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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

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Hinxton

EMBL-EBI: European Bioinformatics Institute

Rome

Epigenetics and neurobiology

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sample_name:"eIF5A" AND author_name:"Berninghausen"

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EMD-12534

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Structure of the yeast Gcn1 bound to a leading stalled 80S ribosome with Rbg2, Gir2, A- and P-tRNA and eIF5A

Release date: May 5, 2021
Resolution: 3.9 Å
EM Method: Single-particle
Fitted PDBs: 7nrc
Q-score: 0.378

Pochopien AA, Beckert B, Kasvandik S, Berninghausen O, Beckmann R, Tenson T, Wilson DN

PNAS (2021) 118 [ DOI: doi:10.1073/pnas.2022756118 Pubmed: 33790014 ]

Sample:

60s ribosomal protein l32 (14 kDa, Protein from Saccharomyces cerevisiae S288C)
40s ribosomal protein s28-a (7 kDa, Protein from Saccharomyces cerevisiae S288C)
60s ribosomal protein l19-a (21 kDa, Protein from Saccharomyces cerevisiae S288C)
60s ribosomal protein l14-a (14 kDa, Protein from Saccharomyces cerevisiae S288C)
60s ribosomal protein l30 (10 kDa, Protein from Saccharomyces cerevisiae S288C)
60s ribosomal protein l31-a (12 kDa, Protein from Saccharomyces cerevisiae S288C)
40s ribosomal protein s20 (11 kDa, Protein from Saccharomyces cerevisiae S288C)
18s rrna (1771-mer) (579 kDa, RNA from Saccharomyces cerevisiae S288C)
Rna (5'-r(p*ap*up*gp*ap*ap*a)-3') (1 kDa, RNA from Saccharomyces cerevisiae S288C)
60s ribosomal protein l20-a (20 kDa, Protein from Saccharomyces cerevisiae S288C)
40s ribosomal protein s4-a (29 kDa, Protein from Saccharomyces cerevisiae S288C)
40s ribosomal protein s5 (22 kDa, Protein from Saccharomyces cerevisiae S288C)
60s ribosomal protein l25 (13 kDa, Protein from Saccharomyces cerevisiae S288C)
Gcn1 (98 kDa, Protein from Saccharomyces cerevisiae S288C)
60s ribosomal protein l3 (43 kDa, Protein from Saccharomyces cerevisiae S288C)
60s ribosomal protein l37-a (9 kDa, Protein from Saccharomyces cerevisiae S288C)
40s ribosomal protein s31 (8 kDa, Protein from Saccharomyces cerevisiae S288C)
40s ribosomal protein s26-b (11 kDa, Protein from Saccharomyces cerevisiae S288C)
60s ribosomal protein l21-a (18 kDa, Protein from Saccharomyces cerevisiae S288C)
Trna (76-mer) (24 kDa, RNA from Saccharomyces cerevisiae S288C)
40s ribosomal protein s13 (16 kDa, Protein from Saccharomyces cerevisiae S288C)
60s ribosomal protein l36-a (11 kDa, Protein from Saccharomyces cerevisiae S288C)
25s rrna (3184-mer) (1 MDa, RNA from Saccharomyces cerevisiae S288C)
