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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:

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perform basic research in molecular biology

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offer vital services to scientists in the member states

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scientists, students and visitors at all levels

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and development of technology

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new instruments and methods

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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

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Hinxton

EMBL-EBI: European Bioinformatics Institute

Rome

Epigenetics and neurobiology

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sample_name:"Pre-mRNA-splicing factor SYF1" AND xref_links:"pdb" AND author_name:"Liu"

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EMD-9645

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Cryo-EM structure of a human post-catalytic spliceosome (P complex) at 3.0 angstrom

Release date: March 13, 2019
Resolution: 3.0 Å
EM Method: Single-particle
Fitted PDBs: 6icz
Q-score: 0.284

Zhang X, Zhan X, Yan C, Zhang W, Liu D, Lei J, Shi Y

Cell Res (2019) 29 pp. 274-285 [ DOI: doi:10.1038/s41422-019-0143-x Pubmed: 30728453 ]

Sample:

U5 small nuclear ribonucleoprotein 40 kda protein (39 kDa, Protein from Homo sapiens)
Small nuclear ribonucleoprotein e (10 kDa, Protein from Homo sapiens)
Protein casc3 (76 kDa, Protein from Homo sapiens)
U2snrna (60 kDa, RNA from Homo sapiens)
Pre-mrna-splicing factor syf2 (28 kDa, Protein from Homo sapiens)
Pre-mrna-splicing factor rbm22 (46 kDa, Protein from Homo sapiens)
Pre-mrna-processing-splicing factor 8 (273 kDa, Protein from Homo sapiens)
Pre-mrna (87 kDa, RNA from Homo sapiens)
U5 small nuclear ribonucleoprotein 200 kda helicase (244 kDa, Protein from Homo sapiens)
Prkr-interacting protein 1 (21 kDa, Protein from Homo sapiens)
Pre-mrna-processing factor 17 (65 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)
Protein mago nashi homolog 2 (17 kDa, Protein from Homo sapiens)
U6snrna (34 kDa, RNA from Homo sapiens)
Guanosine-5'-triphosphate (523 Da, Ligand)
Small nuclear ribonucleoprotein sm d3 (13 kDa, Protein from Homo sapiens)
Small nuclear ribonucleoprotein g (8 kDa, Protein from Homo sapiens)
Atp-dependent rna helicase dhx8 (139 kDa, Protein from Homo sapiens)
U5snrna (37 kDa, RNA from Homo sapiens)
Adenosine-5'-triphosphate (507 Da, Ligand)
Protein bud31 homolog (17 kDa, Protein from Homo sapiens)
Peptidyl-prolyl cis-trans isomerase e (33 kDa, Protein from Homo sapiens)
116 kda u5 small nuclear ribonucleoprotein component (109 kDa, Protein from Homo sapiens)
Small nuclear ribonucleoprotein sm d2 (13 kDa, Protein from Homo sapiens)
Serine/arginine repetitive matrix protein 2 (300 kDa, Protein from Homo sapiens)
Rna helicase aquarius (171 kDa, Protein from Homo sapiens)
Rna-binding protein 8a (19 kDa, Protein from Homo sapiens)
Peptidyl-prolyl cis-trans isomerase-like 1 (18 kDa, Protein from Homo sapiens)
Snw domain-containing protein 1 (61 kDa, Protein from Homo sapiens)
U2 small nuclear ribonucleoprotein a' (28 kDa, Protein from Homo sapiens)
U2 small nuclear ribonucleoprotein b'' (25 kDa, Protein from Homo sapiens)
Small nuclear ribonucleoprotein sm d1 (13 kDa, Protein from Homo sapiens)
Magnesium ion (24 Da, Ligand)
Inositol hexakisphosphate (660 Da, Ligand)
Small nuclear ribonucleoprotein f (9 kDa, Protein from Homo sapiens)
Zinc ion (65 Da, Ligand)
Eukaryotic initiation factor 4a-iii (46 kDa, Protein from Homo sapiens)
Pleiotropic regulator 1 (57 kDa, Protein from Homo sapiens)
Cell division cycle 5-like protein (92 kDa, Protein from Homo sapiens)
Pre-mrna-processing factor 19 (55 kDa, Protein from Homo sapiens)
Pre-mrna-splicing factor syf1 (100 kDa, Protein from Homo sapiens)
Pre-mrna-splicing factor slu7 (68 kDa, Protein from Homo sapiens)
Pre-mrna-splicing factor spf27 (26 kDa, Protein from Homo sapiens)
Small nuclear ribonucleoprotein-associated protein (23 kDa, Protein from Homo sapiens)
Human post_catalytic spliceosome (Complex from Homo sapiens)
Spliceosome-associated protein cwc15 homolog (26 kDa, Protein from Homo sapiens)

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EMD-9646

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Cryo-EM structure of a human intron lariat spliceosome prior to Prp43 loaded (ILS1 complex) at 2.9 angstrom resolution

Release date: March 13, 2019
Resolution: 2.9 Å
EM Method: Single-particle
Fitted PDBs: 6id0
Q-score: 0.314

Zhang X, Zhan X, Yan C, Zhang W, Liu D, Lei J, Shi Y

Cell Res (2019) 29 pp. 274-285 [ DOI: doi:10.1038/s41422-019-0143-x Pubmed: 30728453 ]

Sample:

U5 small nuclear ribonucleoprotein 40 kda protein (39 kDa, Protein from Homo sapiens)
Small nuclear ribonucleoprotein e (10 kDa, Protein from Homo sapiens)
Pre-mrna-splicing factor syf2 (28 kDa, Protein from Homo sapiens)
U2snrna (60 kDa, RNA from Homo sapiens)
Pre-mrna-splicing factor rbm22 (46 kDa, Protein from Homo sapiens)
Pre-mrna-processing-splicing factor 8 (273 kDa, Protein from Homo sapiens)
Pre-mrna (87 kDa, RNA from Homo sapiens)
Human intron lariat spliceosome (Complex from Homo sapiens)
Pre-mrna-processing factor 17 (65 kDa, Protein from Homo sapiens)
Crooked neck-like protein 1 (100 kDa, Protein from Homo sapiens)
U6snrna (34 kDa, RNA from Homo sapiens)
Guanosine-5'-triphosphate (523 Da, Ligand)
Small nuclear ribonucleoprotein sm d3 (13 kDa, Protein from Homo sapiens)
Small nuclear ribonucleoprotein g (8 kDa, Protein from Homo sapiens)
U5snrna (37 kDa, RNA from Homo sapiens)
Protein bud31 homolog (17 kDa, Protein from Homo sapiens)
116 kda u5 small nuclear ribonucleoprotein component (109 kDa, Protein from Homo sapiens)
Small nuclear ribonucleoprotein sm d2 (13 kDa, Protein from Homo sapiens)
Rna helicase aquarius (171 kDa, Protein from Homo sapiens)
Peptidyl-prolyl cis-trans isomerase-like 1 (18 kDa, Protein from Homo sapiens)
Snw domain-containing protein 1 (61 kDa, Protein from Homo sapiens)
U2 small nuclear ribonucleoprotein a' (28 kDa, Protein from Homo sapiens)
U2 small nuclear ribonucleoprotein b'' (25 kDa, Protein from Homo sapiens)
Small nuclear ribonucleoprotein sm d1 (13 kDa, Protein from Homo sapiens)
Magnesium ion (24 Da, Ligand)
Inositol hexakisphosphate (660 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)
Cell division cycle 5-like protein (92 kDa, Protein from Homo sapiens)
Cwf19-like protein 2 (103 kDa, Protein from Homo sapiens)
Pre-mrna-processing factor 19 (55 kDa, Protein from Homo sapiens)
Pre-mrna-splicing factor syf1 (100 kDa, Protein from Homo sapiens)
Pre-mrna-splicing factor spf27 (26 kDa, Protein from Homo sapiens)
Small nuclear ribonucleoprotein-associated protein (23 kDa, Protein from Homo sapiens)
Peptidyl-prolyl cis-trans isomerase e (33 kDa, Protein from Homo sapiens)
Spliceosome-associated protein cwc15 homolog (26 kDa, Protein from Homo sapiens)

[Show more]

EMD-9647

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Cryo-EM structure of a human intron lariat spliceosome after Prp43 loaded (ILS2 complex) at 2.9 angstrom resolution

Release date: March 13, 2019
Resolution: 2.86 Å
EM Method: Single-particle
Fitted PDBs: 6id1
Q-score: 0.291

Zhang X, Zhan X, Yan C, Zhang W, Liu D, Lei J, Shi Y

Cell Res (2019) 29 pp. 274-285 [ DOI: doi:10.1038/s41422-019-0143-x Pubmed: 30728453 ]

Sample:

U5 small nuclear ribonucleoprotein 40 kda protein (39 kDa, Protein from Homo sapiens)
Small nuclear ribonucleoprotein e (10 kDa, Protein from Homo sapiens)
Pre-mrna-splicing factor syf2 (28 kDa, Protein from Homo sapiens)
U2snrna (60 kDa, RNA from Homo sapiens)
Pre-mrna-splicing factor rbm22 (46 kDa, Protein from Homo sapiens)
Pre-mrna-processing-splicing factor 8 (273 kDa, Protein from Homo sapiens)
Pre-mrna (87 kDa, RNA from Homo sapiens)
Human intron lariat spliceosome (Complex from Homo sapiens)
Pre-mrna-processing factor 17 (65 kDa, Protein from Homo sapiens)
Crooked neck-like protein 1 (100 kDa, Protein from Homo sapiens)
U6snrna (34 kDa, RNA from Homo sapiens)
Guanosine-5'-triphosphate (523 Da, Ligand)
Small nuclear ribonucleoprotein sm d3 (13 kDa, Protein from Homo sapiens)
Small nuclear ribonucleoprotein g (8 kDa, Protein from Homo sapiens)
U5snrna (37 kDa, RNA from Homo sapiens)
Protein bud31 homolog (17 kDa, Protein from Homo sapiens)
116 kda u5 small nuclear ribonucleoprotein component (109 kDa, Protein from Homo sapiens)
Small nuclear ribonucleoprotein sm d2 (13 kDa, Protein from Homo sapiens)
Pre-mrna-splicing factor atp-dependent rna helicase dhx15 (91 kDa, Protein from Homo sapiens)
Rna helicase aquarius (171 kDa, Protein from Homo sapiens)
Peptidyl-prolyl cis-trans isomerase-like 1 (18 kDa, Protein from Homo sapiens)
Snw domain-containing protein 1 (61 kDa, Protein from Homo sapiens)
U2 small nuclear ribonucleoprotein a' (28 kDa, Protein from Homo sapiens)
U2 small nuclear ribonucleoprotein b'' (25 kDa, Protein from Homo sapiens)
Small nuclear ribonucleoprotein sm d1 (13 kDa, Protein from Homo sapiens)
Magnesium ion (24 Da, Ligand)
Inositol hexakisphosphate (660 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)
Cell division cycle 5-like protein (92 kDa, Protein from Homo sapiens)
Cwf19-like protein 2 (103 kDa, Protein from Homo sapiens)
Pre-mrna-processing factor 19 (55 kDa, Protein from Homo sapiens)
Pre-mrna-splicing factor syf1 (100 kDa, Protein from Homo sapiens)
Pre-mrna-splicing factor spf27 (26 kDa, Protein from Homo sapiens)
Small nuclear ribonucleoprotein-associated protein (23 kDa, Protein from Homo sapiens)
Peptidyl-prolyl cis-trans isomerase e (33 kDa, Protein from Homo sapiens)
Spliceosome-associated protein cwc15 homolog (26 kDa, Protein from Homo sapiens)

[Show more]

EMD-7109

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S. cerevisiae spliceosomal post-catalytic P complex

Release date: Feb. 21, 2018
Resolution: 3.3 Å
EM Method: Single-particle
Fitted PDBs: 6bk8
Q-score: 0.38

Liu S, Li X, Zhang L, Jiang J, Hill RC, Cui Y, Hansen KC, Zhou ZH, Zhao R

Science (2017) 358 pp. 1278-1283 [ DOI: doi:10.1126/science.aar3462 Pubmed: 29146870 ]

Sample:

Pre-mrna-splicing factor cwc2 (38 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Small nuclear ribonucleoprotein sm d3 (11 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
U5 snrna (68 kDa, RNA from Saccharomyces cerevisiae)
Small nuclear ribonucleoprotein e (10 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Msl1 (27 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 slu7 (44 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Unknown protein fragment (1 kDa, Protein from Saccharomyces cerevisiae)
U2 snrna (376 kDa, RNA from Saccharomyces cerevisiae)
U6 snrna (35 kDa, RNA from Saccharomyces cerevisiae)
Pre-mrna-splicing factor clf1 (82 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Spliceosomal p complex (Complex from Saccharomyces cerevisiae)
Guanosine-5'-triphosphate (523 Da, Ligand)
Rna (59-mer) (18 kDa, RNA from Saccharomyces cerevisiae)
Small nuclear ribonucleoprotein sm d1 (16 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Small nuclear ribonucleoprotein g (8 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Pre-mrna-splicing factor prp8 (279 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Pre-mrna-splicing factor prp46 (50 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Small nuclear ribonucleoprotein f (9 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Pre-mrna-splicing factor bud31 (18 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Pre-mrna-splicing factor cef1 (67 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Pre-mrna-processing protein 45 (42 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Pre-mrna-processing factor prp19 (56 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Pre-mrna-splicing factor prp18 (28 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Small nuclear ribonucleoprotein sm d2 (12 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Magnesium ion (24 Da, Ligand)
Rna (34-mer) (10 kDa, RNA from Saccharomyces cerevisiae)
Inositol hexakisphosphate (660 Da, Ligand)
Pre-mrna-splicing factor snu114 (114 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Small nuclear ribonucleoprotein-associated protein b (22 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Pre-mrna-processing factor prp17 (52 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Pre-mrna-splicing factor atp-dependent rna helicase prp22 (130 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Zinc ion (65 Da, Ligand)
Pre-mrna-splicing factor syf2 (24 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Pre-mrna-splicing factor snt309 (20 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Lea1 (12 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Pre-mrna-splicing factor cwc15 (19 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Pre-mrna-splicing factor syf1 (100 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 cwc22 (67 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Unknown protein fragment (18 kDa, Protein from Saccharomyces cerevisiae)

[Show more]

EMD-3545

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Cryo-EM structure of a human spliceosome activated for step 2 of splicing (C* complex)

Release date: March 22, 2017
Resolution: 5.9 Å
EM Method: Single-particle
Fitted PDBs: 5mqf
Q-score: 0.202

Bertram K, Agafonov DE, Liu WT, Dybkov O, Will CL, Hartmuth K, Urlaub H, Kastner B, Stark H, Lu Hrmann R

Nature (2017) 542 pp. 318-323 [ Pubmed: 28076346 DOI: doi:10.1038/nature21079 ]

Sample:

Snw domain-containing protein 1 (61 kDa, Protein from Human)
Small nuclear ribonucleoprotein sm d2 (13 kDa, Protein from Human)
Pleiotropic regulator 1 (57 kDa, Protein from Human)
Eukaryotic initiation factor 4a-iii (46 kDa, Protein from Human)
Human gene for small nuclear rna u2 (snrna u2) (60 kDa, RNA from Human)
Small nuclear ribonucleoprotein sm d1 (13 kDa, Protein from Human)
Peptidyl-prolyl cis-trans isomerase e (33 kDa, Protein from Human)
Protein bud31 homolog (17 kDa, Protein from Human)
Pre-mrna-splicing factor syf1 (100 kDa, Protein from Human)
Small nuclear ribonucleoprotein-associated proteins b and b' (24 kDa, Protein from Human)
Human c* spliceosome, masked refinement (Complex from Homo sapiens)
Cell division cycle 5-like protein (92 kDa, Protein from Human)
Crooked neck-like protein 1 (100 kDa, Protein from Human)
Pre-mrna-splicing factor spf27 (26 kDa, Protein from Human)
Small nuclear ribonucleoprotein g (8 kDa, Protein from Human)
Small nuclear ribonucleoprotein sm d3 (13 kDa, Protein from Human)
Pre-mrna-processing factor 17 (65 kDa, Protein from Human)
Homo sapiens rna, u6 small nuclear 1 (rnu6-1), small nuclear rna (34 kDa, RNA from Human)
Atp-dependent rna helicase dhx8 (139 kDa, Protein from Human)
Small nuclear ribonucleoprotein e (10 kDa, Protein from Human)
U5 small nuclear ribonucleoprotein 40 kda protein (39 kDa, Protein from Human)
Minx pre-mrna (intron) (104 kDa, RNA from Human)
Pre-mrna-processing factor 19 (55 kDa, Protein from Human)
U2 small nuclear ribonucleoprotein b'' (25 kDa, Protein from Human)
Intron-binding protein aquarius (173 kDa, Protein from Human)
116 kda u5 small nuclear ribonucleoprotein component (109 kDa, Protein from Human)
Pre-mrna-splicing factor cwc22 homolog (105 kDa, Protein from Human)
U2 small nuclear ribonucleoprotein a' (28 kDa, Protein from Human)
Homo sapiens u5 a small nuclear rna (36 kDa, RNA from Human)
Peptidyl-prolyl cis-trans isomerase-like 1 (18 kDa, Protein from Human)
Pre-mrna-processing-splicing factor 8 (273 kDa, Protein from Human)
Spliceosome-associated protein cwc15 homolog (26 kDa, Protein from Human)
Pre-mrna-splicing factor syf2 (28 kDa, Protein from Human)
Small nuclear ribonucleoprotein f (9 kDa, Protein from Human)
Pre-mrna-splicing factor rbm22 (46 kDa, Protein from Human)
Serine/arginine repetitive matrix protein 2 (300 kDa, Protein from Human)

[Show more]

Sort by: Download

Showing 1 - 5 of 5. Page 1 of 1

Display: Statistics

Download

Select database:

EMDB [5]

Format:

Select the script type:

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

Preview first 10

Field: