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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

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:"interpro" AND author_name:"Z"

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EMD-34841

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The cryo-EM structure of human pre-17S U2 snRNP

Release date: March 8, 2023
Resolution: 2.7 Å
EM Method: Single-particle
Fitted PDBs: 8hk1
Q-score: 0.317

Yang F, Bian T, Zhan X, Chen Z, Xing Z, Larsen NA, Zhang X, Shi Y

Nat Commun (2023) 14 pp. 897-897 [ Pubmed: 36797247 DOI: doi:10.1038/s41467-023-36489-x ]

Sample:

Small nuclear ribonucleoprotein sm d2 (13 kDa, Protein from Homo sapiens)
Splicing factor 3b subunit 3 (135 kDa, Protein from Homo sapiens)
Splicing factor 3b subunit 4 (44 kDa, Protein from Homo sapiens)
U2 small nuclear ribonucleoprotein b'' (25 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)
[(2~{s},3~{s},4~{e},6~{s},7~{r},10~{r})-3,7-dimethyl-2-[(2~{e},4~{e},6~{r})-6-methyl-6-oxidanyl-7-[(2~{r},3~{r})-3-[(2~{r},3~{s})-3-oxidanylpentan-2-yl]oxiran-2-yl]hepta-2,4-dien-2-yl]-7,10-bis(oxidanyl)-12-oxidanylidene-1-oxacyclododec-4-en-6-yl] 4-cycloheptylpiperazine-1-carboxylate (718 Da, Ligand)
Hiv tat-specific factor 1 (85 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)
Atp-dependent rna helicase ddx42 (103 kDa, Protein from Homo sapiens)
Small nuclear ribonucleoprotein sm d3 (13 kDa, Protein from Homo sapiens)
Splicing factor 3b subunit 1 (146 kDa, Protein from Homo sapiens)
The human pre-17s u2 snrnp (Complex from Homo sapiens)
Splicing factor 3b subunit 5 (10 kDa, Protein from Homo sapiens)
Splicing factor 3a subunit 2 (49 kDa, Protein from Homo sapiens)
Zinc ion (65 Da, Ligand)
Splicing factor 3b subunit 2 (100 kDa, Protein from Homo sapiens)
Splicing factor 3a subunit 3 (58 kDa, Protein from Homo sapiens)
Splicing factor 3a subunit 1 (88 kDa, Protein from Homo sapiens)
Small nuclear ribonucleoprotein f (9 kDa, Protein from Homo sapiens)
Phd finger-like domain-containing protein 5a (12 kDa, Protein from Homo sapiens)
U2 snrna (60 kDa, RNA from Homo sapiens)
U2 small nuclear ribonucleoprotein a' (28 kDa, Protein from Homo sapiens)

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EMD-31334

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The cryo-EM map of the human 17S U2 snRNP core region

Release date: Aug. 3, 2022
Resolution: 2.5 Å
EM Method: Single-particle
Fitted PDBs: 7evo
Q-score: 0.367

Zhang X, Zhan X, Bian T, Yang F, Li P, Lu Y, Xing Z, Fan R, Zhang QC, Shi Y

Nat Struct Mol Biol (2024) [ Pubmed: 38196034 DOI: doi:10.1038/s41594-023-01188-0 ]

Sample:

Small nuclear ribonucleoprotein sm d2 (13 kDa, Protein from Homo sapiens)
Splicing factor 3b subunit 3 (135 kDa, Protein from Homo sapiens)
Splicing factor 3b subunit 4 (44 kDa, Protein from Homo sapiens)
U2 small nuclear ribonucleoprotein b'' (25 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)
[(2~{s},3~{s},4~{e},6~{s},7~{r},10~{r})-3,7-dimethyl-2-[(2~{e},4~{e},6~{r})-6-methyl-6-oxidanyl-7-[(2~{r},3~{r})-3-[(2~{r},3~{s})-3-oxidanylpentan-2-yl]oxiran-2-yl]hepta-2,4-dien-2-yl]-7,10-bis(oxidanyl)-12-oxidanylidene-1-oxacyclododec-4-en-6-yl] 4-cycloheptylpiperazine-1-carboxylate (718 Da, Ligand)
Hiv tat-specific factor 1 (85 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)
Splicing factor 3b subunit 1 (146 kDa, Protein from Homo sapiens)
Splicing factor 3b subunit 5 (10 kDa, Protein from Homo sapiens)
Splicing factor 3a subunit 2 (49 kDa, Protein from Homo sapiens)
Zinc ion (65 Da, Ligand)
The human u2 snrnp (Complex from Homo sapiens)
Splicing factor 3b subunit 2 (100 kDa, Protein from Homo sapiens)
Splicing factor 3a subunit 3 (58 kDa, Protein from Homo sapiens)
Splicing factor 3a subunit 1 (88 kDa, Protein from Homo sapiens)
Small nuclear ribonucleoprotein f (9 kDa, Protein from Homo sapiens)
Rna helicase (119 kDa, Protein from Homo sapiens)
Phd finger-like domain-containing protein 5a (12 kDa, Protein from Homo sapiens)
U2 snrna (60 kDa, RNA from Homo sapiens)
U2 small nuclear ribonucleoprotein a' (28 kDa, Protein from Homo sapiens)

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EMD-13028

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The U2 part of Saccharomyces cerevisiae spliceosomal pre-A complex (delta BS-A ACT1)

Release date: Aug. 11, 2021
Resolution: 9.0 Å
EM Method: Single-particle
Fitted PDBs: 7oqb
Q-score: 0.133

Zhang Z, Rigo N, Dybkov O, Fourmann JB, Will CL, Kumar V, Urlaub H, Stark H, Luhrmann R

Nature (2021) 596 pp. 296-300 [ Pubmed: 34349264 DOI: doi:10.1038/s41586-021-03789-5 ]

Sample:

Small nuclear ribonucleoprotein-associated protein b (22 kDa, Protein from Saccharomyces cerevisiae)
Pre-mrna-splicing factor rds3 (12 kDa, Protein from Saccharomyces cerevisiae)
Small nuclear ribonucleoprotein e (10 kDa, Protein from Saccharomyces cerevisiae)
Small nuclear ribonucleoprotein g (8 kDa, Protein from Saccharomyces cerevisiae)
Protein hsh49 (24 kDa, Protein from Saccharomyces cerevisiae)
U2 snrna (376 kDa, RNA from Saccharomyces cerevisiae)
Small nuclear ribonucleoprotein sm d3 (11 kDa, Protein from Saccharomyces cerevisiae)
Act1 pre-mrna (delta-bs-a) (101 kDa, RNA from Saccharomyces cerevisiae)
Cold sensitive u2 snrna suppressor 1 (50 kDa, Protein from Saccharomyces cerevisiae)
U2 small nuclear ribonucleoprotein b'' (12 kDa, Protein from Saccharomyces cerevisiae)
Small nuclear ribonucleoprotein sm d1 (16 kDa, Protein from Saccharomyces cerevisiae)
Pre-mrna-splicing factor rse1 (153 kDa, Protein from Saccharomyces cerevisiae)
Pre-mrna-splicing factor prp11 (31 kDa, Protein from Saccharomyces cerevisiae)
Pre-mrna-splicing factor prp21 (33 kDa, Protein from Saccharomyces cerevisiae)
U2 snrnp component hsh155 (110 kDa, Protein from Saccharomyces cerevisiae)
Small nuclear ribonucleoprotein sm d2 (12 kDa, Protein from Saccharomyces cerevisiae)
Pre-mrna-splicing factor prp9 (63 kDa, Protein from Saccharomyces cerevisiae)
S. cerevisiae spliceosomal pre-a complex (Complex from Saccharomyces cerevisiae)
Pre-mrna-processing atp-dependent rna helicase prp5 (96 kDa, Protein from Saccharomyces cerevisiae)
Rds3 complex subunit 10 (9 kDa, Protein from Saccharomyces cerevisiae)
Small nuclear ribonucleoprotein f (9 kDa, Protein from Saccharomyces cerevisiae)
U2 small nuclear ribonucleoprotein a' (27 kDa, Protein from Saccharomyces cerevisiae)

[Show more]

EMD-13029

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The U1 part of Saccharomyces cerevisiae spliceosomal pre-A complex (delta BS-A ACT1)

Release date: Aug. 11, 2021
Resolution: 4.1 Å
EM Method: Single-particle
Fitted PDBs: 7oqc
Q-score: 0.243

Zhang Z, Rigo N, Dybkov O, Fourmann JB, Will CL, Kumar V, Urlaub H, Stark H, Luhrmann R

Nature (2021) 596 pp. 296-300 [ Pubmed: 34349264 DOI: doi:10.1038/s41586-021-03789-5 ]

Sample:

Small nuclear ribonucleoprotein-associated protein b (22 kDa, Protein from Saccharomyces cerevisiae)
Small nuclear ribonucleoprotein g (8 kDa, Protein from Saccharomyces cerevisiae)
U1 small nuclear ribonucleoprotein c (27 kDa, Protein from Saccharomyces cerevisiae)
Pre-mrna-processing factor 39 (74 kDa, Protein from Saccharomyces cerevisiae)
Protein luc7 (30 kDa, Protein from Saccharomyces cerevisiae)
Small nuclear ribonucleoprotein sm d3 (11 kDa, Protein from Saccharomyces cerevisiae)
Small nuclear ribonucleoprotein e (10 kDa, Protein from Saccharomyces cerevisiae)
Small nuclear ribonucleoprotein sm d1 (16 kDa, Protein from Saccharomyces cerevisiae)
Protein nam8 (57 kDa, Protein from Saccharomyces cerevisiae)
56 kda u1 small nuclear ribonucleoprotein component (56 kDa, Protein from Saccharomyces cerevisiae)
U1 small nuclear ribonucleoprotein component snu71 (71 kDa, Protein from Saccharomyces cerevisiae)
Small nuclear ribonucleoprotein sm d2 (12 kDa, Protein from Saccharomyces cerevisiae)
U1 snrna (182 kDa, RNA from Saccharomyces cerevisiae)
S. cerevisiae spliceosomal pre-a complex (Complex from Saccharomyces cerevisiae)
Act1 pre-mrna (delta bs-a),act1 pre-mrna (delta bs-a),act1 pre-mrna (delta bs-a),act1 pre-mrna (delta bs-a),act1 pre-mrna (delta bs-a),act1 pre-mrna (delta bs-a),act1 pre-mrna (delta bs-a),act1 pre-mrna (delta bs-a),act1 pre-mrna (delta bs-a) (111 kDa, RNA from Saccharomyces cerevisiae)
Small nuclear ribonucleoprotein f (9 kDa, Protein from Saccharomyces cerevisiae)
U1 small nuclear ribonucleoprotein 70 kda homolog (34 kDa, Protein from Saccharomyces cerevisiae)
U1 small nuclear ribonucleoprotein component prp42 (65 kDa, Protein from Saccharomyces cerevisiae)
U1 small nuclear ribonucleoprotein a (34 kDa, Protein from Saccharomyces cerevisiae)

[Show more]

EMD-13033

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Saccharomyces cerevisiae spliceosomal pre-A complex (delta BS-A ACT1)

Release date: Aug. 11, 2021
Resolution: 5.9 Å
EM Method: Single-particle
Fitted PDBs: 7oqe
Q-score: 0.121

Zhang Z, Rigo N, Dybkov O, Fourmann JB, Will CL, Kumar V, Urlaub H, Stark H, Luhrmann R

Nature (2021) 596 pp. 296-300 [ Pubmed: 34349264 DOI: doi:10.1038/s41586-021-03789-5 ]

Sample:

Small nuclear ribonucleoprotein-associated protein b (22 kDa, Protein from Saccharomyces cerevisiae)
Pre-mrna-splicing factor rds3 (12 kDa, Protein from Saccharomyces cerevisiae)
Small nuclear ribonucleoprotein g (8 kDa, Protein from Saccharomyces cerevisiae)
Rds3 complex subunit 10 (10 kDa, Protein from Saccharomyces cerevisiae)
Protein hsh49 (24 kDa, Protein from Saccharomyces cerevisiae)
U1 small nuclear ribonucleoprotein c (27 kDa, Protein from Saccharomyces cerevisiae)
Pre-mrna-processing factor 39 (74 kDa, Protein from Saccharomyces cerevisiae)
Protein luc7 (30 kDa, Protein from Saccharomyces cerevisiae)
U2 snrna (376 kDa, RNA from Saccharomyces cerevisiae)
Small nuclear ribonucleoprotein sm d3 (11 kDa, Protein from Saccharomyces cerevisiae)
Cold sensitive u2 snrna suppressor 1 (50 kDa, Protein from Saccharomyces cerevisiae)
U2 small nuclear ribonucleoprotein b'' (12 kDa, Protein from Saccharomyces cerevisiae)
Small nuclear ribonucleoprotein e (10 kDa, Protein from Saccharomyces cerevisiae)
Small nuclear ribonucleoprotein sm d1 (16 kDa, Protein from Saccharomyces cerevisiae)
Pre-mrna-processing protein prp40 (69 kDa, Protein from Saccharomyces cerevisiae)
Act1 pre-mrna (delta bs-a) (111 kDa, RNA from Saccharomyces cerevisiae)
Pre-mrna-splicing factor rse1 (153 kDa, Protein from Saccharomyces cerevisiae)
Protein nam8 (57 kDa, Protein from Saccharomyces cerevisiae)
56 kda u1 small nuclear ribonucleoprotein component (56 kDa, Protein from Saccharomyces cerevisiae)
Pre-mrna-splicing factor prp11 (31 kDa, Protein from Saccharomyces cerevisiae)
U1 small nuclear ribonucleoprotein component snu71 (71 kDa, Protein from Saccharomyces cerevisiae)
Pre-mrna-splicing factor prp21 (33 kDa, Protein from Saccharomyces cerevisiae)
U2 snrnp component hsh155 (110 kDa, Protein from Saccharomyces cerevisiae)
Small nuclear ribonucleoprotein sm d2 (12 kDa, Protein from Saccharomyces cerevisiae)
Pre-mrna-splicing factor prp9 (63 kDa, Protein from Saccharomyces cerevisiae)
U1 snrna (182 kDa, RNA from Saccharomyces cerevisiae)
S. cerevisiae spliceosomal pre-a complex (Complex from Saccharomyces cerevisiae)
Pre-mrna-processing atp-dependent rna helicase prp5 (96 kDa, Protein from Saccharomyces cerevisiae)
Small nuclear ribonucleoprotein f (9 kDa, Protein from Saccharomyces cerevisiae)
U1 small nuclear ribonucleoprotein 70 kda homolog (34 kDa, Protein from Saccharomyces cerevisiae)
U1 small nuclear ribonucleoprotein component prp42 (65 kDa, Protein from Saccharomyces cerevisiae)
U2 small nuclear ribonucleoprotein a' (27 kDa, Protein from Saccharomyces cerevisiae)
U1 small nuclear ribonucleoprotein a (34 kDa, Protein from Saccharomyces cerevisiae)

[Show more]

EMD-10689

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human 17S U2 snRNP

Release date: June 17, 2020
Resolution: 7.1 Å
EM Method: Single-particle
Fitted PDBs: 6y53
Q-score: 0.057

Zhang Z, Will CL, Bertram K, Dybkov O, Hartmuth K, Agafonov DE, Hofele R, Urlaub H, Kastner B, Luhrmann R, Stark H

Nature (2020) 583 pp. 310-313 [ Pubmed: 32494006 DOI: doi:10.1038/s41586-020-2344-3 ]

Sample:

Small nuclear ribonucleoprotein sm d2 (13 kDa, Protein from Homo sapiens)
Splicing factor 3b subunit 4 (44 kDa, Protein from Homo sapiens)
U2 small nuclear ribonucleoprotein b'' (25 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)
Splicing factor 3b subunit 6 (14 kDa, Protein from Homo sapiens)
Probable atp-dependent rna helicase ddx46 (117 kDa, Protein from Homo sapiens)
Hiv tat-specific factor 1 (85 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)
Splicing factor 3b subunit 1 (146 kDa, Protein from Homo sapiens)
Splicing factor 3a subunit 2 (49 kDa, Protein from Homo sapiens)
Splicing factor 3a subunit 3 (58 kDa, Protein from Homo sapiens)
Splicing factor 3b subunit 2 (100 kDa, Protein from Homo sapiens)
Splicing factor 3a subunit 1 (88 kDa, Protein from Homo sapiens)
Small nuclear ribonucleoprotein f (9 kDa, Protein from Homo sapiens)
Human 17s u2 snrnp (Complex from Homo sapiens)
U2 small nuclear ribonucleoprotein a' (28 kDa, Protein from Homo sapiens)
U2 snrna (60 kDa, RNA from Homo sapiens)

[Show more]

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EMDB [6]

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

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