Saccharomyces cerevisiae spliceosomal E complex (UBC4)
Resolution: 3.6 Å
EM Method: Single-particle
Fitted PDBs: 6n7p
Q-score: 0.352
Li X, Liu S, Zhang L, Issaian A, Hill RC, Espinosa S, Shi S, Cui Y, Kappel K, Das R, Hansen KC, Zhou ZH, Zhao R
Nature (2019) 573 pp. 375-380 [ Pubmed: 31485080 DOI: doi:10.1038/s41586-019-1523-6 ]
- U1 small nuclear ribonucleoprotein 70 kda homolog (34 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- U1 small nuclear ribonucleoprotein component prp42 (65 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Nuclear cap-binding protein complex subunit 1 (100 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- U1 small nuclear ribonucleoprotein a (40 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Pre-mrna-processing factor 39 (74 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 e (10 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Pre-mrna-processing protein prp40 (69 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- 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))
- U1 small nuclear ribonucleoprotein c (27 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- U1 small nuclear ribonucleoprotein component snu71,u1 small nuclear ribonucleoprotein component snu71,snu71 (10 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- 56 kda u1 small nuclear ribonucleoprotein component (56 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Protein luc7 (30 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Small nuclear ribonucleoprotein f (9 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Small nuclear ribonucleoprotein sm d2 (12 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Nuclear cap-binding protein subunit 2 (23 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Protein nam8 (57 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))
- Zinc ion (65 Da, Ligand)
- U1 snrna (182 kDa, RNA from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Ubc4 pre-mrna (81 kDa, RNA from Saccharomyces cerevisiae S288C)
- Saccharomyces cerevisiae spliceosomal e complex (ebc4) (Complex from Saccharomyces cerevisiae)
Cryo-EM structure of the yeast B*-b1 complex at an average resolution of 3.86 angstrom
Resolution: 3.86 Å
EM Method: Single-particle
Fitted PDBs: 6j6n
Q-score: 0.248
Wan R, Bai R, Yan C, Lei J, Shi Y
Cell (2019) 177 pp. 339-351.e13 [ Pubmed: 30879786 DOI: doi:10.1016/j.cell.2019.02.006 ]
- U2 small nuclear ribonucleoprotein a' (27 kDa, Protein from Saccharomyces cerevisiae S288c)
- Ubc4 pre-mrna (78 kDa, RNA from Saccharomyces cerevisiae S288c)
- Small nuclear ribonucleoprotein g (8 kDa, Protein from Saccharomyces cerevisiae S288c)
- Small nuclear ribonucleoprotein f (9 kDa, Protein from Saccharomyces cerevisiae S288c)
- Pre-mrna-splicing factor cwc15 (19 kDa, Protein from Saccharomyces cerevisiae S288c)
- Pre-mrna-splicing factor cwc22 (67 kDa, Protein from Saccharomyces cerevisiae S288c)
- Pre-mrna-processing factor 19 (56 kDa, Protein from Saccharomyces cerevisiae S288c)
- Small nuclear ribonucleoprotein sm d3 (11 kDa, Protein from Saccharomyces cerevisiae S288c)
- U5 snrna (68 kDa, RNA from Saccharomyces cerevisiae S288c)
- Small nuclear ribonucleoprotein sm d1 (16 kDa, Protein from Saccharomyces cerevisiae S288c)
- Pre-mrna-splicing factor cef1 (67 kDa, Protein from Saccharomyces cerevisiae S288c)
- Small nuclear ribonucleoprotein sm d2 (12 kDa, Protein from Saccharomyces cerevisiae S288c)
- Guanosine-5'-triphosphate (523 Da, Ligand)
- Pre-mrna-splicing factor slt11 (40 kDa, Protein from Saccharomyces cerevisiae S288c)
- Pre-mrna-splicing factor isy1 (28 kDa, Protein from Saccharomyces cerevisiae S288c)
- Pre-mrna-splicing factor bud31 (18 kDa, Protein from Saccharomyces cerevisiae S288c)
- U6 snrna (35 kDa, RNA from Saccharomyces cerevisiae S288c)
- Pre-mrna-splicing factor clf1 (82 kDa, Protein from Saccharomyces cerevisiae S288c)
- Pre-mrna-processing protein 45 (42 kDa, Protein from Saccharomyces cerevisiae S288c)
- U2 small nuclear ribonucleoprotein b'' (12 kDa, Protein from Saccharomyces cerevisiae S288c)
- Pre-mrna-splicing factor snu114 (114 kDa, Protein from Saccharomyces cerevisiae S288c)
- Catalytically activated spliceosome b*-b1 complex (Complex from Saccharomyces cerevisiae S288C)
- Magnesium ion (24 Da, Ligand)
- Pre-mrna-splicing factor cwc21 (15 kDa, Protein from Saccharomyces cerevisiae S288c)
- Pre-mrna-splicing factor 8 (279 kDa, Protein from Saccharomyces cerevisiae S288c)
- Pre-mrna-splicing factor syf1 (100 kDa, Protein from Saccharomyces cerevisiae S288c)
- Pre-mrna-splicing factor cwc2 (38 kDa, Protein from Saccharomyces cerevisiae S288c)
- Pre-mrna-splicing factor snt309 (20 kDa, Protein from Saccharomyces cerevisiae S288c)
- Inositol hexakisphosphate (660 Da, Ligand)
- Zinc ion (65 Da, Ligand)
- U2 snrna (376 kDa, RNA from Saccharomyces cerevisiae S288c)
- Pre-mrna-splicing factor syf2 (24 kDa, Protein from Saccharomyces cerevisiae S288c)
- Pre-mrna-processing factor 17 (52 kDa, Protein from Saccharomyces cerevisiae S288c)
- Pre-mrna-splicing factor prp46 (50 kDa, Protein from Saccharomyces cerevisiae S288c)
- Small nuclear ribonucleoprotein e (10 kDa, Protein from Saccharomyces cerevisiae S288c)
- Small nuclear ribonucleoprotein-associated protein b (22 kDa, Protein from Saccharomyces cerevisiae S288c)
Cryo-EM structure of the yeast B*-b2 complex at an average resolution of 3.7 angstrom
Resolution: 3.7 Å
EM Method: Single-particle
Fitted PDBs: 6j6q
Q-score: 0.261
Wan R, Bai R, Yan C, Lei J, Shi Y
Cell (2019) 177 pp. 339-351.e13 [ Pubmed: 30879786 DOI: doi:10.1016/j.cell.2019.02.006 ]
- U2 small nuclear ribonucleoprotein b'' (12 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Ubc4 pre-mrna (78 kDa, RNA from Saccharomyces cerevisiae S288c)
- Pre-mrna-processing factor 17 (52 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Pre-mrna-splicing factor 8 (279 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- 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))
- Small nuclear ribonucleoprotein e (10 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- U5 snrna (68 kDa, RNA from Saccharomyces cerevisiae S288c)
- Pre-mrna-splicing factor cwc21 (15 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Pre-mrna-splicing factor clf1 (82 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Guanosine-5'-triphosphate (523 Da, Ligand)
- 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-processing factor 19 (56 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Pre-mrna-splicing factor isy1 (28 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Pre-mrna-splicing factor prp46 (50 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- U6 snrna (35 kDa, RNA from Saccharomyces cerevisiae 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))
- Small nuclear ribonucleoprotein sm d2 (12 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Magnesium ion (24 Da, Ligand)
- Splicing factor yju2 (32 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- 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))
- Zinc ion (65 Da, Ligand)
- Pre-mrna-splicing factor syf2 (24 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- U2 snrna (376 kDa, RNA from Saccharomyces cerevisiae S288c)
- Pre-mrna-splicing factor snt309 (20 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))
- Catalytically activated spliceosome b*-a2 complex (Complex from Saccharomyces cerevisiae S288c)
- Pre-mrna-splicing factor cwc22 (67 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Inositol hexakisphosphate (660 Da, Ligand)
- U2 small nuclear ribonucleoprotein a' (27 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Post-catalytic P complex spliceosome with 3' splice site docked
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 [ DOI: doi:10.1126/science.aar3729 Pubmed: 29146871 ]
- Small nuclear ribonucleoprotein sm d1 (16 kDa, Protein from Baker's yeast)
- U6 snrna (35 kDa, RNA from Baker's yeast)
- Pre-mrna-splicing factor prp8 (279 kDa, Protein from Baker's yeast)
- Small nuclear ribonucleoprotein f (9 kDa, Protein from Baker's yeast)
- Pre-mrna-splicing factor cwc22 (67 kDa, Protein from Baker's yeast)
- Pre-mrna-splicing factor slt11 (40 kDa, Protein from Baker's yeast)
- Pre-mrna-splicing factor cef1 (67 kDa, Protein from Baker's yeast)
- Unassigned structure (8 kDa, Protein from Baker's yeast)
- Pre-mrna-splicing factor cwc2 (38 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)
- Pre-mrna-splicing factor prp46 (50 kDa, Protein from Baker's yeast)
- Pre-mrna-splicing factor atp-dependent rna helicase prp22 (130 kDa, Protein from Baker's yeast)
- Pre-mrna-splicing factor cwc21 (15 kDa, Protein from Baker's yeast)
- U5 snrna (57 kDa, RNA from Baker's yeast)
- 3' exon (Complex from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Pre-mrna-splicing factor snu114 (114 kDa, Protein from Baker's yeast)
- Pre-mrna-splicing factor prp18 (28 kDa, Protein from Baker's yeast)
- Ligated exons: ubc4 mrna (12 kDa, RNA from Saccharomyces cerevisiae S288c)
- Pre-mrna-splicing factor clf1 (82 kDa, Protein from Baker's yeast)
- Small nuclear ribonucleoprotein sm d3 (11 kDa, Protein from Baker's yeast)
- Intron lariat: ubc4 rna (30 kDa, RNA from Saccharomyces cerevisiae S288c)
- Pre-mrna-splicing factor syf1 (100 kDa, Protein from Baker's yeast)
- Pre-mrna-splicing factor slu7 (44 kDa, Protein from Baker's yeast)
- Magnesium ion (24 Da, Ligand)
- U2 small nuclear ribonucleoprotein a' (27 kDa, Protein from Baker's yeast)
- Pre-mrna-processing factor prp19 (56 kDa, Protein from Baker's yeast)
- Zinc ion (65 Da, Ligand)
- U2 snrna (376 kDa, RNA from Saccharomyces cerevisiae S288c)
- Pre-mrna-splicing factor snt309 (20 kDa, Protein from Baker's yeast)
- Inositol hexakisphosphate (660 Da, Ligand)
- Small nuclear ribonucleoprotein sm d2 (12 kDa, Protein from Baker's yeast)
- Guanosine-5'-triphosphate (523 Da, Ligand)
- Pre-mrna-processing protein 45 (42 kDa, Protein from Baker's yeast)
- Pre-mrna-processing factor prp17 (52 kDa, Protein from Baker's yeast)
- P complex spliceosome with 3' exon docked (2 MDa, Complex)
- Pre-mrna-splicing factor syf2 (24 kDa, Protein from Baker's yeast)
- Small nuclear ribonucleoprotein-associated protein b (22 kDa, Protein from Baker's yeast)
- Small nuclear ribonucleoprotein g (8 kDa, Protein from Baker's yeast)
- P complex spliceosome (Complex from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Pre-mrna-splicing factor cwc15 (19 kDa, Protein from Baker's yeast)
- Pre-mrna-splicing factor bud31 (18 kDa, Protein from Baker's yeast)
- Pre-mrna-splicing factor cwc16 (32 kDa, Protein from Baker's yeast)