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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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sample_name:"SmD2" AND xref_links:"drugbank" AND resolution:[8 TO 12}

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EMD-11697

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Human pre-Bact-2 spliceosome

Release date: Feb. 10, 2021
Resolution: 8.0 Å
EM Method: Single-particle
Fitted PDBs: 7abi
Q-score: 0.145

Townsend C, Leelaram MN, Agafonov DE, Dybkov O, Will CL, Bertram K, Urlaub H, Kastner B, Stark H, Luhrmann R

Science (2020) 370 [ DOI: doi:10.1126/science.abc3753 Pubmed: 33243851 ]

Sample:

Serine/arginine repetitive matrix protein 1 (102 kDa, Protein from Human)
Splicing factor 3b subunit 1 (146 kDa, Protein from Human)
Human pre-bact-2 spliceosome (Complex)
Minx m3 pre-mrna (103 kDa, RNA from synthetic construct)
Pleiotropic regulator 1 (57 kDa, Protein from Human)
Protein bud31 homolog (17 kDa, Protein from Human)
Rna-binding motif protein, x-linked 2 (37 kDa, Protein from Human)
Snw domain-containing protein 1 (61 kDa, Protein from Human)
U5 snrna (36 kDa, RNA from Human)
Splicing factor 3a subunit 2 (49 kDa, Protein from Human)
Small nuclear ribonucleoprotein-associated proteins b and b' (24 kDa, Protein from Human)
116 kda u5 small nuclear ribonucleoprotein component (109 kDa, Protein from Human)
Guanosine-5'-triphosphate (523 Da, Ligand)
U2 small nuclear ribonucleoprotein b'' (25 kDa, Protein from Human)
Phd finger-like domain-containing protein 5a (12 kDa, Protein from Human)
Pre-mrna-processing factor 17 (65 kDa, Protein from Human)
Spliceosome-associated protein cwc15 homolog (26 kDa, Protein from Human)
Magnesium ion (24 Da, Ligand)
Beta-catenin-like protein 1 (65 kDa, Protein from Human)
Intron-binding protein aquarius (171 kDa, Protein from Human)
Zinc finger matrin-type protein 2 (23 kDa, Protein from Human)
Minx m3 pre-mrna (Complex from synthetic construct)
U2 small nuclear ribonucleoprotein a' (28 kDa, Protein from Human)
Pre-mrna-splicing factor 38a (37 kDa, Protein from Human)
Small nuclear ribonucleoprotein f (9 kDa, Protein from Human)
Small nuclear ribonucleoprotein e (10 kDa, Protein from Human)
Bud13 homolog (70 kDa, Protein from Human)
Pre-mrna-processing-splicing factor 8 (273 kDa, Protein from Human)
Splicing factor 3a subunit 3 (58 kDa, Protein from Human)
U5 small nuclear ribonucleoprotein 200 kda helicase (244 kDa, Protein from Human)
Ubiquitin-like protein 5 (8 kDa, Protein from Human)
Small nuclear ribonucleoprotein g (8 kDa, Protein from Human)
Crooked neck-like protein 1 (100 kDa, Protein from Human)
Ring-type e3 ubiquitin-protein ligase ppil2 (58 kDa, Protein from Human)
Small nuclear ribonucleoprotein sm d3 (13 kDa, Protein from Human)
Splicing factor 3b subunit 4 (44 kDa, Protein from Human)
Small nuclear ribonucleoprotein sm d1 (13 kDa, Protein from Human)
Microfibrillar-associated protein 1 (52 kDa, Protein from Human)
Human pre-bact-2 spliceosome (Complex from Homo sapiens)
Peptidyl-prolyl cis-trans isomerase e (33 kDa, Protein from Human)
Splicing factor 3b subunit 6 (14 kDa, Protein from Human)
Splicing factor 3a subunit 1 (88 kDa, Protein from Human)
Smad nuclear-interacting protein 1 (45 kDa, Protein from Human)
U5 small nuclear ribonucleoprotein 40 kda protein (39 kDa, Protein from Human)
Splicing factor 3b subunit 3 (135 kDa, Protein from Human)
U2 snrna (60 kDa, RNA from Human)
U6 snrna (34 kDa, RNA from Human)
Dna/rna-binding protein kin17 (45 kDa, Protein from Human)
Small nuclear ribonucleoprotein sm d2 (13 kDa, Protein from Human)
Inositol hexakisphosphate (660 Da, Ligand)
Cell division cycle 5-like protein (92 kDa, Protein from Human)
Splicing factor 3b subunit 2 (100 kDa, Protein from Human)
Pre-mrna-splicing factor syf1 (100 kDa, Protein from Human)
Splicing factor 3b subunit 5 (10 kDa, Protein from Human)
Pre-mrna-splicing factor rbm22 (46 kDa, Protein from Human)

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EMD-4057

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Structure of the yeast spliceosome immediately after branching. 3D class containing helicase module.

Release date: Aug. 31, 2016
Resolution: 10.0 Å
EM Method: Single-particle
Fitted PDBs: 5lj5
Q-score: 0.114

Galej WP, Wilkinson ME, Fica SM, Oubridge C, Newman AJ, Nagai K

Nature (2016) 537 pp. 197-201 [ DOI: doi:10.1038/nature19316 Pubmed: 27459055 ]

Sample:

U5 snrna (small nuclear rna) (57 kDa, RNA from Saccharomyces cerevisiae)
U2 snrna (small nuclear rna) (376 kDa, RNA from Saccharomyces cerevisiae)
Exon 1 (5' exon) of ubc4 pre-mrna (5 kDa, RNA from Saccharomyces cerevisiae)
Pre-mrna-splicing factor atp-dependent rna helicase prp16 (121 kDa, Protein from Saccharomyces cerevisiae)
Cwc15 (19 kDa, Protein from Saccharomyces cerevisiae)
Small nuclear ribonucleoprotein-associated protein b (22 kDa, Protein from Saccharomyces cerevisiae)
Pre-mrna-splicing factor isy1 (28 kDa, Protein from Saccharomyces cerevisiae)
Pre-mrna-splicing factor snu114 (114 kDa, Protein from Saccharomyces cerevisiae)
U6 snrna (small nuclear rna) (35 kDa, RNA from Saccharomyces cerevisiae)
Pre-mrna-splicing factor snt309 (20 kDa, Protein from Saccharomyces cerevisiae)
Pre-mrna-splicing factor 8 (279 kDa, Protein from Saccharomyces cerevisiae)
Pre-mrna-splicing helicase brr2 (246 kDa, Protein from Saccharomyces cerevisiae)
Small nuclear ribonucleoprotein g (8 kDa, Protein from Saccharomyces cerevisiae)
U2 small nuclear ribonucleoprotein a' (27 kDa, Protein from Saccharomyces cerevisiae)
Pre-mrna-splicing factor prp46 (50 kDa, Protein from Saccharomyces cerevisiae)
Pre-mrna-splicing factor syf1 (100 kDa, Protein from Saccharomyces cerevisiae)
Magnesium ion (24 Da, Ligand)
Pre-mrna-splicing factor cwc21 (15 kDa, Protein from Saccharomyces cerevisiae)
Small nuclear ribonucleoprotein sm d3 (11 kDa, Protein from Saccharomyces cerevisiae)
Pre-mrna-splicing factor slt11 (40 kDa, Protein from Saccharomyces cerevisiae)
Pre-mrna-splicing factor bud31 (18 kDa, Protein from Saccharomyces cerevisiae)
Pre-mrna-processing factor 19 (56 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-splicing factor cwc25 (20 kDa, Protein from Saccharomyces cerevisiae)
Pre-mrna-processing protein 45 (42 kDa, Protein from Saccharomyces cerevisiae)
Zinc ion (65 Da, Ligand)
Small nuclear ribonucleoprotein sm d2 (12 kDa, Protein from Saccharomyces cerevisiae)
Pre-mrna-splicing factor cef1 (67 kDa, Protein from Saccharomyces cerevisiae)
Intron of ubc4 pre-mrna (24 kDa, RNA from Saccharomyces cerevisiae)
Spliceosome immediately after branching (2 MDa, Complex from Saccharomyces cerevisiae)
Unknown (16 kDa, Protein from Saccharomyces cerevisiae)
Pre-mrna-splicing factor cwc2 (38 kDa, Protein from Saccharomyces cerevisiae)
Small nuclear ribonucleoprotein f (9 kDa, Protein from Saccharomyces cerevisiae)
Cwc22 (69 kDa, Protein from Saccharomyces cerevisiae)
Guanosine-5'-triphosphate (523 Da, Ligand)
Protein cwc16 (32 kDa, Protein from Saccharomyces cerevisiae)
Pre-mrna-splicing factor clf1 (82 kDa, Protein from Saccharomyces cerevisiae)

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EMDB [2]

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