60s ribosomal protein l39 (6 kDa, Protein from Saccharomyces cerevisiae S288C)
60s ribosomal protein l10 (25 kDa, Protein from Saccharomyces cerevisiae S288C)
60s ribosomal protein l27-a (15 kDa, Protein from Saccharomyces cerevisiae S288C)
60s ribosomal protein l40-a (6 kDa, Protein from Saccharomyces cerevisiae S288C)
40s ribosomal protein s17-b (14 kDa, Protein from Saccharomyces cerevisiae S288C)
40s ribosomal protein s12 (13 kDa, Protein from Saccharomyces cerevisiae S288C)
L1 60s ribosomal protein (17 kDa, Protein from Saccharomyces cerevisiae S288C)
60s ribosomal protein l11-b (19 kDa, Protein from Saccharomyces cerevisiae S288C)
60s ribosomal protein l23-a (14 kDa, Protein from Saccharomyces cerevisiae S288C)
40s ribosomal protein s7-a (21 kDa, Protein from Saccharomyces cerevisiae S288C)
40s ribosomal protein s21-a (9 kDa, Protein from Saccharomyces cerevisiae S288C)
60s ribosomal protein l43-a (9 kDa, Protein from Saccharomyces cerevisiae S288C)
40s ribosomal protein s16-a (15 kDa, Protein from Saccharomyces cerevisiae S288C)
40s ribosomal protein s10-a (11 kDa, Protein from Saccharomyces cerevisiae S288C)
60s ribosomal protein l15-a (24 kDa, Protein from Saccharomyces cerevisiae S288C)
40s ribosomal protein s23-a (15 kDa, Protein from Saccharomyces cerevisiae S288C)
40s ribosomal protein s14-b (13 kDa, Protein from Saccharomyces cerevisiae S288C)
60s ribosomal protein l8-a (25 kDa, Protein from Saccharomyces cerevisiae S288C)
40s ribosomal protein s6-a (26 kDa, Protein from Saccharomyces cerevisiae S288C)
60s ribosomal protein l42-a (11 kDa, Protein from Saccharomyces cerevisiae S288C)
Gir2 (4 kDa, Protein from Saccharomyces cerevisiae S288C)
60s ribosomal protein l22-a (11 kDa, Protein from Saccharomyces cerevisiae S288C)
60s ribosomal protein l33-a (12 kDa, Protein from Saccharomyces cerevisiae S288C)
40s ribosomal protein s2 (23 kDa, Protein from Saccharomyces cerevisiae S288C)
40s ribosomal protein s9-a (21 kDa, Protein from Saccharomyces cerevisiae S288C)
60s ribosomal protein l28 (16 kDa, Protein from Saccharomyces cerevisiae S288C)
60s ribosomal protein l16-a (22 kDa, Protein from Saccharomyces cerevisiae S288C)
Ribosome-interacting gtpase 2 (40 kDa, Protein from Saccharomyces cerevisiae S288C)
40s ribosomal protein s25-a (9 kDa, Protein from Saccharomyces cerevisiae S288C)
60s ribosomal protein l2-a (27 kDa, Protein from Saccharomyces cerevisiae S288C)
5s rrna (121-mer) (38 kDa, RNA from Saccharomyces cerevisiae S288C)
40s ribosomal protein s18-a (16 kDa, Protein from Saccharomyces cerevisiae S288C)
