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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:"Ubc4" AND resolution:[3 TO 4} AND author_name:"Aj"

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EMD-3979

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Post-catalytic P complex spliceosome with 3' splice site docked

Release date: Jan. 17, 2018
Resolution: 3.7 Å
EM Method: Single-particle
Fitted PDBs: 6exn
Q-score: 0.296

Wilkinson ME, Fica SM, Galej WP, Norman CM, Newman AJ, Nagai K

Science (2017) 358 pp. 1283-1288 [ Pubmed: 29146871 DOI: doi:10.1126/science.aar3729 ]

Sample:

Pre-mrna-splicing factor syf1 (100 kDa, Protein from Baker's yeast)
Ligated exons: ubc4 mrna (12 kDa, RNA from Saccharomyces cerevisiae S288c)
Pre-mrna-processing factor prp19 (56 kDa, Protein from Baker's yeast)
Pre-mrna-splicing factor atp-dependent rna helicase prp22 (130 kDa, Protein from Baker's yeast)
Pre-mrna-processing factor prp17 (52 kDa, Protein from Baker's yeast)
Pre-mrna-splicing factor bud31 (18 kDa, Protein from Baker's yeast)
U2 snrna (376 kDa, RNA from Saccharomyces cerevisiae S288c)
Pre-mrna-splicing factor prp8 (279 kDa, Protein from Baker's yeast)
U2 small nuclear ribonucleoprotein b'' (12 kDa, Protein from Baker's yeast)
Guanosine-5'-triphosphate (523 Da, Ligand)
3' exon (Complex from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Small nuclear ribonucleoprotein sm d3 (11 kDa, Protein from Baker's yeast)
Magnesium ion (24 Da, Ligand)
Pre-mrna-splicing factor snt309 (20 kDa, Protein from Baker's yeast)
Pre-mrna-splicing factor cwc16 (32 kDa, Protein from Baker's yeast)
Pre-mrna-splicing factor syf2 (24 kDa, Protein from Baker's yeast)
Small nuclear ribonucleoprotein e (10 kDa, Protein from Baker's yeast)
U5 snrna (57 kDa, RNA from Baker's yeast)
Intron lariat: ubc4 rna (30 kDa, RNA from Saccharomyces cerevisiae S288c)
U6 snrna (35 kDa, RNA from Baker's yeast)
Unassigned structure (8 kDa, Protein from Baker's yeast)
Small nuclear ribonucleoprotein g (8 kDa, Protein from Baker's yeast)
P complex spliceosome with 3' exon docked (2 MDa, Complex)
Small nuclear ribonucleoprotein f (9 kDa, Protein from Baker's yeast)
U2 small nuclear ribonucleoprotein a' (27 kDa, Protein from Baker's yeast)
Small nuclear ribonucleoprotein sm d2 (12 kDa, Protein from Baker's yeast)
P complex spliceosome (Complex from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Small nuclear ribonucleoprotein-associated protein b (22 kDa, Protein from Baker's yeast)
Pre-mrna-splicing factor cwc21 (15 kDa, Protein from Baker's yeast)
Zinc ion (65 Da, Ligand)
Pre-mrna-processing protein 45 (42 kDa, Protein from Baker's yeast)
Small nuclear ribonucleoprotein sm d1 (16 kDa, Protein from Baker's yeast)
Pre-mrna-splicing factor prp46 (50 kDa, Protein from Baker's yeast)
Pre-mrna-splicing factor slt11 (40 kDa, Protein from Baker's yeast)
Pre-mrna-splicing factor clf1 (82 kDa, Protein from Baker's yeast)
Pre-mrna-splicing factor snu114 (114 kDa, Protein from Baker's yeast)
Pre-mrna-splicing factor cwc2 (38 kDa, Protein from Baker's yeast)
Pre-mrna-splicing factor cef1 (67 kDa, Protein from Baker's yeast)
Pre-mrna-splicing factor cwc22 (67 kDa, Protein from Baker's yeast)
Inositol hexakisphosphate (660 Da, Ligand)
Pre-mrna-splicing factor prp18 (28 kDa, Protein from Baker's yeast)
Pre-mrna-splicing factor cwc15 (19 kDa, Protein from Baker's yeast)
Pre-mrna-splicing factor slu7 (44 kDa, Protein from Baker's yeast)

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EMD-3539

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Structure of a spliceosome remodeled for exon ligation

Release date: Jan. 18, 2017
Resolution: 3.85 Å
EM Method: Single-particle
Fitted PDBs: 5mps
Q-score: 0.356

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

Nature (2017) 542 pp. 377-380 [ DOI: doi:10.1038/nature21078 Pubmed: 28076345 ]

Sample:

Small nuclear ribonucleoprotein-associated protein b (22 kDa, Protein from Saccharomyces cerevisiae)
Pre-mrna-splicing factor snu114 (114 kDa, Protein from Saccharomyces cerevisiae)
Potassium ion (39 Da, Ligand)
Saccharomyces cerevisiae strain t.52_2h chromosome xii sequence (35 kDa, RNA from Saccharomyces cerevisiae)
Pre-mrna-splicing factor 8 (279 kDa, Protein from Saccharomyces cerevisiae)
Unknown (5 kDa, Protein from Saccharomyces cerevisiae)
Small nuclear ribonucleoprotein g (8 kDa, Protein from Saccharomyces cerevisiae)
Pre-mrna-splicing factor syf2 (24 kDa, Protein from Saccharomyces cerevisiae)
Pre-mrna-splicing factor prp46 (50 kDa, Protein from Saccharomyces cerevisiae)
Pre-mrna-splicing factor syf1 (101 kDa, Protein from Saccharomyces cerevisiae)
Magnesium ion (24 Da, Ligand)
Yeast ubc4 gene for ubiquitin-conjugating enzyme (30 kDa, RNA from Saccharomyces cerevisiae)
Pre-mrna-splicing factor cwc21 (15 kDa, Protein from Saccharomyces cerevisiae)
U2 snrna (376 kDa, RNA 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-splicing factor slu7 (44 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-processing factor 17 (52 kDa, Protein from Saccharomyces cerevisiae)
Pre-mrna-processing protein 45 (42 kDa, Protein from Saccharomyces cerevisiae)
Zinc ion (65 Da, Ligand)
U5 snrna (57 kDa, RNA from Saccharomyces cerevisiae)
Small nuclear ribonucleoprotein sm d2 (12 kDa, Protein from Saccharomyces cerevisiae)
Pre-mrna-splicing factor cef1 (67 kDa, Protein from Saccharomyces cerevisiae)
Pre-mrna-splicing factor 18 (28 kDa, Protein from Saccharomyces cerevisiae)
Saccharomyces cerevisiae spliceosome. complex c just after prp16-mediated remodeling (Complex)
Pre-mrna-splicing factor cwc2 (38 kDa, Protein from Saccharomyces cerevisiae)
Inositol hexakisphosphate (660 Da, Ligand)
Ubc4 gene exon (6 kDa, RNA from Saccharomyces cerevisiae)
Small nuclear ribonucleoprotein f (9 kDa, Protein from Saccharomyces cerevisiae)
Guanosine-5'-triphosphate (523 Da, Ligand)
Pre-mrna-splicing factor cwc22 (67 kDa, Protein from Saccharomyces cerevisiae)
Pre-mrna-splicing factor cwc15 (19 kDa, Protein from Saccharomyces cerevisiae)
Pre-mrna-splicing factor clf1 (82 kDa, Protein from Saccharomyces cerevisiae)

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EMD-4055

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Overall map of the yeast spliceosome immediately after branching

Release date: Aug. 3, 2016
Resolution: 3.8 Å
EM Method: Single-particle
Fitted PDBs: 5lj3
Q-score: 0.328

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)
Cwc15 (19 kDa, Protein from Saccharomyces cerevisiae)
Pre-mrna-splicing factor cwc25 (20 kDa, Protein from Saccharomyces cerevisiae )
Cwc2 (38 kDa, Protein from Saccharomyces cerevisiae)
U6 snrna (small nuclear rna) (35 kDa, RNA from Saccharomyces cerevisiae)
Isy1 (28 kDa, Protein from Saccharomyces cerevisiae)
Magnesium ion (24 Da, Ligand)
Pre-mrna-splicing factor slt11 (40 kDa, Protein from Saccharomyces cerevisiae )
Small nuclear ribonucleoprotein sm d1 (16 kDa, Protein from Saccharomyces cerevisiae )
Unknown (11 kDa, Protein from Saccharomyces cerevisiae)
Clf1 (82 kDa, Protein from Saccharomyces cerevisiae)
Pre-mrna-splicing factor bud31 (18 kDa, Protein from Saccharomyces cerevisiae)
Pre-mrna-splicing factor 8 (279 kDa, Protein from Saccharomyces cerevisiae )
Pre-mrna-processing protein 45 (42 kDa, Protein from Saccharomyces cerevisiae)
Cef1 (67 kDa, Protein from Saccharomyces cerevisiae)
U2 small nuclear ribonucleoprotein b'' (12 kDa, Protein from Saccharomyces cerevisiae )
Zinc ion (65 Da, Ligand)
Intron of ubc4 pre-mrna (24 kDa, RNA from Saccharomyces cerevisiae)
Spliceosome immediately after branching (2 MDa, Complex from Saccharomyces cerevisiae)
Pre-mrna-splicing factor cwc21 (15 kDa, Protein from Saccharomyces cerevisiae )
Small nuclear ribonucleoprotein sm d2 (12 kDa, Protein from Saccharomyces cerevisiae )
Prp46 (50 kDa, Protein from Saccharomyces cerevisiae)
Protein cwc16 (32 kDa, Protein from Saccharomyces cerevisiae )
Small nuclear ribonucleoprotein g (8 kDa, Protein from Saccharomyces cerevisiae )
Small nuclear ribonucleoprotein f (9 kDa, Protein from Saccharomyces cerevisiae)
Cwc22 (69 kDa, Protein from Saccharomyces cerevisiae)
Small nuclear ribonucleoprotein-associated protein b (22 kDa, Protein from Saccharomyces cerevisiae )
Small nuclear ribonucleoprotein sm d3 (11 kDa, Protein from Saccharomyces cerevisiae )
Guanosine-5'-triphosphate (523 Da, Ligand)
Small nuclear ribonucleoprotein e (10 kDa, Protein from Saccharomyces cerevisiae )
U2 small nuclear ribonucleoprotein a' (27 kDa, Protein from Saccharomyces cerevisiae)
Pre-mrna-splicing factor snu114 (114 kDa, Protein from Saccharomyces cerevisiae )
Syf1 (100 kDa, Protein from Saccharomyces cerevisiae)

[Show more]

Sort by: Download

Showing 1 - 3 of 3. Page 1 of 1

Display: Statistics

Download

Select database:

EMDB [3]

Format:

Select the script type:

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

Preview first 10

Field: