 kDa, Protein from Escherichia coli K-12)
Potassium ion (39 Da, Ligand)
50s ribosomal protein l1 (23 kDa, Protein from Escherichia coli K-12)
50s ribosomal protein l9 (15 kDa, Protein from Escherichia coli K-12)
30s ribosomal protein s15 (10 kDa, Protein from Escherichia coli K-12)
30s ribosomal protein s14 (11 kDa, Protein from Escherichia coli K-12)
50s ribosomal protein l23 (11 kDa, Protein from Escherichia coli K-12)
30s ribosomal protein s8 (14 kDa, Protein from Escherichia coli K-12)
30s ribosomal protein s20 (9 kDa, Protein from Escherichia coli K-12)
30s ribosomal protein s6, non-modified isoform (15 kDa, Protein from Escherichia coli K-12)
30s ribosomal protein s5 (17 kDa, Protein from Escherichia coli K-12)
30s ribosomal protein s13 (13 kDa, Protein from Escherichia coli K-12)
Water (18 Da, Ligand)
50s ribosomal protein l17 (14 kDa, Protein from Escherichia coli K-12)
30s ribosomal protein s2 (26 kDa, Protein from Escherichia coli K-12)
30s ribosomal protein s17 (9 kDa, Protein from Escherichia coli K-12)
50s ribosomal protein l27 (9 kDa, Protein from Escherichia coli K-12)
30s ribosomal protein s10 (11 kDa, Protein from Escherichia coli K-12)
Magnesium ion (24 Da, Ligand)
30s ribosomal protein s3 (24 kDa, Protein from Escherichia coli K-12)
50s ribosomal protein l20 (13 kDa, Protein from Escherichia coli K-12)
50s ribosomal protein l19 (13 kDa, Protein from Escherichia coli K-12)
50s ribosomal protein l30 (6 kDa, Protein from Escherichia coli K-12)
30s ribosomal protein s19 (10 kDa, Protein from Escherichia coli K-12)
30s ribosomal protein s16 (9 kDa, Protein from Escherichia coli K-12)
A-site trna (23 kDa, RNA from Escherichia coli K-12)
50s ribosomal protein l6 (18 kDa, Protein from Escherichia coli K-12)
5s rrna (38 kDa, RNA from Escherichia coli K-12)
50s ribosomal protein l25 (10 kDa, Protein from Escherichia coli K-12)
50s ribosomal protein l11 (14 kDa, Protein from Escherichia coli K-12)
50s ribosomal protein l29 (7 kDa, Protein from Escherichia coli K-12)

[Show more]

EMD-3713

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2.9 A cryo-EM structure of VemP-stalled ribosome-nascent chain complex

Release date: July 19, 2017
Resolution: 2.9 Å
EM Method: Single-particle
Fitted PDBs: 5nwy
Q-score: 0.558

Su T, Cheng J, Sohmen D, Hedman R, Berninghausen O, von Heijne G, Wilson DN, Beckmann R

eLife (2017) 6 [ DOI: doi:10.7554/eLife.25642 Pubmed: 28556777 ]

Sample:

50s ribosomal protein l18 (12 kDa, Protein from Escherichia coli (strain K12))
50s ribosomal protein l6 (18 kDa, Protein from Escherichia coli (strain K12))
50s ribosomal protein l24 (11 kDa, Protein from Escherichia coli (strain K12))
50s ribosomal protein l4 (22 kDa, Protein from Escherichia coli (strain K12))
30s ribosomal protein s5 (17 kDa, Protein from Escherichia coli (strain K12))
50s ribosomal protein l28 (9 kDa, Protein from Escherichia coli (strain K12))
50s ribosomal protein l19 (13 kDa, Protein from Escherichia coli (strain K12))
50s ribosomal protein l14 (13 kDa, Protein from Escherichia coli (strain K12))
Mrna (1 kDa, RNA from Vibrio alginolyticus)
Vemp nascent chain (20 kDa, Protein from Vibrio alginolyticus)
30s ribosomal protein s3 (26 kDa, Protein from Escherichia coli (strain K12))
30s ribosomal protein s19 (10 kDa, Protein from Escherichia coli (strain K12))
50s ribosomal protein l16 (15 kDa, Protein from Escherichia coli (strain K12))
30s ribosomal protein s8 (14 kDa, Protein from Escherichia coli (strain K12))
30s ribosomal protein s18 (9 kDa, Protein from Escherichia coli (strain K12))
50s ribosomal protein l33 (6 kDa, Protein from Escherichia coli (strain K12))
50s ribosomal protein l17 (14 kDa, Protein from Escherichia coli (strain K12))
50s ribosomal protein l21 (11 kDa, Protein from Escherichia coli (strain K12))
50s ribosomal protein l29 (7 kDa, Protein from Escherichia coli (strain K12))
16s rrna (498 kDa, RNA from Escherichia coli)
30s ribosomal protein s14 (11 kDa, Protein from Escherichia coli (strain K12))
50s ribosomal protein l2 (29 kDa, Protein from Escherichia coli (strain K12))
30s ribosomal protein s12 (13 kDa, Protein from Escherichia coli (strain K12))
50s ribosomal protein l23 (11 kDa, Protein from Escherichia coli (strain K12))
50s ribosomal protein l11 (14 kDa, Protein from Escherichia coli (strain K12))
30s ribosomal protein s2 (25 kDa, Protein from Escherichia coli (strain K12))
30s ribosomal protein s17 (9 kDa, Protein from Escherichia coli (strain K12))
Gln-trna (24 kDa, RNA from Escherichia coli)
23s rrna (941 kDa, RNA from Escherichia coli K-12)
50s ribosomal protein l3 (22 kDa, Protein from Escherichia coli (strain K12))
50s ribosomal protein l30 (6 kDa, Protein from Escherichia coli (strain K12))
30s ribosomal protein s11 (13 kDa, Protein from Escherichia coli (strain K12))
50s ribosomal protein l5 (20 kDa, Protein from Escherichia coli (strain K12))
Vemp-stalled ribosome-nascent chain complex (Complex)
50s ribosomal protein l25 (10 kDa, Protein from Escherichia coli (strain K12))
30s ribosomal protein s21 (8 kDa, Protein from Escherichia coli (strain K12))
5s rrna (38 kDa, RNA from Escherichia coli)
50s ribosomal protein l15 (15 kDa, Protein from Escherichia coli (strain K12))
Vemp-stalled ribosome-nascent chain complex (Complex from Escherichia coli K-12)
Vemp-stalled ribosome-nascent chain complex (Complex from Vibrio alginolyticus)
50s ribosomal protein l35 (7 kDa, Protein from Escherichia coli (strain K12))
50s ribosomal protein l36 (4 kDa, Protein from Escherichia coli (strain K12))
50s ribosomal protein l31 (7 kDa, Protein from Escherichia coli (strain K12))
50s ribosomal protein l22 (12 kDa, Protein from Escherichia coli (strain K12))
50s ribosomal protein l27 (9 kDa, Protein from Escherichia coli (strain K12))
50s ribosomal protein l13 (16 kDa, Protein from Escherichia coli (strain K12))
50s ribosomal protein l32 (6 kDa, Protein from Escherichia coli (strain K12))
50s ribosomal protein l20 (13 kDa, Protein from Escherichia coli (strain K12))
30s ribosomal protein s6 (15 kDa, Protein from Escherichia coli (strain K12))
30s ribosomal protein s10 (11 kDa, Protein from Escherichia coli (strain K12))
30s ribosomal protein s16 (9 kDa, Protein from Escherichia coli (strain K12))
30s ribosomal protein s4 (23 kDa, Protein from Escherichia coli (strain K12))
30s ribosomal protein s20 (9 kDa, Protein from Escherichia coli (strain K12))
30s ribosomal protein s15 (10 kDa, Protein from Escherichia coli (strain K12))
30s ribosomal protein s13 (13 kDa, Protein from Escherichia coli (strain K12))
30s ribosomal protein s9 (14 kDa, Protein from Escherichia coli (strain K12))
50s ribosomal protein l9 (15 kDa, Protein from Escherichia coli (strain K12))
50s ribosomal protein l34 (5 kDa, Protein from Escherichia coli (strain K12))
30s ribosomal protein s7 (17 kDa, Protein from Escherichia coli (strain K12))

[Show more]

Sort by: Download

Showing 1 - 4 of 4. Page 1 of 1

Display: Statistics

Download

Select database:

EMDB [4]

Format:

Select the script type:

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

Preview first 10

Field: