EMDB < Search results

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

Edit your search query here and hit Return to execute it:

initial_angle_assignment_type:"MAXIMUM LIKELIHOOD" AND xref_links:"pdb" AND natural_source_ncbi_code:"562" AND sample_type:"rna" AND software_ft:"COOT"

Sort by: Download

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

EMD-19054

Download Map 3D View

Escherichia coli paused disome complex (Non-rotated disome interface class 1)

Release date: March 13, 2024
Resolution: 3.49 Å
EM Method: Single-particle
Fitted PDBs: 8rcl
Q-score: 0.307

Flugel T, Schacherl M, Unbehaun A, Schroeer B, Dabrowski M, Burger J, Mielke T, Sprink T, Diebolder CA, Guillen Schlippe YV, Spahn CMT

Nat Commun (2024) 15 pp. 1756-1756 [ DOI: doi:10.1038/s41467-024-46092-3 Pubmed: 38409277 ]

Sample:

30s ribosomal protein s10 (11 kDa, Protein from Escherichia coli)
Small ribosomal subunit protein us3 (26 kDa, Protein from Escherichia coli)
Large ribosomal subunit protein bl31 (7 kDa, Protein from Escherichia coli)
Small ribosomal subunit protein us17 (9 kDa, Protein from Escherichia coli)
Small ribosomal subunit protein bs18 (9 kDa, Protein from Escherichia coli)
Small ribosomal subunit protein us8 (14 kDa, Protein from Escherichia coli)
Small ribosomal subunit protein bs20 (9 kDa, Protein from Escherichia coli)
Trna-val (a-site) (24 kDa, RNA from Escherichia coli)
30s ribosomal protein s7 (20 kDa, Protein from Escherichia coli)
30s ribosomal protein s21 (8 kDa, Protein from Escherichia coli)
Trna-phe (p-site) (24 kDa, RNA from Escherichia coli)
Nascent chain (1 kDa, Protein from Escherichia coli)
30s ribosomal protein s6 (15 kDa, Protein from Escherichia coli)
Small ribosomal subunit protein us2 (26 kDa, Protein from Escherichia coli)
Small ribosomal subunit protein us19 (10 kDa, Protein from Escherichia coli)
Small ribosomal subunit protein us13 (13 kDa, Protein from Escherichia coli)
50s ribosomal protein l27 (9 kDa, Protein from Escherichia coli)
5s ribosomal rna (38 kDa, RNA from Escherichia coli)
16s ribosomal rna (499 kDa, RNA from Escherichia coli)
50s ribosomal protein l5 (20 kDa, Protein from Escherichia coli)
50s ribosomal protein l28 (9 kDa, Protein from Escherichia coli)
Small ribosomal subunit protein us14 (11 kDa, Protein from Escherichia coli)
50s ribosomal protein l9 (15 kDa, Protein from Escherichia coli)
Escherichia coli pause disome complex (2 MDa, Complex from Escherichia coli)
Small ribosomal subunit protein us9 (14 kDa, Protein from Escherichia coli)
23s ribosomal rna (941 kDa, RNA from Escherichia coli)
Small ribosomal subunit protein us12 (13 kDa, Protein from Escherichia coli)
Small ribosomal subunit protein us4 (23 kDa, Protein from Escherichia coli)
50s ribosomal protein l18 (12 kDa, Protein from Escherichia coli)
Zinc ion (65 Da, Ligand)
1,4-diaminobutane (88 Da, Ligand)
Spermidine (145 Da, Ligand)
50s ribosomal protein l34 (5 kDa, Protein from Escherichia coli)
50s ribosomal protein l35 (7 kDa, Protein from Escherichia coli)
Large ribosomal subunit protein bl33 (6 kDa, Protein from Escherichia coli)
Alanine (89 Da, Ligand)
30s ribosomal protein s1 (61 kDa, Protein from Escherichia coli)
Small ribosomal subunit protein us11 (13 kDa, Protein from Escherichia coli)
Trna-ala (a-site) (24 kDa, RNA from Escherichia coli)
Magnesium ion (24 Da, Ligand)
Trna-arg (e-site) (24 kDa, RNA from Escherichia coli)
Trna-trp (p-site) (24 kDa, RNA from Escherichia coli)
30s ribosomal protein s15 (10 kDa, Protein from Escherichia coli)
Messenger rna (20 kDa, RNA from Escherichia coli)
Small ribosomal subunit protein us5 (17 kDa, Protein from Escherichia coli)
50s ribosomal protein l15 (15 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 l16 (15 kDa, Protein from Escherichia coli)
Large ribosomal subunit protein ul1 (24 kDa, Protein from Escherichia coli)
30s ribosomal protein s16 (9 kDa, Protein from Escherichia coli)

