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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:"core" AND natural_source_ncbi_code:"9823"

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EMD-38712

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The structure of the core of the pyruvate dehydrogenase complex in the mitochondria of pig hearts.

Release date: Feb. 5, 2025
Resolution: 4.3 Å
EM Method: Subtomogram averaging

Wang C, Ma C, Xu Y, Chang S, Wu H, Yan C, Chen J, Wu Y, An S, Xu J, Han Q, Jiang Y, Jiang Z, Chu X, Gao H, Zhang X, Chang Y

Nat Commun (2025) 16 pp. 917-917 [ Pubmed: 39843418 DOI: doi:10.1038/s41467-025-56171-8 ]

Sample:

The structure of the core of the pyruvate dehydrogenase complex in the mitochondria of pig hearts (Complex from Sus scrofa)

EMD-61080

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Endogenous dihydrolipoamide acetyltransferase (E2) core of pyruvate dehydrogenase complex from pig heart

Release date: Feb. 5, 2025
Resolution: 3.2 Å
EM Method: Single-particle
Fitted PDBs: 9j1w
Q-score: 0.543

Wang C, Ma C, Xu Y, Chang S, Wu H, Yan C, Chen J, Wu Y, An S, Xu J, Han Q, Jiang Y, Jiang Z, Chu X, Gao H, Zhang X, Chang Y

Nat Commun (2025) 16 pp. 917-917 [ Pubmed: 39843418 DOI: doi:10.1038/s41467-025-56171-8 ]

Sample:

Dihydrolipoamide acetyltransferase (e2) core (Tissue from Sus scrofa)
Acetyltransferase component of pyruvate dehydrogenase complex (69 kDa, Protein from Sus scrofa)

EMD-61083

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The trimer of the pyruvate dehydrogenase complex core

Release date: Feb. 5, 2025
Resolution: 6.2 Å
EM Method: Subtomogram averaging

Wang C, Ma C, Xu Y, Chang S, Wu H, Yan C, Chen J, Wu Y, An S, Xu J, Han Q, Jiang Y, Jiang Z, Chu X, Gao H, Zhang X, Chang Y

Nat Commun (2025) 16 pp. 917-917 [ Pubmed: 39843418 DOI: doi:10.1038/s41467-025-56171-8 ]

Sample:

The trimer of the pyruvate dehydrogenase complex core (Complex from Sus scrofa)

EMD-61084

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The conformation of lipoy domain binding the core of the pyruvate dehydrogenase complex.

Release date: Feb. 5, 2025
Resolution: 6.9 Å
EM Method: Subtomogram averaging

Wang C, Ma C, Xu Y, Chang S, Wu H, Yan C, Chen J, Wu Y, An S, Xu J, Han Q, Jiang Y, Jiang Z, Chu X, Gao H, Zhang X, Chang Y

Nat Commun (2025) 16 pp. 917-917 [ Pubmed: 39843418 DOI: doi:10.1038/s41467-025-56171-8 ]

Sample:

The conformation of ld binding the core of the pyruvate dehydrogenase complex. (Complex from Sus scrofa)

EMD-45050

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Structure of an STK19-containing TC-NER complex

Release date: Dec. 25, 2024
Resolution: 1.9 Å
EM Method: Single-particle
Fitted PDBs: 9bz0
Q-score: 0.448

Mevissen TET, Kummecke M, Schmid EW, Farnung L, Walter JC

Cell (2024) 187 pp. 7091-7106.e24 [ DOI: doi:10.1016/j.cell.2024.10.020 Pubmed: 39547228 ]

Sample:

Dna (49-mer) (27 kDa, DNA from synthetic construct)
Dna-directed rna polymerase ii subunit rpb3 (31 kDa, Protein from Sus scrofa)
Dna (35-mer) (27 kDa, DNA from synthetic construct)
Dna excision repair protein ercc-6 (168 kDa, Protein from Homo sapiens)
Uv-stimulated scaffold protein a (80 kDa, Protein from Homo sapiens)
Dna-directed rna polymerase ii subunit e (24 kDa, Protein from Sus scrofa)
Magnesium ion (24 Da, Ligand)
Dna damage-binding protein 1 (127 kDa, Protein from Homo sapiens)
Inactive serine/threonine-protein kinase 19 (28 kDa, Protein from Homo sapiens)
Dna-directed rna polymerases i, ii, and iii subunit rpabc3 (17 kDa, Protein from Sus scrofa)
Det1- and ddb1-associated protein 1 (12 kDa, Protein from Homo sapiens)
Dna-directed rna polymerase ii subunit rpb7 (19 kDa, Protein from Sus scrofa)
Rna polymerase rpb4/rpc9 core domain-containing protein (16 kDa, Protein from Sus scrofa)
Transcription-coupled nucleotide excision repair complex (Complex from Homo sapiens)
Rna (5'-r(p*ap*up*cp*gp*ap*gp*ap*gp*gp*a)-3') (3 kDa, RNA from synthetic construct)
Dna-directed rna polymerase ii subunit rpb9 (14 kDa, Protein from Sus scrofa)
Rna polymerase ii subunit j (13 kDa, Protein from Sus scrofa)
Zinc ion (65 Da, Ligand)
Dna-directed rna polymerase subunit (218 kDa, Protein from Sus scrofa)
Transcription elongation factor 1 homolog (9 kDa, Protein from Homo sapiens)
Dna-directed rna polymerases i, ii, and iii subunit rpabc2 (14 kDa, Protein from Sus scrofa)
Rna polymerase ii subunit k (7 kDa, Protein from Sus scrofa)
Water (18 Da, Ligand)
Dna excision repair protein ercc-8 (44 kDa, Protein from Homo sapiens)
Dna-directed rna polymerase subunit beta (142 kDa, Protein from Sus scrofa)
Dna-directed rna polymerases i, ii, and iii subunit rpabc5 (7 kDa, Protein from Sus scrofa)

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EMD-48039

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RNA polymerase II-DSIF-SPT6-PAF1c-TFIIS-IWS1-hexasome, bp +27

Release date: Dec. 18, 2024
Resolution: 2.9 Å
EM Method: Single-particle
Fitted PDBs: 9egx
Q-score: 0.25

Markert JW, Soffers JH, Farnung L

Science (2025) 387 pp. 528-533 [ Pubmed: 39666822 DOI: doi:10.1126/science.adn6319 ]

Sample:

Dna-directed rna polymerase ii subunit rpb3 (31 kDa, Protein from Sus scrofa)
Histone h4 (11 kDa, Protein from Xenopus laevis)
Non-template dna (63 kDa, DNA from synthetic construct)
Transcription elongation factor spt4 (13 kDa, Protein from Homo sapiens)
Wdr61 (33 kDa, Protein from Homo sapiens)
Rna polymerase ii-associated factor 1 homolog (60 kDa, Protein from Homo sapiens)
Dna-directed rna polymerase ii subunit e (24 kDa, Protein from Sus scrofa)
Histone h2b 1.1 (13 kDa, Protein from Xenopus laevis)
Template dna (66 kDa, DNA from synthetic construct)
Magnesium ion (24 Da, Ligand)
Dna-directed rna polymerase subunit (219 kDa, Protein from Sus scrofa)
Dna-directed rna polymerases i, ii, and iii subunit rpabc3 (17 kDa, Protein from Sus scrofa)
Rna (6 kDa, RNA from synthetic construct)
Histone h2a type 1 (14 kDa, Protein from Xenopus laevis)
Dna-directed rna polymerase ii subunit rpb7 (19 kDa, Protein from Sus scrofa)
Setd2 downstream complex (Complex from Homo sapiens)
Transcription elongation factor a protein 1 (34 kDa, Protein from Homo sapiens)
Rna polymerase rpb4/rpc9 core domain-containing protein (16 kDa, Protein from Sus scrofa)
Rna polymerase-associated protein ctr9 homolog (134 kDa, Protein from Homo sapiens)
Dna-directed rna polymerase ii subunit rpb9 (14 kDa, Protein from Sus scrofa)
Rna polymerase-associated protein rtf1 homolog (80 kDa, Protein from Homo sapiens)
Rna polymerase ii subunit j (13 kDa, Protein from Sus scrofa)
Zinc ion (65 Da, Ligand)
Protein iws1 homolog (92 kDa, Protein from Homo sapiens)
Dna-directed rna polymerases i, ii, and iii subunit rpabc2 (14 kDa, Protein from Sus scrofa)
Rna polymerase ii subunit k (7 kDa, Protein from Sus scrofa)
Transcription elongation factor spt5 (121 kDa, Protein from Homo sapiens)
Transcription elongation factor spt6 (199 kDa, Protein from Homo sapiens)
Parafibromin (60 kDa, Protein from Homo sapiens)
Dna-directed rna polymerase subunit beta (142 kDa, Protein from Sus scrofa)
Dna-directed rna polymerases i, ii, and iii subunit rpabc5 (7 kDa, Protein from Sus scrofa)
Rna polymerase-associated protein leo1 (75 kDa, Protein from Homo sapiens)
Histone h3 (15 kDa, Protein from Xenopus laevis)

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EMD-48040

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RNA polymerase II-DSIF-SPT6-PAF1c-TFIIS-IWS1-nucleosome, bp +27

Release date: Dec. 18, 2024
Resolution: 2.9 Å
EM Method: Single-particle
Fitted PDBs: 9egy
Q-score: 0.256

Markert JW, Soffers JH, Farnung L

Science (2025) 387 pp. 528-533 [ Pubmed: 39666822 DOI: doi:10.1126/science.adn6319 ]

Sample:

Dna-directed rna polymerase ii subunit rpb3 (31 kDa, Protein from Sus scrofa)
Histone h4 (11 kDa, Protein from Xenopus laevis)
Non-template dna (63 kDa, DNA from synthetic construct)
Transcription elongation factor spt4 (13 kDa, Protein from Homo sapiens)
Wdr61 (33 kDa, Protein from Homo sapiens)
Rna polymerase ii-associated factor 1 homolog (60 kDa, Protein from Homo sapiens)
Dna-directed rna polymerase ii subunit e (24 kDa, Protein from Sus scrofa)
Histone h2b 1.1 (13 kDa, Protein from Xenopus laevis)
Template dna (66 kDa, DNA from synthetic construct)
Magnesium ion (24 Da, Ligand)
Dna-directed rna polymerase subunit (219 kDa, Protein from Sus scrofa)
Dna-directed rna polymerases i, ii, and iii subunit rpabc3 (17 kDa, Protein from Sus scrofa)
Rna (6 kDa, RNA from synthetic construct)
Histone h2a type 1 (14 kDa, Protein from Xenopus laevis)
Dna-directed rna polymerase ii subunit rpb7 (19 kDa, Protein from Sus scrofa)
Setd2 downstream complex (Complex from Homo sapiens)
Transcription elongation factor a protein 1 (34 kDa, Protein from Homo sapiens)
Rna polymerase rpb4/rpc9 core domain-containing protein (16 kDa, Protein from Sus scrofa)
Rna polymerase-associated protein ctr9 homolog (134 kDa, Protein from Homo sapiens)
Dna-directed rna polymerase ii subunit rpb9 (14 kDa, Protein from Sus scrofa)
Rna polymerase-associated protein rtf1 homolog (80 kDa, Protein from Homo sapiens)
Rna polymerase ii subunit j (13 kDa, Protein from Sus scrofa)
Zinc ion (65 Da, Ligand)
Protein iws1 homolog (92 kDa, Protein from Homo sapiens)
Dna-directed rna polymerases i, ii, and iii subunit rpabc2 (14 kDa, Protein from Sus scrofa)
Rna polymerase ii subunit k (7 kDa, Protein from Sus scrofa)
Transcription elongation factor spt5 (121 kDa, Protein from Homo sapiens)
Transcription elongation factor spt6 (199 kDa, Protein from Homo sapiens)
Parafibromin (60 kDa, Protein from Homo sapiens)
Dna-directed rna polymerase subunit beta (142 kDa, Protein from Sus scrofa)
Dna-directed rna polymerases i, ii, and iii subunit rpabc5 (7 kDa, Protein from Sus scrofa)
Rna polymerase-associated protein leo1 (75 kDa, Protein from Homo sapiens)
Histone h3 (15 kDa, Protein from Xenopus laevis)

[Show more]

EMD-48041

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RNA polymerase II-DSIF-SPT6-PAF1c-TFIIS-IWS1-SETD2-nucleosome, bp +27

Release date: Dec. 18, 2024
Resolution: 2.9 Å
EM Method: Single-particle
Fitted PDBs: 9egz
Q-score: 0.261

Markert JW, Soffers JH, Farnung L

Science (2025) 387 pp. 528-533 [ Pubmed: 39666822 DOI: doi:10.1126/science.adn6319 ]

Sample:

Histone-lysine n-methyltransferase setd2 (127 kDa, Protein from Homo sapiens)
Dna-directed rna polymerase ii subunit rpb3 (31 kDa, Protein from Sus scrofa)
Histone h4 (11 kDa, Protein from Xenopus laevis)
Non-template dna (63 kDa, DNA from synthetic construct)
Transcription elongation factor spt4 (13 kDa, Protein from Homo sapiens)
Wdr61 (33 kDa, Protein from Homo sapiens)
Rna polymerase ii-associated factor 1 homolog (60 kDa, Protein from Homo sapiens)
Dna-directed rna polymerase ii subunit e (24 kDa, Protein from Sus scrofa)
Histone h2b 1.1 (13 kDa, Protein from Xenopus laevis)
Template dna (66 kDa, DNA from synthetic construct)
Magnesium ion (24 Da, Ligand)
Dna-directed rna polymerase subunit (219 kDa, Protein from Sus scrofa)
Dna-directed rna polymerases i, ii, and iii subunit rpabc3 (17 kDa, Protein from Sus scrofa)
Rna (6 kDa, RNA from synthetic construct)
Histone h2a type 1 (14 kDa, Protein from Xenopus laevis)
Dna-directed rna polymerase ii subunit rpb7 (19 kDa, Protein from Sus scrofa)
Setd2 downstream complex (Complex from Homo sapiens)
Transcription elongation factor a protein 1 (34 kDa, Protein from Homo sapiens)
Rna polymerase rpb4/rpc9 core domain-containing protein (16 kDa, Protein from Sus scrofa)
Rna polymerase-associated protein ctr9 homolog (134 kDa, Protein from Homo sapiens)
Dna-directed rna polymerase ii subunit rpb9 (14 kDa, Protein from Sus scrofa)
Rna polymerase-associated protein rtf1 homolog (80 kDa, Protein from Homo sapiens)
Rna polymerase ii subunit j (13 kDa, Protein from Sus scrofa)
Zinc ion (65 Da, Ligand)
Protein iws1 homolog (92 kDa, Protein from Homo sapiens)
Dna-directed rna polymerases i, ii, and iii subunit rpabc2 (14 kDa, Protein from Sus scrofa)
Rna polymerase ii subunit k (7 kDa, Protein from Sus scrofa)
Transcription elongation factor spt5 (121 kDa, Protein from Homo sapiens)
Transcription elongation factor spt6 (199 kDa, Protein from Homo sapiens)
Parafibromin (60 kDa, Protein from Homo sapiens)
Dna-directed rna polymerase subunit beta (142 kDa, Protein from Sus scrofa)
Dna-directed rna polymerases i, ii, and iii subunit rpabc5 (7 kDa, Protein from Sus scrofa)
Rna polymerase-associated protein leo1 (75 kDa, Protein from Homo sapiens)
Histone h3 (15 kDa, Protein from Xenopus laevis)

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EMD-48042

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RNA polymerase II-DSIF-SPT6-PAF1c-TFIIS-IWS1-SETD2-nucleosome, 30 bp upstream

Release date: Dec. 18, 2024
Resolution: 3.6 Å
EM Method: Single-particle
Fitted PDBs: 9eh0
Q-score: 0.24

Markert JW, Soffers JH, Farnung L

Science (2025) 387 pp. 528-533 [ Pubmed: 39666822 DOI: doi:10.1126/science.adn6319 ]

Sample:

Histone-lysine n-methyltransferase setd2 (127 kDa, Protein from Homo sapiens)
Dna-directed rna polymerase ii subunit rpb3 (31 kDa, Protein from Sus scrofa)
Histone h4 (11 kDa, Protein from Xenopus laevis)
Transcription elongation factor spt4 (13 kDa, Protein from Homo sapiens)
Wdr61 (33 kDa, Protein from Homo sapiens)
Rna polymerase ii-associated factor 1 homolog (60 kDa, Protein from Homo sapiens)
Dna-directed rna polymerase ii subunit e (24 kDa, Protein from Sus scrofa)
Histone h2b 1.1 (13 kDa, Protein from Xenopus laevis)
Magnesium ion (24 Da, Ligand)
Dna-directed rna polymerase subunit (219 kDa, Protein from Sus scrofa)
Dna-directed rna polymerases i, ii, and iii subunit rpabc3 (17 kDa, Protein from Sus scrofa)
Histone h2a type 1 (14 kDa, Protein from Xenopus laevis)
Dna-directed rna polymerase ii subunit rpb7 (19 kDa, Protein from Sus scrofa)
Setd2 downstream complex (Complex from Homo sapiens)
Transcription elongation factor a protein 1 (34 kDa, Protein from Homo sapiens)
Rna polymerase rpb4/rpc9 core domain-containing protein (16 kDa, Protein from Sus scrofa)
Rna polymerase-associated protein ctr9 homolog (134 kDa, Protein from Homo sapiens)
Dna-directed rna polymerase ii subunit rpb9 (14 kDa, Protein from Sus scrofa)
Rna polymerase-associated protein rtf1 homolog (80 kDa, Protein from Homo sapiens)
Rna polymerase ii subunit j (13 kDa, Protein from Sus scrofa)
Zinc ion (65 Da, Ligand)
Protein iws1 homolog (92 kDa, Protein from Homo sapiens)
Dna-directed rna polymerases i, ii, and iii subunit rpabc2 (14 kDa, Protein from Sus scrofa)
Template dna (61 kDa, DNA from synthetic construct)
Rna polymerase ii subunit k (7 kDa, Protein from Sus scrofa)
Non-template (60 kDa, DNA from synthetic construct)
Transcription elongation factor spt5 (121 kDa, Protein from Homo sapiens)
Transcription elongation factor spt6 (199 kDa, Protein from Homo sapiens)
Rna (4 kDa, RNA from synthetic construct)
Parafibromin (60 kDa, Protein from Homo sapiens)
Dna-directed rna polymerase subunit beta (142 kDa, Protein from Sus scrofa)
Dna-directed rna polymerases i, ii, and iii subunit rpabc5 (7 kDa, Protein from Sus scrofa)
Rna polymerase-associated protein leo1 (75 kDa, Protein from Homo sapiens)
Histone h3 (15 kDa, Protein from Xenopus laevis)

[Show more]

EMD-48043

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RNA polymerase II-DSIF-SPT6-PAF1c-TFIIS-IWS1-SETD2-nucleosome, 20 bp upstream

Release date: Dec. 18, 2024
Resolution: 3.1 Å
EM Method: Single-particle
Fitted PDBs: 9eh1
Q-score: 0.237

Markert JW, Soffers JH, Farnung L

Science (2025) 387 pp. 528-533 [ Pubmed: 39666822 DOI: doi:10.1126/science.adn6319 ]

Sample:

Dna-directed rna polymerases i, ii, and iii subunit rpabc2 (8 kDa, Protein from Sus scrofa)
Transcription elongation factor a protein 1 (19 kDa, Protein from Homo sapiens)
Dna-directed rna polymerase i, ii, and iii subunit rpabc5 (7 kDa, Protein from Sus scrofa)
Dna-directed rna polymerase subunit (19 kDa, Protein from Sus scrofa)
Parafibromin (5 kDa, Protein from Homo sapiens)
Dna-directed rna polymerase subunit (173 kDa, Protein from Sus scrofa)
Histone h2b 1.1 (13 kDa, Protein from Xenopus laevis)
Rna polymerase rpb4/rpc9 core domain-containing protein (14 kDa, Protein from Sus scrofa)
Dna-directed rna polymerase ii subunit rpb11-a (13 kDa, Protein from Sus scrofa)
Rna polymerase-associated protein rtf1 homolog (29 kDa, Protein from Homo sapiens)
Rna (3 kDa, RNA from synthetic construct)
Magnesium ion (24 Da, Ligand)
Transcription elongation factor spt5 (57 kDa, Protein from Homo sapiens)
Dna-directed rna polymerase ii subunit e (24 kDa, Protein from Sus scrofa)
Dna-directed rna polymerases i, ii, and iii subunit rpabc3 (17 kDa, Protein from Sus scrofa)
Rna polymerase ii subunit k (5 kDa, Protein from Sus scrofa)
Histone h2a type 1 (14 kDa, Protein from Xenopus laevis)
Dna-directed rna polymerase ii subunit rpb9 (13 kDa, Protein from Sus scrofa)
Setd2 downstream complex (Complex from Homo sapiens)
Dna-directed rna polymerase subunit beta (132 kDa, Protein from Sus scrofa)
Protein iws1 homolog (14 kDa, Protein from Homo sapiens)
Non-template dna (52 kDa, DNA from synthetic construct)
Rna polymerase-associated protein leo1 (14 kDa, Protein from Homo sapiens)
Rna polymerase-associated protein ctr9 homolog (102 kDa, Protein from Homo sapiens)
Transcription elongation factor spt4 (13 kDa, Protein from Homo sapiens)
Histone-lysine n-methyltransferase setd2 (67 kDa, Protein from Homo sapiens)
Transcription elongation factor spt6 (117 kDa, Protein from Homo sapiens)
Zinc ion (65 Da, Ligand)
Dna-directed rna polymerase ii subunit rpb3 (30 kDa, Protein from Sus scrofa)
Histone h4 (8 kDa, Protein from Xenopus laevis)
Template dna (56 kDa, DNA from synthetic construct)
Rna polymerase ii-associated factor 1 homolog (28 kDa, Protein from Homo sapiens)
Superkiller complex protein 8, n-terminally processed (33 kDa, Protein from Homo sapiens)
Histone h3 (15 kDa, Protein from Xenopus laevis)

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Showing 1 - 10 of 47. Page 1 of 5

Display: Statistics

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Select database:

EMDB [47]

Format:

Select the script type:

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