40s ribosomal protein s24-a (15 kDa, Protein from Saccharomyces cerevisiae S288C)
Trna (75-mer) (24 kDa, RNA from Saccharomyces cerevisiae S288C)
40s ribosomal protein s1-a (26 kDa, Protein from Saccharomyces cerevisiae S288C)
Guanine nucleotide-binding protein subunit beta-like protein (34 kDa, Protein from Saccharomyces cerevisiae S288C)
60s ribosomal protein l29 (6 kDa, Protein from Saccharomyces cerevisiae S288C)
60s ribosomal protein l35-a (13 kDa, Protein from Saccharomyces cerevisiae S288C)
40s ribosomal protein s30-a (6 kDa, Protein from Saccharomyces cerevisiae S288C)
40s ribosomal protein s22-a (14 kDa, Protein from Saccharomyces cerevisiae S288C)
40s ribosomal protein s15 (13 kDa, Protein from Saccharomyces cerevisiae S288C)
60s ribosomal protein l24-a (7 kDa, Protein from Saccharomyces cerevisiae S288C)
60s ribosomal protein l9-a (21 kDa, Protein from Saccharomyces cerevisiae S288C)
60s ribosomal protein l17-a (20 kDa, Protein from Saccharomyces cerevisiae S288C)
60s ribosomal protein l38 (8 kDa, Protein from Saccharomyces cerevisiae S288C)
5.8s rrna (158-mer) (50 kDa, RNA from Saccharomyces cerevisiae S288C)
Eif5a (16 kDa, Protein from Saccharomyces cerevisiae S288C)
40s ribosomal protein s29-a (6 kDa, Protein from Saccharomyces cerevisiae S288C)
40s ribosomal protein s0-a (22 kDa, Protein from Saccharomyces cerevisiae S288C)
40s ribosomal protein s27-a (8 kDa, Protein from Saccharomyces cerevisiae S288C)
60s ribosomal protein l26-a (14 kDa, Protein from Saccharomyces cerevisiae S288C)
40s ribosomal protein s11-a (16 kDa, Protein from Saccharomyces cerevisiae S288C)
60s ribosomal protein l7-a (25 kDa, Protein from Saccharomyces cerevisiae S288C)
60s ribosomal protein l18-a (20 kDa, Protein from Saccharomyces cerevisiae S288C)
60s ribosomal protein l13-a (21 kDa, Protein from Saccharomyces cerevisiae S288C)
40s ribosomal protein s8-a (22 kDa, Protein from Saccharomyces cerevisiae S288C)
40s ribosomal protein s3 (24 kDa, Protein from Saccharomyces cerevisiae S288C)
Structure of the yeast gcn1-bound leading stalled 80s ribosome with bound rbg2, gir2, a- and p-trna and eif5a (Complex from Saccharomyces cerevisiae S288C)
60s ribosomal protein l5 (33 kDa, Protein from Saccharomyces cerevisiae S288C)
60s ribosomal protein l4-a (39 kDa, Protein from Saccharomyces cerevisiae S288C)
60s ribosomal protein l41-a (3 kDa, Protein from Saccharomyces cerevisiae S288C)
40s ribosomal protein s19-a (15 kDa, Protein from Saccharomyces cerevisiae S288C)
60s ribosomal protein l6-b (19 kDa, Protein from Saccharomyces cerevisiae S288C)
60s ribosomal protein l34-a (12 kDa, Protein from Saccharomyces cerevisiae S288C)

[Show more]

EMD-10537

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Yeast 80S ribosome in complex with eIF5A and decoding A-site and P-site tRNAs.

Release date: April 22, 2020
Resolution: 3.1 Å
EM Method: Single-particle
Fitted PDBs: 6tnu
Q-score: 0.463

Buschauer R, Matsuo Y, Sugiyama T, Chen YH, Alhusaini N, Sweet T, Ikeuchi K, Cheng J, Matsuki Y, Nobuta R, Gilmozzi A, Berninghausen O, Tesina P, Becker T, Coller J, Inada T, Beckmann R

Science (2020) 368 [ Pubmed: 32299921 DOI: doi:10.1126/science.aay6912 ]

Sample:

60s ribosomal protein l43-a (9 kDa, Protein from Saccharomyces cerevisiae)
40s ribosomal protein s15 (13 kDa, Protein from Saccharomyces cerevisiae)
40s ribosomal protein s20 (11 kDa, Protein from Saccharomyces cerevisiae)
60s ribosomal protein l31-a (12 kDa, Protein from Saccharomyces cerevisiae)
40s ribosomal protein s2 (23 kDa, Protein from Saccharomyces cerevisiae)
60s ribosomal protein l13-a (21 kDa, Protein from Saccharomyces cerevisiae)
60s ribosomal protein l42-a (11 kDa, Protein from Saccharomyces cerevisiae)
Yeast 80s ribosome in complex with eif5a programed by a-site and p-site trna. (Complex from Saccharomyces cerevisiae)
40s ribosomal protein s23-a (15 kDa, Protein from Saccharomyces cerevisiae)
60s ribosomal protein l15-a (24 kDa, Protein from Saccharomyces cerevisiae)
40s ribosomal protein s21-a (9 kDa, Protein from Saccharomyces cerevisiae)
60s ribosomal protein l8-a (25 kDa, Protein from Saccharomyces cerevisiae)
40s ribosomal protein s7-a (21 kDa, Protein from Saccharomyces cerevisiae)
60s ribosomal protein l34-a (12 kDa, Protein from Saccharomyces cerevisiae)
40s ribosomal protein s27-a (8 kDa, Protein from Saccharomyces cerevisiae)
40s ribosomal protein s1-a (26 kDa, Protein from Saccharomyces cerevisiae)
5.8s rrna (50 kDa, RNA from Saccharomyces cerevisiae)
60s ribosomal protein l41-a (3 kDa, Protein from Saccharomyces cerevisiae)
P-site trna (24 kDa, RNA from Saccharomyces cerevisiae)
A-site trna (24 kDa, RNA from Saccharomyces cerevisiae)
60s ribosomal protein l30 (10 kDa, Protein from Saccharomyces cerevisiae)
60s ribosomal protein l7-a (25 kDa, Protein from Saccharomyces cerevisiae)
60s ribosomal protein l4-a (39 kDa, Protein from Saccharomyces cerevisiae)
40s ribosomal protein s9-a (21 kDa, Protein from Saccharomyces cerevisiae)
60s ribosomal protein l37-a (9 kDa, Protein from Saccharomyces cerevisiae)
60s ribosomal protein l23-a (14 kDa, Protein from Saccharomyces cerevisiae)
40s ribosomal protein s6-a (26 kDa, Protein from Saccharomyces cerevisiae)
Rps5p (22 kDa, Protein from Saccharomyces cerevisiae)
60s ribosomal protein l6-b (19 kDa, Protein from Saccharomyces cerevisiae)
60s ribosomal protein l2-a (27 kDa, Protein from Saccharomyces cerevisiae)
Zinc ion (65 Da, Ligand)
40s ribosomal protein s19-a (15 kDa, Protein from Saccharomyces cerevisiae)
60s ribosomal protein l5 (33 kDa, Protein from Saccharomyces cerevisiae)
Mrna (1 kDa, RNA from Saccharomyces cerevisiae)
60s ribosomal protein l17-a (20 kDa, Protein from Saccharomyces cerevisiae)
60s ribosomal protein l27-a (15 kDa, Protein from Saccharomyces cerevisiae)
60s ribosomal protein l10 (25 kDa, Protein from Saccharomyces cerevisiae)
Guanine nucleotide-binding protein subunit beta-like protein (34 kDa, Protein from Saccharomyces cerevisiae)
60s ribosomal protein l25 (13 kDa, Protein from Saccharomyces cerevisiae)
60s ribosomal protein l3 (43 kDa, Protein from Saccharomyces cerevisiae)
40s ribosomal protein s14-b (13 kDa, Protein from Saccharomyces cerevisiae)
60s ribosomal protein l18-a (20 kDa, Protein from Saccharomyces cerevisiae)
Eukaryotic translation initiation factor 5a-1 (16 kDa, Protein from Saccharomyces cerevisiae)
40s ribosomal protein s24-a (15 kDa, Protein from Saccharomyces cerevisiae)
60s ribosomal protein l35-a (13 kDa, Protein from Saccharomyces cerevisiae)
40s ribosomal protein s3 (24 kDa, Protein from Saccharomyces cerevisiae)
40s ribosomal protein s8 (21 kDa, Protein from Saccharomyces cerevisiae)
60s ribosomal protein l22-a (11 kDa, Protein from Saccharomyces cerevisiae)
40s ribosomal protein s12 (13 kDa, Protein from Saccharomyces cerevisiae)
4-{(2r)-2-[(1s,3s,5s)-3,5-dimethyl-2-oxocyclohexyl]-2-hydroxyethyl}piperidine-2,6-dione (281 Da, Ligand)
Ubiquitin-60s ribosomal protein l40 (6 kDa, Protein from Saccharomyces cerevisiae)
60s ribosomal protein l16-a (22 kDa, Protein from Saccharomyces cerevisiae)
40s ribosomal protein s4-a (29 kDa, Protein from Saccharomyces cerevisiae)
60s ribosomal protein l9-a (21 kDa, Protein from Saccharomyces cerevisiae)
60s ribosomal protein l24-a (14 kDa, Protein from Saccharomyces cerevisiae)
60s ribosomal protein l20-a (20 kDa, Protein from Saccharomyces cerevisiae)
Ubiquitin-40s ribosomal protein s31 (8 kDa, Protein from Saccharomyces cerevisiae)
40s ribosomal protein s11-a (16 kDa, Protein from Saccharomyces cerevisiae)
60s ribosomal protein l32 (14 kDa, Protein from Saccharomyces cerevisiae)
60s ribosomal protein l26-a (14 kDa, Protein from Saccharomyces cerevisiae)
60s ribosomal protein l21-a (18 kDa, Protein from Saccharomyces cerevisiae)
5s rrna (38 kDa, RNA from Saccharomyces cerevisiae)
40s ribosomal protein s26-b (11 kDa, Protein from Saccharomyces cerevisiae)
40s ribosomal protein s13 (16 kDa, Protein from Saccharomyces cerevisiae)
40s ribosomal protein s25-a (9 kDa, Protein from Saccharomyces cerevisiae)
40s ribosomal protein s29-a (6 kDa, Protein from Saccharomyces cerevisiae)
18s rrna (579 kDa, RNA from Saccharomyces cerevisiae)
40s ribosomal protein s0-a (22 kDa, Protein from Saccharomyces cerevisiae)
60s ribosomal protein l38 (8 kDa, Protein from Saccharomyces cerevisiae)
60s ribosomal protein l29 (6 kDa, Protein from Saccharomyces cerevisiae)
40s ribosomal protein s10-a (11 kDa, Protein from Saccharomyces cerevisiae)
60s ribosomal protein l19-a (21 kDa, Protein from Saccharomyces cerevisiae)
40s ribosomal protein s17-b (14 kDa, Protein from Saccharomyces cerevisiae)
40s ribosomal protein s18-a (16 kDa, Protein from Saccharomyces cerevisiae)
60s ribosomal protein l28 (16 kDa, Protein from Saccharomyces cerevisiae)
60s ribosomal protein l36-a (11 kDa, Protein from Saccharomyces cerevisiae)
40s ribosomal protein s22-a (14 kDa, Protein from Saccharomyces cerevisiae)
60s ribosomal protein l14-a (14 kDa, Protein from Saccharomyces cerevisiae)
40s ribosomal protein s16-a (15 kDa, Protein from Saccharomyces cerevisiae)
40s ribosomal protein s30-a (6 kDa, Protein from Saccharomyces cerevisiae)
60s ribosomal protein l39 (6 kDa, Protein from Saccharomyces cerevisiae)
40s ribosomal protein s28-a (7 kDa, Protein from Saccharomyces cerevisiae)
60s ribosomal protein l33-a (12 kDa, Protein from Saccharomyces cerevisiae)
60s ribosomal protein l11-b (19 kDa, Protein from Saccharomyces cerevisiae)
60s ribosomal protein l1 (14 kDa, Protein from Saccharomyces cerevisiae)
Spermidine (145 Da, Ligand)
25s rrna (1 MDa, RNA from Saccharomyces cerevisiae)

[Show more]

EMD-3227

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Cryo-EM map of a native 80S-ribosome-eIF-5A complex

Release date: Jan. 13, 2016
Resolution: 3.88 Å
EM Method: Single-particle
Fitted PDBs: 5gak
Q-score: -0.012

Schmidt C, Becker T, Heuer A, Braunger K, Shanmuganathan V, Pech M, Berninghausen O, Wilson DN, Beckmann R

Nucleic Acids Res (2016) 44 pp. 1944-1951 [ DOI: doi:10.1093/nar/gkv1517 Pubmed: 26715760 ]

Sample:

Eif-5a (170 kDa, Protein from Saccharomyces cerevisiae)
Native 80s ribosome-eif-5a complex from yeast (Sample)
Ribosome (Complex from Saccharomyces cerevisiae)

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EMDB [3]

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