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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 xref_links:"chebi" AND natural_source_ncbi_code:"4932"

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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:

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

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EMD-30638

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cryo-EM structure of the DEAH-box helicase Prp2 and coactivator Spp2

Release date: Jan. 6, 2021
Resolution: 3.15 Å
EM Method: Single-particle
Fitted PDBs: 7dcp
Q-score: 0.545

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

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

Sample:

Magnesium ion (24 Da, Ligand)
Prp2 isoform 1 (97 kDa, Protein from Saccharomyces cerevisiae)
Adenosine-5'-diphosphate (427 Da, Ligand)
Pre-mrna-splicing factor spp2 (20 kDa, Protein from Saccharomyces cerevisiae)
Complex of atpase/helicase prp2 and its coactivator spp2 (119 MDa, Complex from Saccharomyces cerevisiae)

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EMD-6972

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Cryo-EM structure of the yeast pre-B complex at an average resolution of 3.4~4.6 angstrom (tri-snRNP and U2 snRNP Part)

Release date: Aug. 29, 2018
Resolution: 3.4 Å
EM Method: Single-particle
Fitted PDBs: 5zwm
Q-score: 0.162

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

Science (2018) 360 pp. 1423-1429 [ DOI: doi:10.1126/science.aau0325 Pubmed: 29794219 ]

Sample:

Small nuclear ribonucleoprotein g (8 kDa, Protein from Saccharomyces cerevisiae S288c)
Yeast fully assembled spliceosomal pre-b complex before activation (Cell from Saccharomyces cerevisiae)
U6 snrna (35 kDa, RNA from Saccharomyces cerevisiae S288c)
Pre-mrna-bps (13 kDa, RNA from Saccharomyces cerevisiae S288c)
Pre-mrna-splicing factor prp11 (29 kDa, Protein from Saccharomyces cerevisiae S288c)
Pre-mrna-splicing factor 6 (104 kDa, Protein from Saccharomyces cerevisiae S288c)
Rds3 complex subunit 10 (10 kDa, Protein from Saccharomyces cerevisiae S288c)
Small nuclear ribonucleoprotein f (9 kDa, Protein from Saccharomyces cerevisiae S288c)
U2 snrna (376 kDa, RNA from Saccharomyces cerevisiae S288c)
U6 snrna-associated sm-like protein lsm4 (21 kDa, Protein from Saccharomyces cerevisiae S288c)
Pre-mrna-splicing helicase brr2 (246 kDa, Protein from Saccharomyces cerevisiae S288c)
Magnesium ion (24 Da, Ligand)
Small nuclear ribonucleoprotein sm d2 (12 kDa, Protein from Saccharomyces cerevisiae S288c)
Cold sensitive u2 snrna suppressor 1 (50 kDa, Protein from Saccharomyces cerevisiae S288c)
Pre-mrna-splicing factor prp9 (63 kDa, Protein from Saccharomyces cerevisiae S288c)
Small nuclear ribonucleoprotein sm d3 (11 kDa, Protein from Saccharomyces cerevisiae S288c)
U2 small nuclear ribonucleoprotein b'' (12 kDa, Protein from Saccharomyces cerevisiae S288c)
U4/u6 small nuclear ribonucleoprotein prp4 (52 kDa, Protein from Saccharomyces cerevisiae S288c)
66 kda u4/u6.u5 small nuclear ribonucleoprotein component (66 kDa, Protein from Saccharomyces cerevisiae S288c)
Pre-mrna-splicing factor rds3 (12 kDa, Protein from Saccharomyces cerevisiae S288c)
Zinc ion (65 Da, Ligand)
Pre-mrna-processing factor 31 (56 kDa, Protein from Saccharomyces cerevisiae S288c)
U5 snrna (68 kDa, RNA from Saccharomyces cerevisiae S288c)
U6 snrna-associated sm-like protein lsm7 (13 kDa, Protein from Saccharomyces cerevisiae S288c)
Small nuclear ribonucleoprotein e (10 kDa, Protein from Saccharomyces cerevisiae S288c)
U2 small nuclear ribonucleoprotein a' (27 kDa, Protein from Saccharomyces cerevisiae S288c)
Small nuclear ribonucleoprotein-associated protein b (22 kDa, Protein from Saccharomyces cerevisiae S288c)
Pre-mrna leakage protein 1 (23 kDa, Protein from Saccharomyces cerevisiae S288c)
U6 snrna-associated sm-like protein lsm5 (10 kDa, Protein from Saccharomyces cerevisiae S288c)
U6 snrna-associated sm-like protein lsm2 (11 kDa, Protein from Saccharomyces cerevisiae S288c)
U4 snrna (51 kDa, RNA from Saccharomyces cerevisiae S288c)
Spliceosomal protein dib1 (16 kDa, Protein from Saccharomyces cerevisiae S288c)
Pre-mrna-splicing factor rse1 (153 kDa, Protein from Saccharomyces cerevisiae S288c)
U6 snrna-associated sm-like protein lsm8 (12 kDa, Protein from Saccharomyces cerevisiae S288c)
U6 snrna-associated sm-like protein lsm6 (9 kDa, Protein from Saccharomyces cerevisiae S288c)
Protein hsh49 (24 kDa, Protein from Saccharomyces cerevisiae S288c)
Pre-mrna-splicing factor cwc26 (30 kDa, Protein from Saccharomyces cerevisiae S288c)
U4/u6 small nuclear ribonucleoprotein prp3 (55 kDa, Protein from Saccharomyces cerevisiae S288c)
Pre-mrna-splicing factor prp21 (33 kDa, Protein from Saccharomyces cerevisiae S288c)
U2 snrnp component ist3 (17 kDa, Protein from Saccharomyces cerevisiae S288c)
Pre-mrna-splicing factor snu114 (114 kDa, Protein from Saccharomyces cerevisiae S288c)
U2 snrnp component hsh155 (110 kDa, Protein from Saccharomyces cerevisiae S288c)
Guanosine-5'-triphosphate (523 Da, Ligand)
Pre-mrna-splicing factor 8 (279 kDa, Protein from Saccharomyces cerevisiae S288c)
Small nuclear ribonucleoprotein sm d1 (16 kDa, Protein from Saccharomyces cerevisiae S288c)
U6 snrna-associated sm-like protein lsm3 (10 kDa, Protein from Saccharomyces cerevisiae S288c)
13 kda ribonucleoprotein-associated protein (13 kDa, Protein from Saccharomyces cerevisiae S288c)

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EMD-6973

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Cryo-EM structure of the yeast pre-B complex at an average resolution of 3.3 angstrom (Part II: U1 snRNP region)

Release date: Aug. 29, 2018
Resolution: 3.4 Å
EM Method: Single-particle
Fitted PDBs: 5zwn
Q-score: 0.356

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

Science (2018) 360 pp. 1423-1429 [ DOI: doi:10.1126/science.aau0325 Pubmed: 29794219 ]

Sample:

Small nuclear ribonucleoprotein g (8 kDa, Protein from Saccharomyces cerevisiae S288c)
U1 small nuclear ribonucleoprotein c (27 kDa, Protein from Saccharomyces cerevisiae S288c)
Pre-mrna (7 kDa, RNA from Saccharomyces cerevisiae S288c)
U1 snrna (182 kDa, RNA from Saccharomyces cerevisiae S288c)
Protein luc7 (30 kDa, Protein from Saccharomyces cerevisiae S288c)
Small nuclear ribonucleoprotein f (9 kDa, Protein from Saccharomyces cerevisiae S288c)
U1 small nuclear ribonucleoprotein component snu71 (71 kDa, Protein from Saccharomyces cerevisiae S288c)
U1 snrnp (3 kDa, Protein from Saccharomyces cerevisiae S288c)
56 kda u1 small nuclear ribonucleoprotein component (56 kDa, Protein from Saccharomyces cerevisiae S288c)
Small nuclear ribonucleoprotein sm d2 (12 kDa, Protein from Saccharomyces cerevisiae S288c)
Small nuclear ribonucleoprotein sm d3 (11 kDa, Protein from Saccharomyces cerevisiae S288c)
U1 small nuclear ribonucleoprotein 70 kda homolog (34 kDa, Protein from Saccharomyces cerevisiae S288c)
Pre-mrna-processing factor 39 (74 kDa, Protein from Saccharomyces cerevisiae S288c)
U1 small nuclear ribonucleoprotein a (34 kDa, Protein from Saccharomyces cerevisiae S288c)
Pre-mrna-splicing atp-dependent rna helicase prp28 (66 kDa, Protein from Saccharomyces cerevisiae S288c)
Zinc ion (65 Da, Ligand)
Small nuclear ribonucleoprotein e (10 kDa, Protein from Saccharomyces cerevisiae S288c)
Small nuclear ribonucleoprotein-associated protein b (22 kDa, Protein from Saccharomyces cerevisiae S288c)
U1 small nuclear ribonucleoprotein component prp42 (65 kDa, Protein from Saccharomyces cerevisiae S288c)
Protein nam8 (57 kDa, Protein from Saccharomyces cerevisiae S288c)
Pre-b spliceosomal complex (Cell from Saccharomyces cerevisiae)
Small nuclear ribonucleoprotein sm d1 (16 kDa, Protein from Saccharomyces cerevisiae S288c)

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EMD-9524

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Cryo-EM structure of the activated spliceosome (Bact complex) at 3.5 angstrom resolution

Release date: Sept. 21, 2016
Resolution: 3.5 Å
EM Method: Single-particle
Fitted PDBs: 5gm6
Q-score: 0.377

Yan C, Wan R, Bai R, Huang G, Shi Y

Science (2016) 353 pp. 904-911 [ DOI: doi:10.1126/science.aag0291 Pubmed: 27445306 ]

Sample:

Pre-mrna-splicing factor bud31 (18 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
U2 snrnp component hsh155 (110 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Pre-mrna-splicing factor syf2 (24 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Small nuclear ribonucleoprotein f (9 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Bact spliceosomal complex (2 MDa, Complex from Saccharomyces cerevisiae S288c)
Pre-mrna-splicing factor prp46 (50 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Adenosine-5'-diphosphate (427 Da, Ligand)
U2 snrnp component ist3 (17 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Saccharomyces cerevisiae strain t.52_2h chromosome xii sequence (35 kDa, RNA from Saccharomyces cerevisiae)
Pre-mrna-splicing factor cwc15 (19 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Pre-mrna-splicing factor cwc26 (30 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Pre-mrna-splicing factor clf1 (68 kDa, Protein from Saccharomyces cerevisiae S288c)
U2 snrna (376 kDa, RNA from Saccharomyces cerevisiae S288c)
Pre-mrna-splicing factor prp11 (29 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Pre-mrna (7 kDa, RNA from Saccharomyces cerevisiae S288c)
Pre-mrna-splicing factor 8 (265 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Pre-mrna-splicing factor rse1 (153 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Pre-mrna-splicing factor syf1 (78 kDa, Protein from Saccharomyces cerevisiae S288c)
Small nuclear ribonucleoprotein e (10 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Small nuclear ribonucleoprotein g (8 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Magnesium ion (24 Da, Ligand)
Pre-mrna-splicing helicase brr2 (246 kDa, Protein from Saccharomyces cerevisiae)
Saccharomyces cerevisiae strain cdrdr_sf_h chromosome vii sequence (68 kDa, RNA from Saccharomyces cerevisiae)
Pre-mrna-splicing factor cef1 (61 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Pre-mrna-splicing factor cwc2 (38 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Pre-mrna-splicing factor cwc22 (67 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Small nuclear ribonucleoprotein sm d1 (16 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Protein hsh49 (24 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Pre-mrna-splicing factor slt11 (40 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Pre-mrna-splicing factor snt309 (20 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Peptidyl-prolyl isomerase cwc27 (35 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Small nuclear ribonucleoprotein sm d3 (11 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Small nuclear ribonucleoprotein sm d2 (11 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Pre-mrna-processing protein 45 (42 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Zinc ion (65 Da, Ligand)
Pre-mrna-processing factor 17 (52 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Rds3 complex subunit 10 (10 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Pre-mrna-splicing factor snu114 (114 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Pre-mrna-splicing factor atp-dependent rna helicase-like protein prp2 (99 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Pre-mrna-splicing factor cwc24 (29 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Cold sensitive u2 snrna suppressor 1 (50 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Pre-mrna leakage protein 1 (24 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Pre-mrna-splicing factor cwc21 (15 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Pre-mrna-splicing factor rds3 (12 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Guanosine-5'-triphosphate (523 Da, Ligand)
Small nuclear ribonucleoprotein-associated protein b (22 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Pre-mrna (18 kDa, RNA from Saccharomyces cerevisiae S288c)
Pre-mrna-processing factor 19 (56 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))

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EMDB [5]

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