[Show more]

EMD-17743

Download Map 3D View

Escherichia coli paused disome complex (leading 70S non-rotated closed PRE state)

Release date: March 6, 2024
Resolution: 3.09 Å
EM Method: Single-particle
Fitted PDBs: 8pkl
Q-score: 0.414

Flugel T, Schacherl M, Unbehaun A, Schroeer B, Dabrowski M, Burger J, Mielke T, Sprink T, Diebolder CA, Guillen Schlippe YV, Spahn CMT

Nat Commun (2024) 15 pp. 1756-1756 [ Pubmed: 38409277 DOI: doi:10.1038/s41467-024-46092-3 ]

Sample:

Trna-trp (p-site) (24 kDa, RNA from Escherichia coli)
Small ribosomal subunit protein us12 (13 kDa, Protein from Escherichia coli)
1,4-diaminobutane (88 Da, Ligand)
50s ribosomal protein l36 (4 kDa, Protein from Escherichia coli)
50s ribosomal protein l18 (12 kDa, Protein from Escherichia coli)
Small ribosomal subunit protein bs18 (9 kDa, Protein from Escherichia coli)
Alanine (89 Da, Ligand)
50s ribosomal protein l28 (9 kDa, Protein from Escherichia coli)
Small ribosomal subunit protein us17 (9 kDa, Protein from Escherichia coli)
16s ribosomal rna (497 kDa, RNA from Escherichia coli)
50s ribosomal protein l2 (29 kDa, Protein from Escherichia coli)
Nascent peptide (3 kDa, Protein from Escherichia coli)
50s ribosomal protein l27 (9 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 s21 (8 kDa, Protein from Escherichia coli)
Magnesium ion (24 Da, Ligand)
50s ribosomal protein l9 (15 kDa, Protein from Escherichia coli)
50s ribosomal protein l33 (6 kDa, Protein from Escherichia coli)
50s ribosomal protein l25 (10 kDa, Protein from Escherichia coli)
Spermidine (145 Da, Ligand)
30s ribosomal protein s15 (10 kDa, Protein from Escherichia coli)
50s ribosomal protein l16 (15 kDa, Protein from Escherichia coli)
50s ribosomal protein l17 (14 kDa, Protein from Escherichia coli)
5s ribosomal rna (38 kDa, RNA from Escherichia coli)
50s ribosomal protein l32 (6 kDa, Protein from Escherichia coli)
Small ribosomal subunit protein us14 (11 kDa, Protein from Escherichia coli)
Small ribosomal subunit protein us4 (23 kDa, Protein from Escherichia coli)
Small ribosomal subunit protein us5 (17 kDa, Protein from Escherichia coli)
50s ribosomal protein l35 (7 kDa, Protein from Escherichia coli)
50s ribosomal protein l15 (15 kDa, Protein from Escherichia coli)
Small ribosomal subunit protein us8 (14 kDa, Protein from Escherichia coli)
Large ribosomal subunit protein ul10 (17 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)
Escherichia coli paused disome complex (2 MDa, Complex from Escherichia coli)
50s ribosomal protein l22 (12 kDa, Protein from Escherichia coli)
50s ribosomal protein l24 (11 kDa, Protein from Escherichia coli)
Small ribosomal subunit protein us19 (10 kDa, Protein from Escherichia coli)
50s ribosomal protein l30 (6 kDa, Protein from Escherichia coli)
Small ribosomal subunit protein us9 (14 kDa, Protein from Escherichia coli)
Small ribosomal subunit protein us13 (13 kDa, Protein from Escherichia coli)
50s ribosomal protein l19 (13 kDa, Protein from Escherichia coli)
50s ribosomal protein l23 (11 kDa, Protein from Escherichia coli)
Zinc ion (65 Da, Ligand)
30s ribosomal protein s6 (15 kDa, Protein from Escherichia coli)
Small ribosomal subunit protein us3 (26 kDa, Protein from Escherichia coli)
Small ribosomal subunit protein us2 (26 kDa, Protein from Escherichia coli)
50s ribosomal protein l6 (18 kDa, Protein from Escherichia coli)
Trna-arg (e-site) (24 kDa, RNA from Escherichia coli)
Mrna (7 kDa, RNA from Escherichia coli)
Small ribosomal subunit protein us11 (13 kDa, Protein from Escherichia coli)
30s ribosomal protein s16 (9 kDa, Protein from Escherichia coli)
50s ribosomal protein l20 (13 kDa, Protein from Escherichia coli)
Large ribosomal subunit protein bl31a (7 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)
Small ribosomal subunit protein bs20 (9 kDa, Protein from Escherichia coli)
50s ribosomal protein l4 (22 kDa, Protein from Escherichia coli)
Large ribosomal subunit protein ul1 (24 kDa, Protein from Escherichia coli)
23s ribosomal rna (947 kDa, RNA from Escherichia coli)
Trna-ala (a-site) (24 kDa, RNA from Escherichia coli)
50s ribosomal protein l11 (14 kDa, Protein from Escherichia coli)
50s ribosomal protein l29 (7 kDa, Protein from Escherichia coli)
30s ribosomal protein s7 (20 kDa, Protein from Escherichia coli)

[Show more]

EMD-19055

Download Map 3D View

Escherichia coli paused disome complex (Non-rotated disome interface class 2)

Release date: March 6, 2024
Resolution: 3.59 Å
EM Method: Single-particle
Fitted PDBs: 8rcm
Q-score: 0.294

Flugel T, Schacherl M, Unbehaun A, Schroeer B, Dabrowski M, Burger J, Mielke T, Sprink T, Diebolder CA, Guillen Schlippe YV, Spahn CMT

Nat Commun (2024) 15 pp. 1756-1756 [ DOI: doi:10.1038/s41467-024-46092-3 Pubmed: 38409277 ]

Sample:

30s ribosomal protein s10 (11 kDa, Protein from Escherichia coli)
Small ribosomal subunit protein us3 (26 kDa, Protein from Escherichia coli)
Small ribosomal subunit protein bs18 (9 kDa, Protein from Escherichia coli)
Small ribosomal subunit protein us17 (9 kDa, Protein from Escherichia coli)
Small ribosomal subunit protein us8 (14 kDa, Protein from Escherichia coli)
Small ribosomal subunit protein bs20 (9 kDa, Protein from Escherichia coli)
Trna-val (a-site) (24 kDa, RNA from Escherichia coli)
30s ribosomal protein s7 (20 kDa, Protein from Escherichia coli)
30s ribosomal protein s21 (8 kDa, Protein from Escherichia coli)
Trna-phe (p-site) (24 kDa, RNA from Escherichia coli)
Nascent chain (1 kDa, Protein from Escherichia coli)
30s ribosomal protein s6 (15 kDa, Protein from Escherichia coli)
Small ribosomal subunit protein us2 (26 kDa, Protein from Escherichia coli)
Small ribosomal subunit protein us19 (10 kDa, Protein from Escherichia coli)
Small ribosomal subunit protein us13 (13 kDa, Protein from Escherichia coli)
50s ribosomal protein l27 (9 kDa, Protein from Escherichia coli)
5s ribosomal rna (38 kDa, RNA from Escherichia coli)
16s ribosomal rna (499 kDa, RNA from Escherichia coli)
50s ribosomal protein l5 (20 kDa, Protein from Escherichia coli)
50s ribosomal protein l28 (9 kDa, Protein from Escherichia coli)
Small ribosomal subunit protein us14 (11 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)
Small ribosomal subunit protein us9 (14 kDa, Protein from Escherichia coli)
23s ribosomal rna (941 kDa, RNA from Escherichia coli)
Small ribosomal subunit protein us12 (13 kDa, Protein from Escherichia coli)
Small ribosomal subunit protein us4 (23 kDa, Protein from Escherichia coli)
Zinc ion (65 Da, Ligand)
1,4-diaminobutane (88 Da, Ligand)
Large ribosomal subunit protein bl31a (7 kDa, Protein from Escherichia coli)
50s ribosomal protein l34 (5 kDa, Protein from Escherichia coli)
50s ribosomal protein l35 (7 kDa, Protein from Escherichia coli)
50s ribosomal protein l33 (6 kDa, Protein from Escherichia coli)
Alanine (89 Da, Ligand)
30s ribosomal protein s1 (61 kDa, Protein from Escherichia coli)
Small ribosomal subunit protein us11 (13 kDa, Protein from Escherichia coli)
Trna-ala (a-site) (24 kDa, RNA from Escherichia coli)
Magnesium ion (24 Da, Ligand)
Trna-arg (e-site) (24 kDa, RNA from Escherichia coli)
Trna-trp (p-site) (24 kDa, RNA from Escherichia coli)
30s ribosomal protein s15 (10 kDa, Protein from Escherichia coli)
Messenger rna (20 kDa, RNA from Escherichia coli)
Small ribosomal subunit protein us5 (17 kDa, Protein from Escherichia coli)
50s ribosomal protein l15 (15 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)
Escherichia coli paused disome complex (2 MDa, Complex from Escherichia coli)
50s ribosomal protein l16 (15 kDa, Protein from Escherichia coli)
Large ribosomal subunit protein ul1 (24 kDa, Protein from Escherichia coli)
30s ribosomal protein s16 (9 kDa, Protein from Escherichia coli)

[Show more]

EMD-19058

Download Map 3D View

Escherichia coli paused disome complex (Rotated disome interface class 1)

Release date: March 6, 2024
Resolution: 4.46 Å
EM Method: Single-particle
Fitted PDBs: 8rcs
Q-score: 0.218

Flugel T, Schacherl M, Unbehaun A, Schroeer B, Dabrowski M, Burger J, Mielke T, Sprink T, Diebolder CA, Guillen Schlippe YV, Spahn CMT

Nat Commun (2024) 15 pp. 1756-1756 [ DOI: doi:10.1038/s41467-024-46092-3 Pubmed: 38409277 ]

Sample:

30s ribosomal protein s10 (11 kDa, Protein from Escherichia coli)
Small ribosomal subunit protein us3 (26 kDa, Protein from Escherichia coli)
Small ribosomal subunit protein bs18 (9 kDa, Protein from Escherichia coli)
Small ribosomal subunit protein us17 (9 kDa, Protein from Escherichia coli)
Small ribosomal subunit protein us8 (14 kDa, Protein from Escherichia coli)
Small ribosomal subunit protein bs20 (9 kDa, Protein from Escherichia coli)
30s ribosomal protein s7 (20 kDa, Protein from Escherichia coli)
Messenger rna (19 kDa, RNA from Escherichia coli)
30s ribosomal protein s21 (8 kDa, Protein from Escherichia coli)
Nascent chain (1 kDa, Protein from Escherichia coli)
30s ribosomal protein s6 (15 kDa, Protein from Escherichia coli)
Small ribosomal subunit protein us2 (26 kDa, Protein from Escherichia coli)
Small ribosomal subunit protein us19 (10 kDa, Protein from Escherichia coli)
Small ribosomal subunit protein us13 (13 kDa, Protein from Escherichia coli)
50s ribosomal protein l27 (9 kDa, Protein from Escherichia coli)
5s ribosomal rna (38 kDa, RNA from Escherichia coli)
Trna-ala (a/p-site) (24 kDa, RNA from Escherichia coli)
16s ribosomal rna (499 kDa, RNA from Escherichia coli)
Trna-trp (p/e-site) (24 kDa, RNA from Escherichia coli)
50s ribosomal protein l5 (20 kDa, Protein from Escherichia coli)
50s ribosomal protein l28 (9 kDa, Protein from Escherichia coli)
Small ribosomal subunit protein us14 (11 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)
Small ribosomal subunit protein us9 (14 kDa, Protein from Escherichia coli)
23s ribosomal rna (941 kDa, RNA from Escherichia coli)
Small ribosomal subunit protein us12 (13 kDa, Protein from Escherichia coli)
Small ribosomal subunit protein us4 (23 kDa, Protein from Escherichia coli)
Zinc ion (65 Da, Ligand)
1,4-diaminobutane (88 Da, Ligand)
Large ribosomal subunit protein bl31a (7 kDa, Protein from Escherichia coli)
50s ribosomal protein l34 (5 kDa, Protein from Escherichia coli)
Spermidine (145 Da, Ligand)
50s ribosomal protein l35 (7 kDa, Protein from Escherichia coli)
50s ribosomal protein l33 (6 kDa, Protein from Escherichia coli)
30s ribosomal protein s1 (61 kDa, Protein from Escherichia coli)
Small ribosomal subunit protein us11 (13 kDa, Protein from Escherichia coli)
Trna-val (a/p-site) (24 kDa, RNA from Escherichia coli)
Trna-phe (p/e-site) (24 kDa, RNA from Escherichia coli)
Magnesium ion (24 Da, Ligand)
30s ribosomal protein s15 (10 kDa, Protein from Escherichia coli)
50s ribosomal protein l15 (15 kDa, Protein from Escherichia coli)
Small ribosomal subunit protein us5 (17 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)
Escherichia coli paused disome complex (2 MDa, Complex from Escherichia coli)
50s ribosomal protein l16 (15 kDa, Protein from Escherichia coli)
Large ribosomal subunit protein ul1 (24 kDa, Protein from Escherichia coli)
30s ribosomal protein s16 (9 kDa, Protein from Escherichia coli)

[Show more]

EMD-19059

Download Map 3D View

Escherichia coli paused disome complex (Rotated disome interface class 2)

Release date: March 6, 2024
Resolution: 5.32 Å
EM Method: Single-particle
Fitted PDBs: 8rct
Q-score: 0.181

Flugel T, Schacherl M, Unbehaun A, Schroeer B, Dabrowski M, Burger J, Mielke T, Sprink T, Diebolder CA, Guillen Schlippe YV, Spahn CMT

Nat Commun (2024) 15 pp. 1756-1756 [ Pubmed: 38409277 DOI: doi:10.1038/s41467-024-46092-3 ]

Sample:

23s ribosomal rna (941 kDa, RNA from Escherichia coli)
16s ribosomal rna (499 kDa, RNA from Escherichia coli)
Small ribosomal subunit protein us12 (13 kDa, Protein from Escherichia coli)
Messenger rna (19 kDa, RNA from Escherichia coli)
1,4-diaminobutane (88 Da, Ligand)
50s ribosomal protein l18 (12 kDa, Protein from Escherichia coli)
Small ribosomal subunit protein bs18 (9 kDa, Protein from Escherichia coli)
Trna-ala (a/p-site) (24 kDa, RNA from Escherichia coli)
50s ribosomal protein l28 (9 kDa, Protein from Escherichia coli)
Small ribosomal subunit protein us17 (9 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)
Nascent chain (1 kDa, Protein from Escherichia coli)
50s ribosomal protein l5 (20 kDa, Protein from Escherichia coli)
30s ribosomal protein s10 (11 kDa, Protein from Escherichia coli)
30s ribosomal protein s21 (8 kDa, Protein from Escherichia coli)
Magnesium ion (24 Da, Ligand)
50s ribosomal protein l9 (15 kDa, Protein from Escherichia coli)
50s ribosomal protein l33 (6 kDa, Protein from Escherichia coli)
Spermidine (145 Da, Ligand)
30s ribosomal protein s15 (10 kDa, Protein from Escherichia coli)
50s ribosomal protein l16 (15 kDa, Protein from Escherichia coli)
Small ribosomal subunit protein us14 (11 kDa, Protein from Escherichia coli)
Small ribosomal subunit protein us4 (23 kDa, Protein from Escherichia coli)
Small ribosomal subunit protein us5 (17 kDa, Protein from Escherichia coli)
50s ribosomal protein l35 (7 kDa, Protein from Escherichia coli)
50s ribosomal protein l15 (15 kDa, Protein from Escherichia coli)
Small ribosomal subunit protein us8 (14 kDa, Protein from Escherichia coli)
50s ribosomal protein l34 (5 kDa, Protein from Escherichia coli)
Escherichia coli paused disome complex (2 MDa, Complex from Escherichia coli)
Small ribosomal subunit protein us19 (10 kDa, Protein from Escherichia coli)
50s ribosomal protein l30 (6 kDa, Protein from Escherichia coli)
Small ribosomal subunit protein us9 (14 kDa, Protein from Escherichia coli)
Small ribosomal subunit protein us13 (13 kDa, Protein from Escherichia coli)
30s ribosomal protein s1 (61 kDa, Protein from Escherichia coli)
Zinc ion (65 Da, Ligand)
5s ribosomal rna (38 kDa, RNA from Escherichia coli)
30s ribosomal protein s6 (15 kDa, Protein from Escherichia coli)
Small ribosomal subunit protein us3 (26 kDa, Protein from Escherichia coli)
Small ribosomal subunit protein us2 (26 kDa, Protein from Escherichia coli)
Small ribosomal subunit protein us11 (13 kDa, Protein from Escherichia coli)
30s ribosomal protein s16 (9 kDa, Protein from Escherichia coli)
Large ribosomal subunit protein bl31a (7 kDa, Protein from Escherichia coli)
Small ribosomal subunit protein bs20 (9 kDa, Protein from Escherichia coli)
Trna-trp (p/e-site) (24 kDa, RNA from Escherichia coli)
Trna-phe (p/e-site) (24 kDa, RNA from Escherichia coli)
Large ribosomal subunit protein ul1 (24 kDa, Protein from Escherichia coli)
Trna-val (a/p-site) (24 kDa, RNA from Escherichia coli)
30s ribosomal protein s7 (20 kDa, Protein from Escherichia coli)

[Show more]

Sort by: Download

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: