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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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author:"Wan R" AND resolution:[2 TO 3}

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EMD-30878

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Focused refinement map of SF3B region of the activated human minor spliceosome

Release date: April 7, 2021
Resolution: 2.9 Å
EM Method: Single-particle

Bai R, Wan R, Wang L, Xu K, Zhang Q, Lei J, Shi Y

To Be Published

Sample:

Structure of the activated human minor spliceosome (bact complex) (1 MDa, Complex from Homo sapiens)

EMD-30875

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Cryo-EM Structure of the Activated Human Minor Spliceosome (minor Bact Complex)

Release date: March 31, 2021
Resolution: 2.89 Å
EM Method: Single-particle
Fitted PDBs: 7dvq
Q-score: 0.432

Bai R, Wan R, Wang L, Xu K, Zhang Q, Lei J, Shi Y

Science (2021) 371 [ DOI: doi:10.1126/science.abg0879 Pubmed: 33509932 ]

Sample:

Splicing factor 3b subunit 4 (44 kDa, Protein from Homo sapiens)
U5 small nuclear ribonucleoprotein 40 kda protein (39 kDa, Protein from Homo sapiens)
Small nuclear ribonucleoprotein e (10 kDa, Protein from Homo sapiens)
Sodium channel modifier 1 (25 kDa, Protein from Homo sapiens)
Pre-mrna-processing-splicing factor 8 (273 kDa, Protein from Homo sapiens)
G-patch domain and kow motifs-containing protein (52 kDa, Protein from Homo sapiens)
The activated human minor spliceosome (human minor bact complex) (Complex from Homo sapiens)
U5 small nuclear ribonucleoprotein 200 kda helicase (244 kDa, Protein from Homo sapiens)
Crooked neck-like protein 1 (100 kDa, Protein from Homo sapiens)
Pre-mrna-splicing factor cwc22 homolog (105 kDa, Protein from Homo sapiens)
Potassium ion (39 Da, Ligand)
Serine/arginine repetitive matrix protein 1 (102 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)
Small nuclear ribonucleoprotein g (8 kDa, Protein from Homo sapiens)
Cysteine-rich pdz-binding protein (11 kDa, Protein from Homo sapiens)
Snw domain-containing protein 1 (61 kDa, Protein from Homo sapiens)
U6atac snrna (39 kDa, RNA from Homo sapiens)
Guanosine-5'-triphosphate (523 Da, Ligand)
U12 snrna (48 kDa, RNA from Homo sapiens)
Ring-type e3 ubiquitin-protein ligase ppil2 (58 kDa, Protein from Homo sapiens)
116 kda u5 small nuclear ribonucleoprotein component (109 kDa, Protein from Homo sapiens)
Water (18 Da, Ligand)
Small nuclear ribonucleoprotein sm d2 (13 kDa, Protein from Homo sapiens)
Ring finger protein 113a (38 kDa, Protein from Homo sapiens)
Splicing factor 3b subunit 5 (10 kDa, Protein from Homo sapiens)
Rna-binding motif protein, x-linked 2 (37 kDa, Protein from Homo sapiens)
Serine/arginine repetitive matrix protein 2 (300 kDa, Protein from Homo sapiens)
5'-o-[(s)-hydroxy{[(r)-hydroxy{[(s)-hydroxy(methoxy)phosphoryl]oxy}phosphoryl]oxy}phosphoryl]guanosine (537 Da, Ligand)
Smad nuclear-interacting protein 1 (45 kDa, Protein from Homo sapiens)
U5 snrna (37 kDa, RNA from Homo sapiens)
Splicing factor 3b subunit 3 (135 kDa, Protein from Homo sapiens)
Splicing factor 3b subunit 2 (100 kDa, Protein from Homo sapiens)
Small nuclear ribonucleoprotein sm d1 (13 kDa, Protein from Homo sapiens)
Armadillo repeat-containing protein 7 (21 kDa, Protein from Homo sapiens)
Magnesium ion (24 Da, Ligand)
Small nuclear ribonucleoprotein f (9 kDa, Protein from Homo sapiens)
Zinc ion (65 Da, Ligand)
Pleiotropic regulator 1 (57 kDa, Protein from Homo sapiens)
Peptidyl-prolyl cis-trans isomerase cwc27 homolog (53 kDa, Protein from Homo sapiens)
Rna-binding protein 48 (41 kDa, Protein from Homo sapiens)
Cell division cycle 5-like protein (92 kDa, Protein from Homo sapiens)
Pre-mrna-splicing factor atp-dependent rna helicase dhx16 (119 kDa, Protein from Homo sapiens)
Pre-mrna (44 kDa, RNA from Homo sapiens)
Phd finger-like domain-containing protein 5a (12 kDa, Protein from Homo sapiens)
Spliceosome-associated protein cwc15 homolog (26 kDa, Protein from Homo sapiens)
Inositol hexakisphosphate (660 Da, Ligand)
Splicing factor 3b subunit 6 (14 kDa, Protein from Homo sapiens)
Bud13 homolog (70 kDa, Protein from Homo sapiens)
Small nuclear ribonucleoprotein-associated proteins b and b' (24 kDa, Protein from Homo sapiens)

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EMD-30637

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Cryo-EM structure of the activated spliceosome (Bact complex) at an atomic resolution of 2.5 angstrom

Release date: March 17, 2021
Resolution: 2.5 Å
EM Method: Single-particle
Fitted PDBs: 7dco
Q-score: 0.408

Bai R, Wan R, Yan C, Jia Q, Lei J, Shi Y

Science (2021) 371 [ DOI: doi:10.1126/science.abe8863 Pubmed: 33243853 ]

Sample:

Hlj1_g0043010.mrna.1.cds.1 (27 kDa, Protein from Saccharomyces cerevisiae)
Prp8 isoform 1 (279 kDa, Protein from Saccharomyces cerevisiae)
Sx2_g0027210.mrna.1.cds.1 (14 kDa, Protein from Saccharomyces cerevisiae)
Brr2 isoform 1 (246 kDa, Protein from Saccharomyces cerevisiae)
U2 snrna (376 kDa, RNA from Saccharomyces cerevisiae)
Syf1 isoform 1 (100 kDa, Protein from Saccharomyces cerevisiae)
Bj4_g0037700.mrna.1.cds.1 (12 kDa, Protein from Saccharomyces cerevisiae)
Pre-mrna-splicing factor slt11 (40 kDa, Protein from Saccharomyces cerevisiae)
Pre-mrna (44 kDa, RNA from Saccharomyces cerevisiae)
U5 snrna (68 kDa, RNA from Saccharomyces cerevisiae)
Cwc22 isoform 1 (67 kDa, Protein from Saccharomyces cerevisiae)
Bj4_g0056610.mrna.1.cds.1 (12 kDa, Protein from Saccharomyces cerevisiae)
Small nuclear ribonucleoprotein sm d3 (11 kDa, Protein from Saccharomyces cerevisiae)
Bj4_g0014900.mrna.1.cds.1 (22 kDa, Protein from Saccharomyces cerevisiae)
Pre-mrna-splicing factor spp2 (20 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Cdc40 isoform 1 (52 kDa, Protein from Saccharomyces cerevisiae)
U6 snrna (35 kDa, RNA from Saccharomyces cerevisiae)
Pre-mrna-processing protein 45 (42 kDa, Protein from Saccharomyces cerevisiae)
The activated spliceosome bact complex (Complex from Saccharomyces cerevisiae)
Prp11 isoform 1 (29 kDa, Protein from Saccharomyces cerevisiae)
Guanosine-5'-triphosphate (523 Da, Ligand)
Small nuclear ribonucleoprotein g (8 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Hsh49 isoform 1 (24 kDa, Protein from Saccharomyces cerevisiae)
Cwc27 isoform 1 (35 kDa, Protein from Saccharomyces cerevisiae)
Hlj1_g0053790.mrna.1.cds.1 (27 kDa, Protein from Saccharomyces cerevisiae)
Prp9 isoform 1 (63 kDa, Protein from Saccharomyces cerevisiae)
Rds3 complex subunit 10 (9 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Pre-mrna-splicing factor prp21 (33 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Pre-mrna-splicing factor cwc21 (15 kDa, Protein from Saccharomyces cerevisiae)
Water (18 Da, Ligand)
Pre-mrna-processing factor 19 (56 kDa, Protein from Saccharomyces cerevisiae)
Pre-mrna leakage protein 1 (23 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Smd1 isoform 1 (16 kDa, Protein from Saccharomyces cerevisiae)
Snu114 isoform 1 (114 kDa, Protein from Saccharomyces cerevisiae)
Pre-mrna-splicing factor cef1 (67 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Clf1 isoform 1 (82 kDa, Protein from Saccharomyces cerevisiae)
Hsh155 isoform 1 (110 kDa, Protein from Saccharomyces cerevisiae)
Bud31 isoform 1 (18 kDa, Protein from Saccharomyces cerevisiae)
Magnesium ion (24 Da, Ligand)
Inositol hexakisphosphate (660 Da, Ligand)
Pre-mrna-splicing factor cwc24 (29 kDa, Protein from Saccharomyces cerevisiae)
Sm protein f (9 kDa, Protein from Saccharomyces cerevisiae)
Small nuclear ribonucleoprotein e (10 kDa, Protein from Saccharomyces cerevisiae)
Zinc ion (65 Da, Ligand)
Calcium ion (40 Da, Ligand)
Pre-mrna-splicing factor cwc2 (29 kDa, Protein from Saccharomyces cerevisiae)
Bj4_g0027490.mrna.1.cds.1 (12 kDa, Protein from Saccharomyces cerevisiae)
Pre-mrna-splicing factor cwc26 (14 kDa, Protein from Saccharomyces cerevisiae)
Pre-mrna-splicing factor cwc15 (19 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Snt309 isoform 1 (20 kDa, Protein from Saccharomyces cerevisiae)
Rse1 isoform 1 (153 kDa, Protein from Saccharomyces cerevisiae)
Pre-mrna-splicing factor atp-dependent rna helicase-like protein prp2 (99 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Hlj1_g0054350.mrna.1.cds.1 (37 kDa, Protein from Saccharomyces cerevisiae)
Small nuclear ribonucleoprotein sm d3 (8 kDa, Protein from Saccharomyces cerevisiae)

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EMD-30639

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cryo-EM structure of the DEAH-box helicase Prp2

Release date: Jan. 6, 2021
Resolution: 2.9 Å
EM Method: Single-particle
Fitted PDBs: 7dcq
Q-score: 0.522

Bai R, Wan R, Yan C, Jia Q, Lei J, Shi Y

Science (2021) 371 [ DOI: doi:10.1126/science.abe8863 Pubmed: 33243853 ]

Sample:

Deah-box atpase/helicase prp2 (101 MDa, Complex from Saccharomyces cerevisiae)
Prp2 isoform 1 (99 kDa, Protein from Saccharomyces cerevisiae)

EMD-0684

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Cryo-EM structure of the catalytic activated yeast spliceosome (B* complex) assembled on ACT1 pre-mRNA at 2.9 angstrom resolution

Release date: April 24, 2019
Resolution: 2.9 Å
EM Method: Single-particle

Wan R, Bai R, Yan C, Lei J, Shi Y

Cell (2019) 177 pp. 339-351.e13 [ Pubmed: 30879786 DOI: doi:10.1016/j.cell.2019.02.006 ]

Sample:

The catalytic activated spliceosome b* complex assembled on act1 pre-mrna (Complex from Saccharomyces cerevisiae S288C)

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