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Epigenetics and neurobiology

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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:

Pre-mrna (45 kDa, RNA from Homo sapiens)
U2 small nuclear ribonucleoprotein a' (28 kDa, Protein from Homo sapiens)
U2 snrna (60 kDa, RNA from Homo sapiens)
U6 snrna-associated sm-like protein lsm8 (10 kDa, Protein from Homo sapiens)
Guanosine-5'-triphosphate (523 Da, Ligand)
U5 small nuclear ribonucleoprotein 40 kda protein (39 kDa, Protein from Homo sapiens)
Small nuclear ribonucleoprotein f (9 kDa, Protein from Homo sapiens)
U5 small nuclear ribonucleoprotein 200 kda helicase (244 kDa, Protein from Homo sapiens)
U4/u6.u5 tri-snrnp-associated protein 2 (65 kDa, Protein from Homo sapiens)
Splicing factor 3b subunit 2 (100 kDa, Protein from Homo sapiens)
Exon-defined post pre-b spliceosome (2 MDa, Complex from Homo sapiens)
U6 snrna-associated sm-like protein lsm7 (11 kDa, Protein from Homo sapiens)
Pre-mrna-processing-splicing factor 8 (273 kDa, Protein from Homo sapiens)
Isoform sm-b of small nuclear ribonucleoprotein-associated proteins b and b' (23 kDa, Protein from Homo sapiens)
Rna-binding protein 42 (50 kDa, Protein from Homo sapiens)
Splicing factor 3b subunit 6 (14 kDa, Protein from Homo sapiens)
U6 snrna (34 kDa, RNA from Homo sapiens)
U6 snrna-associated sm-like protein lsm2 (10 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)
Probable atp-dependent rna helicase ddx23 (95 kDa, Protein from Homo sapiens)
Splicing factor 3a subunit 2 (49 kDa, Protein from Homo sapiens)
Small nuclear ribonucleoprotein e (10 kDa, Protein from Homo sapiens)
Splicing factor 3a subunit 1 (88 kDa, Protein from Homo sapiens)
U2 small nuclear ribonucleoprotein b'' (25 kDa, Protein from Homo sapiens)
Small nuclear ribonucleoprotein sm d2 (13 kDa, Protein from Homo sapiens)
Small nuclear ribonucleoprotein sm d3 (13 kDa, Protein from Homo sapiens)
Small nuclear ribonucleoprotein sm d1 (13 kDa, Protein from Homo sapiens)
U4/u6.u5 tri-snrnp-associated protein 1 (90 kDa, Protein from Homo sapiens)
Inositol hexakisphosphate (660 Da, Ligand)
U6 snrna-associated sm-like protein lsm5 (9 kDa, Protein from Homo sapiens)
Nhp2-like protein 1 (14 kDa, Protein from Homo sapiens)
Splicing factor 3b subunit 5 (10 kDa, Protein from Homo sapiens)
Splicing factor 3a subunit 3 (58 kDa, Protein from Homo sapiens)
Small nuclear ribonucleoprotein g (8 kDa, Protein from Homo sapiens)
Serine/threonine-protein kinase prp4 homolog (117 kDa, Protein from Homo sapiens)
Splicing factor 3b subunit 1 (146 kDa, Protein from Homo sapiens)
Zinc ion (65 Da, Ligand)
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)
U5 snrna (37 kDa, RNA from Homo sapiens)
Phd finger-like domain-containing protein 5a (12 kDa, Protein from Homo sapiens)
U4 snrna (46 kDa, RNA from Homo sapiens)
U6 snrna-associated sm-like protein lsm4 (15 kDa, Protein from Homo sapiens)
U6 snrna-associated sm-like protein lsm3 (11 kDa, Protein from Homo sapiens)
U4/u6 small nuclear ribonucleoprotein prp31 (55 kDa, Protein from Homo sapiens)
Magnesium ion (24 Da, Ligand)
Pre-mrna-processing factor 6 (107 kDa, Protein from Homo sapiens)
Thioredoxin-like protein 4a (16 kDa, Protein from Homo sapiens)
Splicing factor 3b subunit 4 (44 kDa, Protein from Homo sapiens)
U4/u6.u5 small nuclear ribonucleoprotein 27 kda protein (18 kDa, Protein from Homo sapiens)
116 kda u5 small nuclear ribonucleoprotein component (109 kDa, Protein from Homo sapiens)

[Show more]

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:

Pre-mrna (45 kDa, RNA from Homo sapiens)
U2 small nuclear ribonucleoprotein a' (28 kDa, Protein from Homo sapiens)
U2 snrna (60 kDa, RNA from Homo sapiens)
U6 snrna-associated sm-like protein lsm8 (10 kDa, Protein from Homo sapiens)
Guanosine-5'-triphosphate (523 Da, Ligand)
U5 small nuclear ribonucleoprotein 40 kda protein (39 kDa, Protein from Homo sapiens)
Small nuclear ribonucleoprotein f (9 kDa, Protein from Homo sapiens)
U5 small nuclear ribonucleoprotein 200 kda helicase (244 kDa, Protein from Homo sapiens)
U4/u6.u5 tri-snrnp-associated protein 2 (65 kDa, Protein from Homo sapiens)
Splicing factor 3b subunit 2 (100 kDa, Protein from Homo sapiens)
Exon-defined post pre-b spliceosome (2 MDa, Complex from Homo sapiens)
U6 snrna-associated sm-like protein lsm7 (11 kDa, Protein from Homo sapiens)
Pre-mrna-processing-splicing factor 8 (273 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)
Rna-binding protein 42 (50 kDa, Protein from Homo sapiens)
U6 snrna (34 kDa, RNA from Homo sapiens)
Splicing factor 3b subunit 6 (14 kDa, Protein from Homo sapiens)
U6 snrna-associated sm-like protein lsm2 (10 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)
Probable atp-dependent rna helicase ddx23 (95 kDa, Protein from Homo sapiens)
Splicing factor 3a subunit 2 (49 kDa, Protein from Homo sapiens)
Small nuclear ribonucleoprotein e (10 kDa, Protein from Homo sapiens)
Splicing factor 3a subunit 1 (88 kDa, Protein from Homo sapiens)
U2 small nuclear ribonucleoprotein b'' (25 kDa, Protein from Homo sapiens)
Small nuclear ribonucleoprotein sm d2 (13 kDa, Protein from Homo sapiens)
Small nuclear ribonucleoprotein sm d3 (13 kDa, Protein from Homo sapiens)
Small nuclear ribonucleoprotein sm d1 (13 kDa, Protein from Homo sapiens)
U4/u6.u5 tri-snrnp-associated protein 1 (90 kDa, Protein from Homo sapiens)
Inositol hexakisphosphate (660 Da, Ligand)
U6 snrna-associated sm-like protein lsm5 (9 kDa, Protein from Homo sapiens)
Nhp2-like protein 1 (14 kDa, Protein from Homo sapiens)
Splicing factor 3b subunit 5 (10 kDa, Protein from Homo sapiens)
Splicing factor 3a subunit 3 (58 kDa, Protein from Homo sapiens)
Small nuclear ribonucleoprotein g (8 kDa, Protein from Homo sapiens)
Serine/threonine-protein kinase prp4 homolog (117 kDa, Protein from Homo sapiens)
Splicing factor 3b subunit 1 (146 kDa, Protein from Homo sapiens)
Zinc ion (65 Da, Ligand)
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)
U5 snrna (37 kDa, RNA from Homo sapiens)
Phd finger-like domain-containing protein 5a (12 kDa, Protein from Homo sapiens)
U6 snrna-associated sm-like protein lsm4 (15 kDa, Protein from Homo sapiens)
U6 snrna-associated sm-like protein lsm3 (11 kDa, Protein from Homo sapiens)
U4/u6 small nuclear ribonucleoprotein prp31 (55 kDa, Protein from Homo sapiens)
Magnesium ion (24 Da, Ligand)
Pre-mrna-processing factor 6 (107 kDa, Protein from Homo sapiens)
Thioredoxin-like protein 4a (16 kDa, Protein from Homo sapiens)
Splicing factor 3b subunit 4 (44 kDa, Protein from Homo sapiens)
U4/u6.u5 small nuclear ribonucleoprotein 27 kda protein (18 kDa, Protein from Homo sapiens)
116 kda u5 small nuclear ribonucleoprotein component (109 kDa, Protein 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:

Pre-mrna (45 kDa, RNA from Homo sapiens)
U2 small nuclear ribonucleoprotein a' (28 kDa, Protein from Homo sapiens)
U2 snrna (60 kDa, RNA from Homo sapiens)
U6 snrna-associated sm-like protein lsm8 (10 kDa, Protein from Homo sapiens)
Ww domain-binding protein 4 (42 kDa, Protein from Homo sapiens)
Guanosine-5'-triphosphate (523 Da, Ligand)
U5 small nuclear ribonucleoprotein 40 kda protein (39 kDa, Protein from Homo sapiens)
Small nuclear ribonucleoprotein f (9 kDa, Protein from Homo sapiens)
U5 small nuclear ribonucleoprotein 200 kda helicase (244 kDa, Protein from Homo sapiens)
Splicing factor 3b subunit 2 (100 kDa, Protein from Homo sapiens)
Exon-defined post pre-b spliceosome (2 MDa, Complex from Homo sapiens)
U6 snrna-associated sm-like protein lsm7 (11 kDa, Protein from Homo sapiens)
Pre-mrna-processing-splicing factor 8 (273 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 6 (14 kDa, Protein from Homo sapiens)
U6 snrna (34 kDa, RNA from Homo sapiens)
U6 snrna-associated sm-like protein lsm2 (10 kDa, Protein from Homo sapiens)
Zinc finger matrin-type protein 2 (23 kDa, Protein from Homo sapiens)
U4/u6 small nuclear ribonucleoprotein prp4 (58 kDa, Protein from Homo sapiens)
Splicing factor 3b subunit 3 (135 kDa, Protein from Homo sapiens)
Splicing factor 3a subunit 2 (49 kDa, Protein from Homo sapiens)
Small nuclear ribonucleoprotein e (10 kDa, Protein from Homo sapiens)
Splicing factor 3a subunit 1 (88 kDa, Protein from Homo sapiens)
U2 small nuclear ribonucleoprotein b'' (25 kDa, Protein from Homo sapiens)
Small nuclear ribonucleoprotein sm d2 (13 kDa, Protein from Homo sapiens)
Small nuclear ribonucleoprotein sm d3 (13 kDa, Protein from Homo sapiens)
Small nuclear ribonucleoprotein sm d1 (13 kDa, Protein from Homo sapiens)
Peptidyl-prolyl cis-trans isomerase h (19 kDa, Protein from Homo sapiens)
U4/u6.u5 tri-snrnp-associated protein 1 (90 kDa, Protein from Homo sapiens)
Inositol hexakisphosphate (660 Da, Ligand)
U6 snrna-associated sm-like protein lsm5 (9 kDa, Protein from Homo sapiens)
Nhp2-like protein 1 (14 kDa, Protein from Homo sapiens)
Wd40 repeat-containing protein smu1 (57 kDa, Protein from Homo sapiens)
Splicing factor 3b subunit 5 (10 kDa, Protein from Homo sapiens)
Pre-mrna-splicing factor 38a (37 kDa, Protein from Homo sapiens)
Splicing factor 3a subunit 3 (58 kDa, Protein from Homo sapiens)
Small nuclear ribonucleoprotein g (8 kDa, Protein from Homo sapiens)
U4 snrna (46 kDa, RNA from Homo sapiens)
Microfibrillar-associated protein 1 (52 kDa, Protein from Homo sapiens)
Splicing factor 3b subunit 1 (146 kDa, Protein from Homo sapiens)
Zinc ion (65 Da, Ligand)
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)
U5 snrna (37 kDa, RNA from Homo sapiens)
Phd finger-like domain-containing protein 5a (12 kDa, Protein from Homo sapiens)
U6 snrna-associated sm-like protein lsm4 (15 kDa, Protein from Homo sapiens)
U6 snrna-associated sm-like protein lsm3 (11 kDa, Protein from Homo sapiens)
Ubiquitin-like protein 5 (8 kDa, Protein from Homo sapiens)
U4/u6 small nuclear ribonucleoprotein prp31 (55 kDa, Protein from Homo sapiens)
Magnesium ion (24 Da, Ligand)
Pre-mrna-processing factor 6 (107 kDa, Protein from Homo sapiens)
Thioredoxin-like protein 4a (16 kDa, Protein from Homo sapiens)
Splicing factor 3b subunit 4 (44 kDa, Protein from Homo sapiens)
116 kda u5 small nuclear ribonucleoprotein component (109 kDa, Protein 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:

Pre-mrna (45 kDa, RNA from Homo sapiens)
U2 small nuclear ribonucleoprotein a' (28 kDa, Protein from Homo sapiens)
U2 snrna (60 kDa, RNA from Homo sapiens)
U6 snrna-associated sm-like protein lsm8 (10 kDa, Protein from Homo sapiens)
Ww domain-binding protein 4 (42 kDa, Protein from Homo sapiens)
Guanosine-5'-triphosphate (523 Da, Ligand)
U5 small nuclear ribonucleoprotein 40 kda protein (39 kDa, Protein from Homo sapiens)
Small nuclear ribonucleoprotein f (9 kDa, Protein from Homo sapiens)
U5 small nuclear ribonucleoprotein 200 kda helicase (244 kDa, Protein from Homo sapiens)
Splicing factor 3b subunit 2 (100 kDa, Protein from Homo sapiens)
Exon-defined post pre-b spliceosome (2 MDa, Complex from Homo sapiens)
U6 snrna-associated sm-like protein lsm7 (11 kDa, Protein from Homo sapiens)
Pre-mrna-processing-splicing factor 8 (273 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 6 (14 kDa, Protein from Homo sapiens)
U6 snrna (34 kDa, RNA from Homo sapiens)
U6 snrna-associated sm-like protein lsm2 (10 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)
Splicing factor 3a subunit 2 (49 kDa, Protein from Homo sapiens)
Small nuclear ribonucleoprotein e (10 kDa, Protein from Homo sapiens)
Splicing factor 3a subunit 1 (88 kDa, Protein from Homo sapiens)
U2 small nuclear ribonucleoprotein b'' (25 kDa, Protein from Homo sapiens)
Small nuclear ribonucleoprotein sm d2 (13 kDa, Protein from Homo sapiens)
Small nuclear ribonucleoprotein sm d3 (13 kDa, Protein from Homo sapiens)
Small nuclear ribonucleoprotein sm d1 (13 kDa, Protein from Homo sapiens)
Peptidyl-prolyl cis-trans isomerase h (19 kDa, Protein from Homo sapiens)
U4/u6.u5 tri-snrnp-associated protein 1 (90 kDa, Protein from Homo sapiens)
Inositol hexakisphosphate (660 Da, Ligand)
U6 snrna-associated sm-like protein lsm5 (9 kDa, Protein from Homo sapiens)
Nhp2-like protein 1 (14 kDa, Protein from Homo sapiens)
Wd40 repeat-containing protein smu1 (57 kDa, Protein from Homo sapiens)
Splicing factor 3b subunit 5 (10 kDa, Protein from Homo sapiens)
Splicing factor 3a subunit 3 (58 kDa, Protein from Homo sapiens)
Small nuclear ribonucleoprotein g (8 kDa, Protein from Homo sapiens)
U4 snrna (46 kDa, RNA from Homo sapiens)
Splicing factor 3b subunit 1 (146 kDa, Protein from Homo sapiens)
Zinc ion (65 Da, Ligand)
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)
U5 snrna (37 kDa, RNA from Homo sapiens)
Phd finger-like domain-containing protein 5a (12 kDa, Protein from Homo sapiens)
U6 snrna-associated sm-like protein lsm4 (15 kDa, Protein from Homo sapiens)
U6 snrna-associated sm-like protein lsm3 (11 kDa, Protein from Homo sapiens)
U4/u6 small nuclear ribonucleoprotein prp31 (55 kDa, Protein from Homo sapiens)
Magnesium ion (24 Da, Ligand)
Pre-mrna-processing factor 6 (107 kDa, Protein from Homo sapiens)
Thioredoxin-like protein 4a (16 kDa, Protein from Homo sapiens)
Splicing factor 3b subunit 4 (44 kDa, Protein from Homo sapiens)
116 kda u5 small nuclear ribonucleoprotein component (109 kDa, Protein from Homo sapiens)

[Show more]

EMD-38394

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The Cryo-EM structure of MPXV E5 apo conformation

Release date: May 1, 2024
Resolution: 3.32 Å
EM Method: Single-particle
Fitted PDBs: 8xj6
Q-score: 0.362

Cell Discov (2024) [ ]

Sample:

Phosphoaminophosphonic acid-adenylate ester (506 Da, Ligand)
Monkeypox virus (Virus from Monkeypox virus)
Amp phosphoramidate (426 Da, Ligand)
Monkeypox virus e5 (90 kDa, Protein from Monkeypox virus)
Zinc ion (65 Da, Ligand)

[Show more]

EMD-38395

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The Cryo-EM structure of MPXV E5 in complex with DNA

Release date: May 1, 2024
Resolution: 2.74 Å
EM Method: Single-particle
Fitted PDBs: 8xj7
Q-score: 0.541

Cell Discov (2024) [ ]

Sample:

Phosphoaminophosphonic acid-adenylate ester (506 Da, Ligand)
Monkeypox virus (Virus from Monkeypox virus)
Dna (70-mer) (21 kDa, DNA from Monkeypox virus)
Magnesium ion (24 Da, Ligand)
Monkeypox virus e5 (90 kDa, Protein from Monkeypox virus)

[Show more]

EMD-38396

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The Cryo-EM structure of MPXV E5 C-terminal in complex with DNA

Release date: May 1, 2024
Resolution: 2.67 Å
EM Method: Single-particle
Fitted PDBs: 8xj8
Q-score: 0.189

Cell Discov (2024) [ ]

Sample:

Phosphoaminophosphonic acid-adenylate ester (506 Da, Ligand)
Monkeypox virus (Virus from Monkeypox virus)
Dna (70-mer) (21 kDa, DNA from Monkeypox virus)
Magnesium ion (24 Da, Ligand)
Monkeypox virus e5 (53 kDa, Protein from Monkeypox virus)

[Show more]

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Showing 1 - 7 of 7. Page 1 of 1

Display: Statistics

Download

Select database:

EMDB [7]

Format:

Select the script type:

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

Preview first 10

Field: