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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:"5'-Exon" AND author_name:"Aj"

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EMD-3541

Download Map 3D View Raw data

Structure of a spliceosome remodeled for exon ligation

Release date: Jan. 18, 2017
Resolution: 4.17 Å
EM Method: Single-particle
Fitted PDBs: 5mq0
Q-score: 0.223

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)
5'-exon of ubc4 pre-mrna (6 kDa, RNA from Saccharomyces cerevisiae)
Saccharomyces cerevisiae strain t.52_2h chromosome xii sequence (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)
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)
3'-exon of ubc4 pre-mrna, bound by prp22 helicase (873 Da, RNA from Saccharomyces cerevisiae)
Pre-mrna-splicing factor syf1,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)
S.cerevisiae chromosome ii reading frame orf ybr230c (376 kDa, RNA from Saccharomyces cerevisiae)
Saccharomyces cerevisiae strain wi_c_mbsp_4 chromosome vii sequence (57 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)
Unknown protein (5 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)
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-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)
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 atp-dependent rna helicase prp22 (130 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)
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)
U2 small nuclear ribonucleoprotein a' (27 kDa, Protein from Saccharomyces cerevisiae)
Pre-mrna-splicing factor clf1 (82 kDa, Protein from Saccharomyces cerevisiae)

[Show more]

EMD-3542

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Structure of a spliceosome remodeled for exon ligation

Release date: Jan. 18, 2017
Resolution: 4.6 Å
EM Method: Single-particle

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

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

Sample:

U2 snrna (376 kDa, RNA from Baker's yeast)
Pre-mrna-splicing factor slt11 (40 kDa, Protein from Baker's yeast)
Intron of ubc4 pre-mrna (30 kDa, RNA from Saccharomyces cerevisiae)
Pre-mrna-splicing factor slu7 (44 kDa, Protein from Baker's yeast)
Potassium ion (39 Da, Ligand)
Pre-mrna-processing protein 45 (42 kDa, Protein from Baker's yeast)
Guanosine-5'-triphosphate (523 Da, Ligand)
Small nuclear ribonucleoprotein f (9 kDa, Protein from Baker's yeast)
Magnesium ion (24 Da, Ligand)
3'exon of ubc4 pre-mrna bound to prp22 helicase (873 Da, RNA from Saccharomyces cerevisiae)
U6 snrna (35 kDa, RNA from Baker's yeast)
Pre-mrna-splicing factor clf1 (82 kDa, Protein from Baker's yeast)
Small nuclear ribonucleoprotein sm d1 (16 kDa, Protein from Baker's yeast)
Pre-mrna-splicing factor bud31 (18 kDa, Protein from Baker's yeast)
Small nuclear ribonucleoprotein-associated protein b (22 kDa, Protein from Baker's yeast)
Pre-mrna-processing factor 17 (52 kDa, Protein from Baker's yeast)
Pre-mrna-splicing factor 8 (279 kDa, Protein from Baker's yeast)
Pre-mrna-splicing factor snu114 (114 kDa, Protein from Baker's yeast)
Pre-mrna-splicing factor syf2 (24 kDa, Protein from Baker's yeast)
Pre-mrna-splicing factor atp-dependent rna helicase prp22 (130 kDa, Protein from Baker's yeast)
U2 small nuclear ribonucleoprotein a' (27 kDa, Protein from Baker's yeast)
Small nuclear ribonucleoprotein e (10 kDa, Protein from Baker's yeast)
U2 small nuclear ribonucleoprotein b'' (12 kDa, Protein from Baker's yeast)
Small nuclear ribonucleoprotein g (8 kDa, Protein from Baker's yeast)
Zinc ion (65 Da, Ligand)
Small nuclear ribonucleoprotein sm d3 (11 kDa, Protein from Baker's yeast)
Pre-mrna-splicing factor cef1 (67 kDa, Protein from Baker's yeast)
Pre-mrna-splicing factor prp46 (50 kDa, Protein from Baker's yeast)
Pre-mrna-splicing factor cwc21 (15 kDa, Protein from Baker's yeast)
Saccharomyces cerevisiae spliceosome. complex c just after prp16-mediated remodeling (Complex)
Pre-mrna-splicing factor cwc2 (38 kDa, Protein from Baker's yeast)
5'exon of ubc4 pre-mrna (6 kDa, RNA from Saccharomyces cerevisiae)
Pre-mrna-splicing factor 18 (28 kDa, Protein from Baker's yeast)
Small nuclear ribonucleoprotein sm d2 (12 kDa, Protein from Baker's yeast)
Pre-mrna-splicing factor syf1 (100 kDa, Protein from Baker's yeast)
Unknown protein (5 kDa, Protein from Baker's yeast)
Inositol hexakisphosphate (660 Da, Ligand)
U5 snrna (57 kDa, RNA from Baker's yeast)
Pre-mrna-splicing factor cwc15 (19 kDa, Protein from Baker's yeast)
Pre-mrna-splicing factor cwc22 (67 kDa, Protein from Baker's yeast)

[Show more]

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)

[Show more]

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 - 4 of 4. Page 1 of 1

Display: Statistics

Download

Select database:

EMDB [4]

Format:

Select the script type:

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

Preview first 10

Field: