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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

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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:"50S ribosomal protein L33 1" AND natural_source_ncbi_code:"224308" AND citation_journal_name:"NUCLEIC ACIDS RES" AND author_name:"Paternoga H"

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EMD-19638

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YlmH bound to PtRNA-50S

Release date: June 12, 2024
Resolution: 1.96 Å
EM Method: Single-particle
Fitted PDBs: 8s1p

Takada H, Paternoga H, Fujiwara K, Nakamoto JA, Park EN, Dimitrova-Paternoga L, Beckert B, Saarma M, Tenson T, Buskirk AR, Atkinson GC, Chiba S, Wilson DN, Hauryliuk V

Nucleic Acids Res (2024) [ DOI: doi:10.1093/nar/gkae399 Pubmed: 38811035 ]

Sample:

50s ribosomal protein l21 (11 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
Potassium ion (39 Da, Ligand)
Large ribosomal subunit protein ul30 (6 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
50s ribosomal protein l5 (20 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
50s ribosomal protein l17 (13 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
50s ribosomal protein l24 (11 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
Nascent chain (358 Da, Protein from Bacillus subtilis subsp. subtilis str. 168)
50s ribosomal protein l33 1 (5 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
50s ribosomal protein l31 (7 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
50s ribosomal protein l22 (12 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
50s ribosomal protein l18 (12 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
50s ribosomal protein l4 (22 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
Magnesium ion (24 Da, Ligand)
Large ribosomal subunit protein bl27 (10 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
Large ribosomal subunit protein ul23 (10 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
Putative rna-binding protein ylmh (30 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
50s ribosomal protein l3 (22 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
50s ribosomal protein l36 (4 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
50s ribosomal protein l2 (30 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
Chloramphenicol (323 Da, Ligand)
50s ribosomal protein l29 (7 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
50s ribosomal protein l16 (16 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
Large ribosomal subunit protein bl20 (13 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
50s ribosomal protein l14 (13 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
50s ribosomal protein l13 (16 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
50s ribosomal protein l19 (13 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
50s ribosomal protein l15 (15 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
Zinc ion (65 Da, Ligand)
P-trna (24 kDa, RNA from Bacillus subtilis subsp. subtilis str. 168)
5s rrna (36 kDa, RNA from Bacillus subtilis subsp. subtilis str. 168)
50s ribosomal protein l35 (7 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
Water (18 Da, Ligand)
Large ribosomal subunit protein ul6 (19 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
50s ribosomal protein l32 (6 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
23s rrna (949 kDa, RNA from Bacillus subtilis subsp. subtilis str. 168)
50s ribosomal protein l34 (5 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
50s ribosomal subunit with stalled p-trna-nascent chain, bound by ylmh (Complex from Bacillus subtilis subsp. subtilis str. 168)
50s ribosomal protein l28 (6 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)

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EMD-19641

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YlmH bound to stalled 50S subunits with RqcH and PtRNA

Release date: June 12, 2024
Resolution: 3.4 Å
EM Method: Single-particle
Fitted PDBs: 8s1u

Takada H, Paternoga H, Fujiwara K, Nakamoto JA, Park EN, Dimitrova-Paternoga L, Beckert B, Saarma M, Tenson T, Buskirk AR, Atkinson GC, Chiba S, Wilson DN, Hauryliuk V

Nucleic Acids Res (2024) [ Pubmed: 38811035 DOI: doi:10.1093/nar/gkae399 ]

Sample:

Large ribosomal subunit protein bl20 (13 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
50s ribosomal protein l21 (11 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
Large ribosomal subunit protein ul6 (19 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
Rqc2 homolog rqch (65 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
50s ribosomal protein l2 (30 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
50s ribosomal protein l34 (5 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
50s ribosomal protein l19 (13 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
50s ribosomal protein l22 (12 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
50s ribosomal protein l16 (16 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
50s ribosomal protein l18 (12 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
50s ribosomal protein l14 (13 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
50s ribosomal protein l4 (22 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
50s ribosomal subunit with stalled p-trna-nascent chain, bound by ylmh (Complex from Bacillus subtilis subsp. subtilis str. 168)
50s ribosomal protein l29 (7 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
Potassium ion (39 Da, Ligand)
50s ribosomal protein l32 (6 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
Large ribosomal subunit protein ul23 (10 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
Large ribosomal subunit protein bl27 (10 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
Putative rna-binding protein ylmh (30 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
Large ribosomal subunit protein ul30 (6 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
50s ribosomal protein l17 (13 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
50s ribosomal protein l35 (7 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
50s ribosomal protein l3 (22 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
P-trna (24 kDa, RNA from Bacillus subtilis subsp. subtilis str. 168)
50s ribosomal protein l36 (4 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
50s ribosomal protein l5 (20 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
50s ribosomal protein l31 (7 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
50s ribosomal protein l33 1 (5 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
23s rrna (949 kDa, RNA from Bacillus subtilis subsp. subtilis str. 168)
5s rrna (36 kDa, RNA from Bacillus subtilis subsp. subtilis str. 168)
50s ribosomal protein l15 (15 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
50s ribosomal protein l28 (6 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
50s ribosomal protein l13 (16 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
50s ribosomal protein l24 (11 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)

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EMD-16246

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ARE-ABCF VmlR2 bound to a 70S ribosome

Release date: April 5, 2023
Resolution: 2.9 Å
EM Method: Single-particle
Fitted PDBs: 8buu
Q-score: 0.514

Obana N, Takada H, Crowe-McAuliffe C, Iwamoto M, Egorov AA, Wu KJY, Chiba S, Murina V, Paternoga H, Tresco BIC, Nomura N, Myers AG, Atkinson GC, Wilson DN, Hauryliuk V

Nucleic Acids Res (2023) 51 pp. 4536-4554 [ DOI: doi:10.1093/nar/gkad193 Pubmed: 36951104 ]

Sample:

30s ribosomal protein s15 (10 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
50s ribosomal protein l21 (11 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
Potassium ion (39 Da, Ligand)
30s ribosomal protein s19 (10 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
50s ribosomal protein l5 (20 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
50s ribosomal protein l17 (13 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
30s ribosomal protein s10 (11 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
50s ribosomal protein l24 (11 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
50s ribosomal protein l33 1 (5 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
23s rrna (949 kDa, RNA from Bacillus subtilis subsp. subtilis str. 168)
50s ribosomal protein l22 (12 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
30s ribosomal protein s4 (22 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
50s ribosomal protein l18 (12 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
Adenosine-5'-triphosphate (507 Da, Ligand)
70s ribosome with vmlr2 bound in the e site, a distorted trna in the p site, and a substoichiometric distorted trna in the a site (2 MDa, Complex from Neobacillus vireti)
50s ribosomal protein l4 (22 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
50s ribosomal protein l30 (6 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
Magnesium ion (24 Da, Ligand)
50s ribosomal protein l23 (10 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
30s ribosomal protein s2 (28 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
16s rrna (503 kDa, RNA from Bacillus subtilis subsp. subtilis str. 168)
30s ribosomal protein s12 (15 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
Expz (72 kDa, Protein from Neobacillus vireti)
50s ribosomal protein l3 (22 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
50s ribosomal protein l2 (30 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
Trna-fmet (24 kDa, RNA from Bacillus subtilis subsp. subtilis str. 168)
50s ribosomal protein l36 (4 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
50s ribosomal protein l29 (7 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
50s ribosomal protein l16 (16 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
5s rrna (38 kDa, RNA from Bacillus subtilis subsp. subtilis str. 168)
50s ribosomal protein l14 (13 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
30s ribosomal protein s14 (7 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
30s ribosomal protein s3 (24 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
50s ribosomal protein l13 (16 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
50s ribosomal protein l19 (13 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
30s ribosomal protein s5 (17 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
30s ribosomal protein s8 (14 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
30s ribosomal protein s18 (8 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
30s ribosomal protein s7 (17 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
50s ribosomal protein l15 (15 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
30s ribosomal protein s9 (14 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
Zinc ion (65 Da, Ligand)
30s ribosomal protein s6 (11 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
30s ribosomal protein s17 (10 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
Mrna (4 kDa, RNA from Bacillus subtilis subsp. subtilis str. 168)
30s ribosomal protein s20 (9 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
30s ribosomal protein s13 (13 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
50s ribosomal protein l27 (10 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
50s ribosomal protein l35 (7 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
50s ribosomal protein l6 (19 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
50s ribosomal protein l32 (6 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
50s ribosomal protein l20 (13 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
50s ribosomal protein l34 (5 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
30s ribosomal protein s16 (10 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
30s ribosomal protein s11 (13 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)
50s ribosomal protein l28 (6 kDa, Protein from Bacillus subtilis subsp. subtilis str. 168)

[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: