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

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sample_name:"SmD2" AND xref_links:"alphafold" AND software_ft:"CRYOSPARC"

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EMDB [6]

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EMD-18984

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Overall structure of the U11 snRNP

Release date: Feb. 5, 2025
Resolution: 3.4 Å
EM Method: Single-particle
Fitted PDBs: 8r7n
Q-score: 0.306

Zhao J, Peter D, Brandina I, Liu X, Galej WP

Mol Cell (2025) 85 pp. 652- [ Pubmed: 39809272 DOI: doi:10.1016/j.molcel.2024.12.017 ]

Sample:

Small nuclear ribonucleoprotein sm d2 (13 kDa, Protein from Homo sapiens)
U11/u12 small nuclear ribonucleoprotein 48 kda protein (40 kDa, Protein from Homo sapiens)
Small nuclear ribonucleoprotein g (8 kDa, Protein from Homo sapiens)
Small nuclear ribonucleoprotein sm d1 (13 kDa, Protein from Homo sapiens)
U11/u12 small nuclear ribonucleoprotein 35 kda protein (29 kDa, Protein from Homo sapiens)
Zinc finger matrin-type protein 5 (20 kDa, Protein from Homo sapiens)
Small nuclear ribonucleoprotein sm d3 (13 kDa, Protein from Homo sapiens)
U11/u12 small nuclear ribonucleoprotein 25 kda protein (15 kDa, Protein from Homo sapiens)
Overall structure of the apo-u11 snrnp (300 kDa, Complex from Homo sapiens)
Small nuclear ribonucleoprotein e (10 kDa, Protein from Homo sapiens)
Small nuclear ribonucleoprotein-associated proteins b and b' (24 kDa, Protein from Homo sapiens)
Programmed cell death protein 7 (54 kDa, Protein from Homo sapiens)
U11 snrna (43 kDa, RNA from Homo sapiens)
Small nuclear ribonucleoprotein f (9 kDa, Protein from Homo sapiens)

[Show more]

EMD-51223

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Overall structure of the substrate-bound U11 snRNP

Release date: Feb. 5, 2025
Resolution: 3.5 Å
EM Method: Single-particle
Fitted PDBs: 9gbw
Q-score: 0.32

Zhao J, Peter D, Brandina I, Liu X, Galej WP

Mol Cell (2025) 85 pp. 652- [ Pubmed: 39809272 DOI: doi:10.1016/j.molcel.2024.12.017 ]

Sample:

Small nuclear ribonucleoprotein sm d2 (13 kDa, Protein from Homo sapiens)
U11/u12 small nuclear ribonucleoprotein 48 kda protein (40 kDa, Protein from Homo sapiens)
Overall structure of the substrate-bound u11 snrnp (400 kDa, Complex from Homo sapiens)
P120-5'ss (3 kDa, RNA from Homo sapiens)
Small nuclear ribonucleoprotein sm d1 (13 kDa, Protein from Homo sapiens)
U11/u12 small nuclear ribonucleoprotein 35 kda protein (29 kDa, Protein from Homo sapiens)
Zinc finger matrin-type protein 5 (20 kDa, Protein from Homo sapiens)
Small nuclear ribonucleoprotein sm d3 (13 kDa, Protein from Homo sapiens)
Small nuclear ribonucleoprotein g (8 kDa, Protein from Homo sapiens)
U11/u12 small nuclear ribonucleoprotein 25 kda protein (15 kDa, Protein from Homo sapiens)
Small nuclear ribonucleoprotein e (10 kDa, Protein from Homo sapiens)
Small nuclear ribonucleoprotein-associated proteins b and b' (24 kDa, Protein from Homo sapiens)
Programmed cell death protein 7 (54 kDa, Protein from Homo sapiens)
U11 snrna (43 kDa, RNA from Homo sapiens)
Small nuclear ribonucleoprotein f (9 kDa, Protein from Homo sapiens)

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EMD-51226

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3'-lobe of the substrate-bound U11 snRNP

Release date: Feb. 5, 2025
Resolution: 3.2 Å
EM Method: Single-particle
Fitted PDBs: 9gc0
Q-score: 0.393

Zhao J, Peter D, Brandina I, Liu X, Galej WP

Mol Cell (2025) 85 pp. 652- [ Pubmed: 39809272 DOI: doi:10.1016/j.molcel.2024.12.017 ]

Sample:

Small nuclear ribonucleoprotein sm d2 (13 kDa, Protein from Homo sapiens)
U11/u12 small nuclear ribonucleoprotein 48 kda protein (40 kDa, Protein from Homo sapiens)
Small nuclear ribonucleoprotein g (8 kDa, Protein from Homo sapiens)
Small nuclear ribonucleoprotein sm d1 (13 kDa, Protein from Homo sapiens)
Zinc finger matrin-type protein 5 (20 kDa, Protein from Homo sapiens)
Small nuclear ribonucleoprotein sm d3 (13 kDa, Protein from Homo sapiens)
Programmed cell death protein 7 (54 kDa, Protein from Homo sapiens)
Small nuclear ribonucleoprotein e (10 kDa, Protein from Homo sapiens)
Small nuclear ribonucleoprotein-associated proteins b and b' (24 kDa, Protein from Homo sapiens)
3'-lobe of the substrate-bound u11 snrnp (300 kDa, Complex from Homo sapiens)
U11 snrna (43 kDa, RNA from Homo sapiens)
Small nuclear ribonucleoprotein f (9 kDa, Protein from Homo sapiens)

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EMD-51233

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Structure of the U11 snRNP C-lobe

Release date: Feb. 5, 2025
Resolution: 3.0 Å
EM Method: Single-particle
Fitted PDBs: 9gcl
Q-score: 0.413

Zhao J, Peter D, Brandina I, Liu X, Galej WP

Mol Cell (2025) 85 pp. 652- [ Pubmed: 39809272 DOI: doi:10.1016/j.molcel.2024.12.017 ]

Sample:

Small nuclear ribonucleoprotein sm d2 (13 kDa, Protein from Homo sapiens)
U11 snrna (43 kDa, RNA from Homo sapiens)
U11/u12 small nuclear ribonucleoprotein 48 kda protein (40 kDa, Protein from Homo sapiens)
Small nuclear ribonucleoprotein g (8 kDa, Protein from Homo sapiens)
Small nuclear ribonucleoprotein sm d1 (13 kDa, Protein from Homo sapiens)
Zinc finger matrin-type protein 5 (20 kDa, Protein from Homo sapiens)
Small nuclear ribonucleoprotein sm d3 (13 kDa, Protein from Homo sapiens)
Small nuclear ribonucleoprotein e (10 kDa, Protein from Homo sapiens)
Small nuclear ribonucleoprotein-associated proteins b and b' (24 kDa, Protein from Homo sapiens)
Structure of the apo-u11 snrnp 3-lobe (300 kDa, Complex from Homo sapiens)
Small nuclear ribonucleoprotein f (9 kDa, Protein from Homo sapiens)

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EMD-18267

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Structure of the human 20S U5 snRNP core

Release date: March 27, 2024
Resolution: 3.1 Å
EM Method: Single-particle
Fitted PDBs: 8q91
Q-score: 0.417

Schneider S, Brandina I, Peter D, Lagad S, Fraudeau A, Portell-Montserrat J, Tholen J, Zhao J, Galej WP

Nat Struct Mol Biol (2024) 31 pp. 752-756 [ DOI: doi:10.1038/s41594-024-01250-5 Pubmed: 38467877 ]

Sample:

Small nuclear ribonucleoprotein sm d2 (13 kDa, Protein from Homo sapiens)
Pre-mrna-processing factor 6 (107 kDa, Protein from Homo sapiens)
U5 small nuclear ribonucleoprotein 200 kda helicase (244 kDa, Protein from Homo sapiens)
Probable atp-dependent rna helicase ddx23 (95 kDa, Protein from Homo sapiens)
Small nuclear ribonucleoprotein g (8 kDa, Protein from Homo sapiens)
Small nuclear ribonucleoprotein sm d1 (13 kDa, Protein from Homo sapiens)
Small nuclear ribonucleoprotein sm d3 (13 kDa, Protein from Homo sapiens)
Guanosine-5'-triphosphate (523 Da, Ligand)
116 kda u5 small nuclear ribonucleoprotein component (109 kDa, Protein from Homo sapiens)
Small nuclear ribonucleoprotein-associated proteins b and b' (24 kDa, Protein from Homo sapiens)
Small nuclear ribonucleoprotein e (10 kDa, Protein from Homo sapiens)
20s u5 snrnp complex purified from hek293f cell line (1 MDa, Complex from Homo sapiens)
U5 snrna (37 kDa, RNA from Homo sapiens)
Cd2 antigen cytoplasmic tail-binding protein 2 (37 kDa, Protein from Homo sapiens)
Pre-mrna-processing-splicing factor 8 (273 kDa, Protein from Homo sapiens)
Small nuclear ribonucleoprotein f (9 kDa, Protein from Homo sapiens)

[Show more]

EMD-19041

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Structure of the human 20S U5 snRNP

Release date: March 27, 2024
Resolution: 3.2 Å
EM Method: Single-particle
Fitted PDBs: 8rc0
Q-score: 0.309

Schneider S, Brandina I, Peter D, Lagad S, Fraudeau A, Portell-Montserrat J, Tholen J, Zhao J, Galej WP

Nat Struct Mol Biol (2024) 31 pp. 752-756 [ DOI: doi:10.1038/s41594-024-01250-5 Pubmed: 38467877 ]

Sample:

Small nuclear ribonucleoprotein sm d2 (13 kDa, Protein from Homo sapiens)
Pre-mrna-processing factor 6 (107 kDa, Protein from Homo sapiens)
U5 small nuclear ribonucleoprotein 200 kda helicase (244 kDa, Protein from Homo sapiens)
Probable atp-dependent rna helicase ddx23 (95 kDa, Protein from Homo sapiens)
Small nuclear ribonucleoprotein g (8 kDa, Protein from Homo sapiens)
Small nuclear ribonucleoprotein sm d1 (13 kDa, Protein from Homo sapiens)
Small nuclear ribonucleoprotein sm d3 (13 kDa, Protein from Homo sapiens)
U5 small nuclear ribonucleoprotein 40 kda protein (39 kDa, Protein from Homo sapiens)
Guanosine-5'-triphosphate (523 Da, Ligand)
Small nuclear ribonucleoprotein e (10 kDa, Protein from Homo sapiens)
Small nuclear ribonucleoprotein-associated proteins b and b' (24 kDa, Protein from Homo sapiens)
116 kda u5 small nuclear ribonucleoprotein component (109 kDa, Protein from Homo sapiens)
20s u5 snrnp complex purified from hek293f cell line (1 MDa, Complex from Homo sapiens)
U5 snrna (37 kDa, RNA from Homo sapiens)
Cd2 antigen cytoplasmic tail-binding protein 2 (37 kDa, Protein from Homo sapiens)
Pre-mrna-processing-splicing factor 8 (273 kDa, Protein from Homo sapiens)
Small nuclear ribonucleoprotein f (9 kDa, Protein from Homo sapiens)

[Show more]

Sort by: Download

Showing 1 - 6 of 6. Page 1 of 1

Display: Statistics

Download

Select database:

EMDB [6]

Format:

Select the script type:

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

Preview first 10

Field: