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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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release_date:"2024-5-1T00:00:00Z" AND database:EMDB AND author_name:"Zhan X"

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EMD-34500

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Cryo-EM structure of human exon-defined spliceosome in the late pre-B state.

Release date: May 1, 2024
Resolution: 3.2 Å
EM Method: Single-particle
Fitted PDBs: 8h6e
Q-score: 0.236

Zhang W, Zhang X, Zhan X, Bai R, Lei J, Yan C, Shi Y

Cell Res (2024) [ Pubmed: 38658629 DOI: doi:10.1038/s41422-024-00949-w ]

Sample:

Probable atp-dependent rna helicase ddx23 (95 kDa, Protein from Homo sapiens)
U4/u6.u5 tri-snrnp-associated protein 2 (65 kDa, Protein from Homo sapiens)
Zinc ion (65 Da, Ligand)
Guanosine-5'-triphosphate (523 Da, Ligand)
U2 small nuclear ribonucleoprotein b'' (25 kDa, Protein from Homo sapiens)
116 kda u5 small nuclear ribonucleoprotein component (109 kDa, Protein from Homo sapiens)
U6 snrna-associated sm-like protein lsm4 (15 kDa, Protein from Homo sapiens)
U4/u6.u5 tri-snrnp-associated protein 1 (90 kDa, Protein from Homo sapiens)
U6 snrna-associated sm-like protein lsm5 (9 kDa, Protein from Homo sapiens)
Small nuclear ribonucleoprotein sm d1 (13 kDa, Protein from Homo sapiens)
Splicing factor 3b subunit 1 (146 kDa, Protein from Homo sapiens)
U4/u6.u5 small nuclear ribonucleoprotein 27 kda protein (18 kDa, Protein from Homo sapiens)
U6 snrna-associated sm-like protein lsm3 (11 kDa, Protein from Homo sapiens)
U6 snrna-associated sm-like protein lsm2 (10 kDa, Protein from Homo sapiens)
Thioredoxin-like protein 4a (16 kDa, Protein from Homo sapiens)
Splicing factor 3b subunit 3 (135 kDa, Protein from Homo sapiens)
U4/u6 small nuclear ribonucleoprotein prp4 (58 kDa, Protein from Homo sapiens)
U6 snrna-associated sm-like protein lsm8 (10 kDa, Protein from Homo sapiens)
Splicing factor 3b subunit 6 (14 kDa, Protein from Homo sapiens)
U6 snrna-associated sm-like protein lsm6 (9 kDa, Protein from Homo sapiens)
U4/u6 small nuclear ribonucleoprotein prp3 (77 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)
U2 snrna (60 kDa, RNA from Homo sapiens)
U5 small nuclear ribonucleoprotein 200 kda helicase (244 kDa, Protein from Homo sapiens)
Splicing factor 3a subunit 1 (88 kDa, Protein from Homo sapiens)
Splicing factor 3b subunit 2 (100 kDa, Protein from Homo sapiens)
U2 small nuclear ribonucleoprotein a' (28 kDa, Protein from Homo sapiens)
Magnesium ion (24 Da, Ligand)
Pre-mrna-processing-splicing factor 8 (273 kDa, Protein from Homo sapiens)
U5 small nuclear ribonucleoprotein 40 kda protein (39 kDa, Protein from Homo sapiens)
Isoform sm-b of small nuclear ribonucleoprotein-associated proteins b and b' (23 kDa, Protein from Homo sapiens)
Splicing factor 3b subunit 5 (10 kDa, Protein from Homo sapiens)
Rna-binding protein 42 (50 kDa, Protein from Homo sapiens)
Exon-defined post pre-b spliceosome (2 MDa, Complex from Homo sapiens)
Small nuclear ribonucleoprotein sm d2 (13 kDa, Protein from Homo sapiens)
Nhp2-like protein 1 (14 kDa, Protein from Homo sapiens)
Small nuclear ribonucleoprotein sm d3 (13 kDa, Protein from Homo sapiens)
U5 snrna (37 kDa, RNA from Homo sapiens)
Phd finger-like domain-containing protein 5a (12 kDa, Protein from Homo sapiens)
U6 snrna (34 kDa, RNA from Homo sapiens)
Small nuclear ribonucleoprotein g (8 kDa, Protein from Homo sapiens)
Inositol hexakisphosphate (660 Da, Ligand)
Serine/threonine-protein kinase prp4 homolog (117 kDa, Protein from Homo sapiens)
U6 snrna-associated sm-like protein lsm7 (11 kDa, Protein from Homo sapiens)
Small nuclear ribonucleoprotein f (9 kDa, Protein from Homo sapiens)
U4 snrna (46 kDa, RNA from Homo sapiens)
Small nuclear ribonucleoprotein e (10 kDa, Protein from Homo sapiens)
U4/u6 small nuclear ribonucleoprotein prp31 (55 kDa, Protein from Homo sapiens)
Splicing factor 3b subunit 4 (44 kDa, Protein from Homo sapiens)
Pre-mrna-processing factor 6 (107 kDa, Protein from Homo sapiens)
Pre-mrna (45 kDa, RNA from Homo sapiens)

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EMD-34505

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Cryo-EM structure of human exon-defined spliceosome in the mature pre-B state.

Release date: May 1, 2024
Resolution: 3.25 Å
EM Method: Single-particle
Fitted PDBs: 8h6j
Q-score: 0.224

Zhang W, Zhang X, Zhan X, Bai R, Lei J, Yan C, Shi Y

Cell Res (2024) [ Pubmed: 38658629 DOI: doi:10.1038/s41422-024-00949-w ]

Sample:

Probable atp-dependent rna helicase ddx23 (95 kDa, Protein from Homo sapiens)
U4/u6.u5 tri-snrnp-associated protein 2 (65 kDa, Protein from Homo sapiens)
Zinc ion (65 Da, Ligand)
Guanosine-5'-triphosphate (523 Da, Ligand)
U2 small nuclear ribonucleoprotein b'' (25 kDa, Protein from Homo sapiens)
116 kda u5 small nuclear ribonucleoprotein component (109 kDa, Protein from Homo sapiens)
U6 snrna-associated sm-like protein lsm4 (15 kDa, Protein from Homo sapiens)
U4/u6.u5 tri-snrnp-associated protein 1 (90 kDa, Protein from Homo sapiens)
U6 snrna-associated sm-like protein lsm5 (9 kDa, Protein from Homo sapiens)
Small nuclear ribonucleoprotein sm d1 (13 kDa, Protein from Homo sapiens)
Splicing factor 3b subunit 1 (146 kDa, Protein from Homo sapiens)
U4/u6.u5 small nuclear ribonucleoprotein 27 kda protein (18 kDa, Protein from Homo sapiens)
U6 snrna-associated sm-like protein lsm3 (11 kDa, Protein from Homo sapiens)
U6 snrna-associated sm-like protein lsm2 (10 kDa, Protein from Homo sapiens)
Thioredoxin-like protein 4a (16 kDa, Protein from Homo sapiens)
Splicing factor 3b subunit 3 (135 kDa, Protein from Homo sapiens)
U4/u6 small nuclear ribonucleoprotein prp4 (58 kDa, Protein from Homo sapiens)
U6 snrna-associated sm-like protein lsm8 (10 kDa, Protein from Homo sapiens)
Splicing factor 3b subunit 6 (14 kDa, Protein from Homo sapiens)
U6 snrna-associated sm-like protein lsm6 (9 kDa, Protein from Homo sapiens)
U4/u6 small nuclear ribonucleoprotein prp3 (77 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)
U2 snrna (60 kDa, RNA from Homo sapiens)
U5 small nuclear ribonucleoprotein 200 kda helicase (244 kDa, Protein from Homo sapiens)
Splicing factor 3a subunit 1 (88 kDa, Protein from Homo sapiens)
Splicing factor 3b subunit 2 (100 kDa, Protein from Homo sapiens)
U2 small nuclear ribonucleoprotein a' (28 kDa, Protein from Homo sapiens)
Magnesium ion (24 Da, Ligand)
Pre-mrna-processing-splicing factor 8 (273 kDa, Protein from Homo sapiens)
U5 small nuclear ribonucleoprotein 40 kda protein (39 kDa, Protein from Homo sapiens)
Isoform sm-b of small nuclear ribonucleoprotein-associated proteins b and b' (23 kDa, Protein from Homo sapiens)
U4 snrna (46 kDa, RNA from Homo sapiens)
Splicing factor 3b subunit 5 (10 kDa, Protein from Homo sapiens)
Rna-binding protein 42 (50 kDa, Protein from Homo sapiens)
Exon-defined post pre-b spliceosome (2 MDa, Complex from Homo sapiens)
Small nuclear ribonucleoprotein sm d2 (13 kDa, Protein from Homo sapiens)
Nhp2-like protein 1 (14 kDa, Protein from Homo sapiens)
Small nuclear ribonucleoprotein sm d3 (13 kDa, Protein from Homo sapiens)
U5 snrna (37 kDa, RNA from Homo sapiens)
Phd finger-like domain-containing protein 5a (12 kDa, Protein from Homo sapiens)
U6 snrna (34 kDa, RNA from Homo sapiens)
Small nuclear ribonucleoprotein g (8 kDa, Protein from Homo sapiens)
Inositol hexakisphosphate (660 Da, Ligand)
Serine/threonine-protein kinase prp4 homolog (117 kDa, Protein from Homo sapiens)
U6 snrna-associated sm-like protein lsm7 (11 kDa, Protein from Homo sapiens)
Small nuclear ribonucleoprotein f (9 kDa, Protein from Homo sapiens)
U4/u6 small nuclear ribonucleoprotein prp31 (55 kDa, Protein from Homo sapiens)
Small nuclear ribonucleoprotein e (10 kDa, Protein from Homo sapiens)
Splicing factor 3b subunit 4 (44 kDa, Protein from Homo sapiens)
Pre-mrna-processing factor 6 (107 kDa, Protein from Homo sapiens)
Pre-mrna (45 kDa, RNA from Homo sapiens)

[Show more]

EMD-34507

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Cryo-EM structure of human exon-defined spliceosome in the mature B state.

Release date: May 1, 2024
Resolution: 2.7 Å
EM Method: Single-particle
Fitted PDBs: 8h6k

Zhang W, Zhang X, Zhan X, Bai R, Lei J, Yan C, Shi Y

Cell Res (2024) [ Pubmed: 38658629 DOI: doi:10.1038/s41422-024-00949-w ]

Sample:

Peptidyl-prolyl cis-trans isomerase h (19 kDa, Protein from Homo sapiens)
Zinc ion (65 Da, Ligand)
Guanosine-5'-triphosphate (523 Da, Ligand)
U2 small nuclear ribonucleoprotein b'' (25 kDa, Protein from Homo sapiens)
116 kda u5 small nuclear ribonucleoprotein component (109 kDa, Protein from Homo sapiens)
U6 snrna-associated sm-like protein lsm4 (15 kDa, Protein from Homo sapiens)
U4/u6.u5 tri-snrnp-associated protein 1 (90 kDa, Protein from Homo sapiens)
U6 snrna-associated sm-like protein lsm5 (9 kDa, Protein from Homo sapiens)
Small nuclear ribonucleoprotein sm d1 (13 kDa, Protein from Homo sapiens)
Splicing factor 3b subunit 1 (146 kDa, Protein from Homo sapiens)
Zinc finger matrin-type protein 2 (23 kDa, Protein from Homo sapiens)
U6 snrna-associated sm-like protein lsm3 (11 kDa, Protein from Homo sapiens)
U6 snrna-associated sm-like protein lsm2 (10 kDa, Protein from Homo sapiens)
Thioredoxin-like protein 4a (16 kDa, Protein from Homo sapiens)
Ww domain-binding protein 4 (42 kDa, Protein from Homo sapiens)
Splicing factor 3b subunit 3 (135 kDa, Protein from Homo sapiens)
U4/u6 small nuclear ribonucleoprotein prp4 (58 kDa, Protein from Homo sapiens)
U6 snrna-associated sm-like protein lsm8 (10 kDa, Protein from Homo sapiens)
Splicing factor 3b subunit 6 (14 kDa, Protein from Homo sapiens)
U6 snrna-associated sm-like protein lsm6 (9 kDa, Protein from Homo sapiens)
U4/u6 small nuclear ribonucleoprotein prp3 (77 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)
Ubiquitin-like protein 5 (8 kDa, Protein from Homo sapiens)
U2 snrna (60 kDa, RNA from Homo sapiens)
U5 small nuclear ribonucleoprotein 200 kda helicase (244 kDa, Protein from Homo sapiens)
Splicing factor 3a subunit 1 (88 kDa, Protein from Homo sapiens)
Splicing factor 3b subunit 2 (100 kDa, Protein from Homo sapiens)
U2 small nuclear ribonucleoprotein a' (28 kDa, Protein from Homo sapiens)
Magnesium ion (24 Da, Ligand)
Pre-mrna-processing-splicing factor 8 (273 kDa, Protein from Homo sapiens)
U5 small nuclear ribonucleoprotein 40 kda protein (39 kDa, Protein from Homo sapiens)
Isoform sm-b of small nuclear ribonucleoprotein-associated proteins b and b' (23 kDa, Protein from Homo sapiens)
Splicing factor 3b subunit 5 (10 kDa, Protein from Homo sapiens)
Wd40 repeat-containing protein smu1 (57 kDa, Protein from Homo sapiens)
Exon-defined post pre-b spliceosome (2 MDa, Complex from Homo sapiens)
Small nuclear ribonucleoprotein sm d2 (13 kDa, Protein from Homo sapiens)
Nhp2-like protein 1 (14 kDa, Protein from Homo sapiens)
Microfibrillar-associated protein 1 (52 kDa, Protein from Homo sapiens)
Small nuclear ribonucleoprotein sm d3 (13 kDa, Protein from Homo sapiens)
U5 snrna (37 kDa, RNA from Homo sapiens)
U4 snrna (46 kDa, RNA from Homo sapiens)
Phd finger-like domain-containing protein 5a (12 kDa, Protein from Homo sapiens)
U6 snrna (34 kDa, RNA from Homo sapiens)
Small nuclear ribonucleoprotein g (8 kDa, Protein from Homo sapiens)
Inositol hexakisphosphate (660 Da, Ligand)
U6 snrna-associated sm-like protein lsm7 (11 kDa, Protein from Homo sapiens)
Small nuclear ribonucleoprotein f (9 kDa, Protein from Homo sapiens)
U4/u6 small nuclear ribonucleoprotein prp31 (55 kDa, Protein from Homo sapiens)
Small nuclear ribonucleoprotein e (10 kDa, Protein from Homo sapiens)
Pre-mrna-splicing factor 38a (37 kDa, Protein from Homo sapiens)
Splicing factor 3b subunit 4 (44 kDa, Protein from Homo sapiens)
Pre-mrna-processing factor 6 (107 kDa, Protein from Homo sapiens)
Pre-mrna (45 kDa, RNA from Homo sapiens)

[Show more]

EMD-34508

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Cryo-EM structure of human exon-defined spliceosome in the early B state.

Release date: May 1, 2024
Resolution: 2.6 Å
EM Method: Single-particle
Fitted PDBs: 8h6l
Q-score: 0.283

Zhang W, Zhang X, Zhan X, Bai R, Lei J, Yan C, Shi Y

Cell Res (2024) [ Pubmed: 38658629 DOI: doi:10.1038/s41422-024-00949-w ]

Sample:

Peptidyl-prolyl cis-trans isomerase h (19 kDa, Protein from Homo sapiens)
Zinc ion (65 Da, Ligand)
Guanosine-5'-triphosphate (523 Da, Ligand)
U2 small nuclear ribonucleoprotein b'' (25 kDa, Protein from Homo sapiens)
116 kda u5 small nuclear ribonucleoprotein component (109 kDa, Protein from Homo sapiens)
U6 snrna-associated sm-like protein lsm4 (15 kDa, Protein from Homo sapiens)
U4/u6.u5 tri-snrnp-associated protein 1 (90 kDa, Protein from Homo sapiens)
U6 snrna-associated sm-like protein lsm5 (9 kDa, Protein from Homo sapiens)
Small nuclear ribonucleoprotein sm d1 (13 kDa, Protein from Homo sapiens)
Splicing factor 3b subunit 1 (146 kDa, Protein from Homo sapiens)
U6 snrna-associated sm-like protein lsm3 (11 kDa, Protein from Homo sapiens)
U6 snrna-associated sm-like protein lsm2 (10 kDa, Protein from Homo sapiens)
Thioredoxin-like protein 4a (16 kDa, Protein from Homo sapiens)
Ww domain-binding protein 4 (42 kDa, Protein from Homo sapiens)
Splicing factor 3b subunit 3 (135 kDa, Protein from Homo sapiens)
U4/u6 small nuclear ribonucleoprotein prp4 (58 kDa, Protein from Homo sapiens)
U6 snrna-associated sm-like protein lsm8 (10 kDa, Protein from Homo sapiens)
Splicing factor 3b subunit 6 (14 kDa, Protein from Homo sapiens)
U6 snrna-associated sm-like protein lsm6 (9 kDa, Protein from Homo sapiens)
U4/u6 small nuclear ribonucleoprotein prp3 (77 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)
U2 snrna (60 kDa, RNA from Homo sapiens)
U5 small nuclear ribonucleoprotein 200 kda helicase (244 kDa, Protein from Homo sapiens)
Splicing factor 3a subunit 1 (88 kDa, Protein from Homo sapiens)
Splicing factor 3b subunit 2 (100 kDa, Protein from Homo sapiens)
U2 small nuclear ribonucleoprotein a' (28 kDa, Protein from Homo sapiens)
Magnesium ion (24 Da, Ligand)
Pre-mrna-processing-splicing factor 8 (273 kDa, Protein from Homo sapiens)
U5 small nuclear ribonucleoprotein 40 kda protein (39 kDa, Protein from Homo sapiens)
Isoform sm-b of small nuclear ribonucleoprotein-associated proteins b and b' (23 kDa, Protein from Homo sapiens)
Splicing factor 3b subunit 5 (10 kDa, Protein from Homo sapiens)
Wd40 repeat-containing protein smu1 (57 kDa, Protein from Homo sapiens)
Exon-defined post pre-b spliceosome (2 MDa, Complex from Homo sapiens)
Small nuclear ribonucleoprotein sm d2 (13 kDa, Protein from Homo sapiens)
Nhp2-like protein 1 (14 kDa, Protein from Homo sapiens)
Small nuclear ribonucleoprotein sm d3 (13 kDa, Protein from Homo sapiens)
U5 snrna (37 kDa, RNA from Homo sapiens)
U4 snrna (46 kDa, RNA from Homo sapiens)
Phd finger-like domain-containing protein 5a (12 kDa, Protein from Homo sapiens)
U6 snrna (34 kDa, RNA from Homo sapiens)
Small nuclear ribonucleoprotein g (8 kDa, Protein from Homo sapiens)
Inositol hexakisphosphate (660 Da, Ligand)
U6 snrna-associated sm-like protein lsm7 (11 kDa, Protein from Homo sapiens)
Small nuclear ribonucleoprotein f (9 kDa, Protein from Homo sapiens)
U4/u6 small nuclear ribonucleoprotein prp31 (55 kDa, Protein from Homo sapiens)
Small nuclear ribonucleoprotein e (10 kDa, Protein from Homo sapiens)
Splicing factor 3b subunit 4 (44 kDa, Protein from Homo sapiens)
Pre-mrna-processing factor 6 (107 kDa, Protein from Homo sapiens)
Pre-mrna (45 kDa, RNA from Homo sapiens)

[Show more]

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Showing 1 - 4 of 4. Page 1 of 1

Display: Statistics

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Select database:

EMDB [4]

Format:

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Field: