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)
Prespliceosome structure provides insight into spliceosome assembly and regulation (map A2)
Resolution: 4.0 Å
EM Method: Single-particle
Fitted PDBs: 6g90
Q-score: 0.152
Plaschka C, Lin PC, Charenton C, Nagai K
Nature (2018) 559 pp. 419-422 [ Pubmed: 29995849 DOI: doi:10.1038/s41586-018-0323-8 ]
- Small nuclear ribonucleoprotein f (9 kDa, Protein from Saccharomyces cerevisiae)
- Pre-mrna-splicing factor prp11,pre-mrna-splicing factor prp11,pre-mrna-splicing factor prp11 (29 kDa, Protein from Saccharomyces cerevisiae)
- Pre-mrna-splicing factor prp21 (33 kDa, Protein from Saccharomyces cerevisiae)
- Yeast ubc4 pre-mrna (mutant) (12 kDa, RNA from Saccharomyces cerevisiae)
- U2 snrna (45 kDa, RNA from Saccharomyces cerevisiae)
- U2 small nuclear ribonucleoprotein b'' (12 kDa, Protein from Saccharomyces cerevisiae)
- U2 small nuclear ribonucleoprotein a' (27 kDa, Protein from Saccharomyces cerevisiae)
- Small nuclear ribonucleoprotein sm d3 (11 kDa, Protein from Saccharomyces cerevisiae)
- Rds3 complex subunit 10 (10 kDa, Protein from Saccharomyces cerevisiae)
- Small nuclear ribonucleoprotein g (8 kDa, Protein from Saccharomyces cerevisiae)
- U1 snrna,u1 snrna,u1 snrna,u1 snrna,u1 snrna (126 kDa, RNA from Saccharomyces cerevisiae)
- Pre-mrna-splicing factor rds3 (12 kDa, Protein from Saccharomyces cerevisiae)
- U1 small nuclear ribonucleoprotein component prp42 (65 kDa, Protein from Saccharomyces cerevisiae)
- U2 snrnp component hsh155 (110 kDa, Protein from Saccharomyces cerevisiae)
- Pre-mrna-processing factor 39 (74 kDa, Protein from Saccharomyces cerevisiae)
- Small nuclear ribonucleoprotein-associated protein b (22 kDa, Protein from Saccharomyces cerevisiae)
- Protein luc7,protein luc7,protein luc7 (28 kDa, Protein from Saccharomyces cerevisiae)
- U1 small nuclear ribonucleoprotein c (27 kDa, Protein from Saccharomyces cerevisiae)
- U1 small nuclear ribonucleoprotein 70 kda homolog,u1 small nuclear ribonucleoprotein 70 kda homolog,u1 small nuclear ribonucleoprotein 70 kda homolog (33 kDa, Protein from Saccharomyces cerevisiae)
- Small nuclear ribonucleoprotein sm d1 (16 kDa, Protein from Saccharomyces cerevisiae)
- Prespliceosome a complex (1 MDa, Complex from Saccharomyces cerevisiae)
- Small nuclear ribonucleoprotein e (10 kDa, Protein from Saccharomyces cerevisiae)
- Protein hsh49 (24 kDa, Protein from Saccharomyces cerevisiae)
- Zinc ion (65 Da, Ligand)
- U1 small nuclear ribonucleoprotein component snu71 (71 kDa, Protein from Saccharomyces cerevisiae)
- Unknown (4 kDa, Protein from Saccharomyces cerevisiae)
- 56 kda u1 small nuclear ribonucleoprotein component (56 kDa, Protein from Saccharomyces cerevisiae)
- Protein nam8 (57 kDa, Protein from Saccharomyces cerevisiae)
- U1 small nuclear ribonucleoprotein a,u1 small nuclear ribonucleoprotein a,u1 small nuclear ribonucleoprotein a,u1 small nuclear ribonucleoprotein a,u1 small nuclear ribonucleoprotein a (33 kDa, Protein from Saccharomyces cerevisiae)
- Pre-mrna-splicing factor prp9 (63 kDa, Protein from Saccharomyces cerevisiae)
- Pre-mrna-splicing factor rse1 (153 kDa, Protein from Saccharomyces cerevisiae)
- Small nuclear ribonucleoprotein sm d2 (12 kDa, Protein from Saccharomyces cerevisiae)
- Cold sensitive u2 snrna suppressor 1 (50 kDa, Protein from Saccharomyces cerevisiae)
Structure of a pre-catalytic spliceosome (B2 map)
Resolution: 7.2 Å
EM Method: Single-particle
Fitted PDBs: 5nrl
Q-score: 0.117
Nature (2017) 546 pp. 617-621 [ Pubmed: 28530653 DOI: doi:10.1038/nature22799 ]
- Pre-mrna-splicing factor 6 (104 kDa, Protein from Saccharomyces cerevisiae)
- U6 snrna-associated sm-like protein lsm7 (13 kDa, Protein from Saccharomyces cerevisiae)
- Pre-mrna-splicing factor spp381 (33 kDa, Protein from Saccharomyces cerevisiae)
- Pre-mrna-splicing factor prp21 (33 kDa, Protein from Saccharomyces cerevisiae)
- Small nuclear ribonucleoprotein sm d3 (11 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Unknown (7 kDa, Protein from Saccharomyces cerevisiae)
- Rds3 complex subunit 10 (10 kDa, Protein from Saccharomyces cerevisiae )
- Small nuclear ribonucleoprotein e (10 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Pre-mrna-splicing factor prp11 (29 kDa, Protein from Saccharomyces cerevisiae)
- Small nuclear ribonucleoprotein f (9 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- U5 snrna (68 kDa, RNA from Saccharomyces cerevisiae)
- Yeast ubc4 gene for ubiquitin-conjugating enzyme (30 kDa, RNA from Saccharomyces cerevisiae)
- 23 kda u4/u6.u5 small nuclear ribonucleoprotein component (22 kDa, Protein from Saccharomyces cerevisiae)
- U2 small nuclear ribonucleoprotein a' (27 kDa, Protein from Saccharomyces cerevisiae)
- U2 small nuclear ribonucleoprotein b'' (12 kDa, Protein from Saccharomyces cerevisiae)
- U4/u6 small nuclear ribonucleoprotein prp3 (55 kDa, Protein from Saccharomyces cerevisiae)
- U2 snrna (376 kDa, RNA from Saccharomyces cerevisiae)
- U6 snrna (35 kDa, RNA from Saccharomyces cerevisiae)
- Pre-mrna-processing factor 31 (56 kDa, Protein from Saccharomyces cerevisiae)
- Pre-mrna-splicing factor rds3 (12 kDa, Protein from Saccharomyces cerevisiae)
- Guanosine-5'-triphosphate (523 Da, Ligand)
- U4/u6 small nuclear ribonucleoprotein prp4 (52 kDa, Protein from Saccharomyces cerevisiae)
- U6 snrna-associated sm-like protein lsm6 (9 kDa, Protein from Saccharomyces cerevisiae )
- Pre-mrna-splicing helicase brr2 (246 kDa, Protein from Saccharomyces cerevisiae)
- 66 kda u4/u6.u5 small nuclear ribonucleoprotein component (66 kDa, Protein from Saccharomyces cerevisiae)
- Small nuclear ribonucleoprotein sm d1 (16 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- 13 kda ribonucleoprotein-associated protein (13 kDa, Protein from Saccharomyces cerevisiae)
- Spliceosomal protein dib1 (16 kDa, Protein from Saccharomyces cerevisiae)
- Small nuclear ribonucleoprotein-associated protein b (22 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Small nuclear ribonucleoprotein g (8 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- U6 snrna-associated sm-like protein lsm3 (10 kDa, Protein from Saccharomyces cerevisiae)
- Pre-mrna-splicing factor 8 (279 kDa, Protein from Saccharomyces cerevisiae)
- Protein hsh49 (24 kDa, Protein from Saccharomyces cerevisiae)
- Pre-mrna-splicing factor snu114 (114 kDa, Protein from Saccharomyces cerevisiae)
- Pre-mrna-splicing factor 38 (27 kDa, Protein from Saccharomyces cerevisiae)
- Pre-catalytic b complex spliceosome (2 MDa, Complex from Saccharomyces cerevisiae)
- Zinc ion (65 Da, Ligand)
- U6 snrna-associated sm-like protein lsm4 (21 kDa, Protein from Saccharomyces cerevisiae )
- U6 snrna-associated sm-like protein lsm8 (12 kDa, Protein from Saccharomyces cerevisiae)
- Pre-mrna-splicing factor prp9 (63 kDa, Protein from Saccharomyces cerevisiae)
- U4 snrna (51 kDa, RNA from Saccharomyces cerevisiae)
- Pre-mrna-splicing factor rse1 (153 kDa, Protein from Saccharomyces cerevisiae)
- U2 snrnp component hsh155 (110 kDa, Protein from Saccharomyces cerevisiae)
- Small nuclear ribonucleoprotein sm d2 (12 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- U6 snrna-associated sm-like protein lsm5 (10 kDa, Protein from Saccharomyces cerevisiae)
- U6 snrna-associated sm-like protein lsm2 (11 kDa, Protein from Saccharomyces cerevisiae)
- Cold sensitive u2 snrna suppressor 1 (50 kDa, Protein from Saccharomyces cerevisiae)
Structure of a spliceosome remodeled for exon ligation
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 ]
- Small nuclear ribonucleoprotein f (9 kDa, Protein from Saccharomyces cerevisiae)
- Ubc4 gene exon (6 kDa, RNA from Saccharomyces cerevisiae)
- Pre-mrna-splicing factor slu7 (44 kDa, Protein from Saccharomyces cerevisiae)
- Pre-mrna-splicing factor bud31 (18 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)
- Pre-mrna-splicing factor slt11 (40 kDa, Protein from Saccharomyces cerevisiae)
- Pre-mrna-splicing factor cwc22 (67 kDa, Protein from Saccharomyces cerevisiae)
- Yeast ubc4 gene for ubiquitin-conjugating enzyme (30 kDa, RNA from Saccharomyces cerevisiae)
- Small nuclear ribonucleoprotein sm d3 (11 kDa, Protein from Saccharomyces cerevisiae)
- Small nuclear ribonucleoprotein g (8 kDa, Protein from Saccharomyces cerevisiae)
- U2 snrna (376 kDa, RNA from Saccharomyces cerevisiae)
- Potassium ion (39 Da, Ligand)
- Pre-mrna-processing protein 45 (42 kDa, Protein from Saccharomyces cerevisiae)
- Guanosine-5'-triphosphate (523 Da, Ligand)
- Unknown (5 kDa, Protein from Saccharomyces cerevisiae)
- Pre-mrna-splicing factor cwc21 (15 kDa, Protein from Saccharomyces cerevisiae)
- Pre-mrna-splicing factor clf1 (82 kDa, Protein from Saccharomyces cerevisiae)
- Pre-mrna-splicing factor cwc15 (19 kDa, Protein from Saccharomyces cerevisiae)
- U5 snrna (57 kDa, RNA from Saccharomyces cerevisiae)
- Pre-mrna-processing factor 17 (52 kDa, Protein from Saccharomyces cerevisiae)
- Small nuclear ribonucleoprotein-associated protein b (22 kDa, Protein from Saccharomyces cerevisiae)
- Magnesium ion (24 Da, Ligand)
- Small nuclear ribonucleoprotein sm d1 (16 kDa, Protein from Saccharomyces cerevisiae)
- Inositol hexakisphosphate (660 Da, Ligand)
- Pre-mrna-splicing factor cwc2 (38 kDa, Protein from Saccharomyces cerevisiae)
- Small nuclear ribonucleoprotein e (10 kDa, Protein from Saccharomyces cerevisiae)
- Pre-mrna-splicing factor 8 (279 kDa, Protein from Saccharomyces cerevisiae)
- Pre-mrna-splicing factor syf2 (24 kDa, Protein from Saccharomyces cerevisiae)
- Pre-mrna-splicing factor snu114 (114 kDa, Protein from Saccharomyces cerevisiae)
- Zinc ion (65 Da, Ligand)
- Saccharomyces cerevisiae strain t.52_2h chromosome xii sequence (35 kDa, RNA from Saccharomyces cerevisiae)
- Saccharomyces cerevisiae spliceosome. complex c just after prp16-mediated remodeling (Complex)
- Pre-mrna-splicing factor syf1 (101 kDa, Protein from Saccharomyces cerevisiae)
- Pre-mrna-splicing factor prp46 (50 kDa, Protein from Saccharomyces cerevisiae)
- Small nuclear ribonucleoprotein sm d2 (12 kDa, Protein from Saccharomyces cerevisiae)
Structure of a spliceosome remodeled for exon ligation
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 ]
- Small nuclear ribonucleoprotein f (9 kDa, Protein from Saccharomyces cerevisiae)
- Pre-mrna-splicing factor slu7 (44 kDa, Protein from Saccharomyces cerevisiae)
- Pre-mrna-splicing factor bud31 (18 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)
- Unknown protein (5 kDa, Protein from Saccharomyces cerevisiae)
- Saccharomyces cerevisiae strain wi_c_mbsp_4 chromosome vii sequence (57 kDa, RNA from Saccharomyces cerevisiae)
- Pre-mrna-splicing factor slt11 (40 kDa, Protein from Saccharomyces cerevisiae)
- Pre-mrna-splicing factor cwc22 (67 kDa, Protein from Saccharomyces cerevisiae)
- Yeast ubc4 gene for ubiquitin-conjugating enzyme (30 kDa, RNA from Saccharomyces cerevisiae)
- U2 small nuclear ribonucleoprotein b'' (12 kDa, Protein from Saccharomyces cerevisiae)
- U2 small nuclear ribonucleoprotein a' (27 kDa, Protein from Saccharomyces cerevisiae)
- Small nuclear ribonucleoprotein sm d3 (11 kDa, Protein from Saccharomyces cerevisiae)
- Small nuclear ribonucleoprotein g (8 kDa, Protein from Saccharomyces cerevisiae)
- 3'-exon of ubc4 pre-mrna, bound by prp22 helicase (873 Da, RNA from Saccharomyces cerevisiae)
- Potassium ion (39 Da, Ligand)
- Pre-mrna-processing protein 45 (42 kDa, Protein from Saccharomyces cerevisiae)
- Guanosine-5'-triphosphate (523 Da, Ligand)
- Pre-mrna-splicing factor cwc21 (15 kDa, Protein from Saccharomyces cerevisiae)
- Pre-mrna-splicing factor clf1 (82 kDa, Protein from Saccharomyces cerevisiae)
- Pre-mrna-splicing factor cwc15 (19 kDa, Protein from Saccharomyces cerevisiae)
- Pre-mrna-splicing factor snt309 (20 kDa, Protein from Saccharomyces cerevisiae)
- Pre-mrna-processing factor 19 (56 kDa, Protein from Saccharomyces cerevisiae)
- Pre-mrna-processing factor 17 (52 kDa, Protein from Saccharomyces cerevisiae)
- Small nuclear ribonucleoprotein-associated protein b (22 kDa, Protein from Saccharomyces cerevisiae)
- Pre-mrna-splicing factor atp-dependent rna helicase prp22 (130 kDa, Protein from Saccharomyces cerevisiae)
- Magnesium ion (24 Da, Ligand)
- Small nuclear ribonucleoprotein sm d1 (16 kDa, Protein from Saccharomyces cerevisiae)
- Inositol hexakisphosphate (660 Da, Ligand)
- Pre-mrna-splicing factor cwc2 (38 kDa, Protein from Saccharomyces cerevisiae)
- Small nuclear ribonucleoprotein e (10 kDa, Protein from Saccharomyces cerevisiae)
- Pre-mrna-splicing factor 8 (279 kDa, Protein from Saccharomyces cerevisiae)
- Pre-mrna-splicing factor syf2 (24 kDa, Protein from Saccharomyces cerevisiae)
- Pre-mrna-splicing factor snu114 (114 kDa, Protein from Saccharomyces cerevisiae)
- Zinc ion (65 Da, Ligand)
- Saccharomyces cerevisiae strain t.52_2h chromosome xii sequence (35 kDa, RNA from Saccharomyces cerevisiae)
- Pre-mrna-splicing factor syf1,pre-mrna-splicing factor syf1 (101 kDa, Protein from Saccharomyces cerevisiae)
- Saccharomyces cerevisiae spliceosome. complex c just after prp16-mediated remodeling (Complex)
- S.cerevisiae chromosome ii reading frame orf ybr230c (376 kDa, RNA from Saccharomyces cerevisiae)
- 5'-exon of ubc4 pre-mrna (6 kDa, RNA from Saccharomyces cerevisiae)
- Pre-mrna-splicing factor prp46 (50 kDa, Protein from Saccharomyces cerevisiae)
- Small nuclear ribonucleoprotein sm d2 (12 kDa, Protein from Saccharomyces cerevisiae)
Structure of a spliceosome remodeled for exon ligation
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 ]
- Pre-mrna-splicing factor cwc22 (67 kDa, Protein from Baker's yeast)
- Small nuclear ribonucleoprotein g (8 kDa, Protein from Baker's yeast)
- Pre-mrna-processing protein 45 (42 kDa, Protein from Baker's yeast)
- Pre-mrna-splicing factor slt11 (40 kDa, Protein from Baker's yeast)
- Pre-mrna-splicing factor cwc15 (19 kDa, Protein from Baker's yeast)
- Pre-mrna-splicing factor clf1 (82 kDa, Protein from Baker's yeast)
- Pre-mrna-splicing factor 18 (28 kDa, Protein from Baker's yeast)
- Small nuclear ribonucleoprotein sm d1 (16 kDa, Protein from Baker's yeast)
- U2 small nuclear ribonucleoprotein a' (27 kDa, Protein from Baker's yeast)
- Pre-mrna-splicing factor slu7 (44 kDa, Protein from Baker's yeast)
- U2 small nuclear ribonucleoprotein b'' (12 kDa, Protein from Baker's yeast)
- Potassium ion (39 Da, Ligand)
- Small nuclear ribonucleoprotein sm d2 (12 kDa, Protein from Baker's yeast)
- Pre-mrna-splicing factor 8 (279 kDa, Protein from Baker's yeast)
- 3'exon of ubc4 pre-mrna bound to prp22 helicase (873 Da, RNA from Saccharomyces cerevisiae)
- Pre-mrna-splicing factor bud31 (18 kDa, Protein from Baker's yeast)
- Intron of ubc4 pre-mrna (30 kDa, RNA from Saccharomyces cerevisiae)
- Pre-mrna-splicing factor cwc21 (15 kDa, Protein from Baker's yeast)
- Pre-mrna-splicing factor snu114 (114 kDa, Protein from Baker's yeast)
- U6 snrna (35 kDa, RNA from Baker's yeast)
- Small nuclear ribonucleoprotein-associated protein b (22 kDa, Protein from Baker's yeast)
- Small nuclear ribonucleoprotein e (10 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 syf1 (100 kDa, Protein from Baker's yeast)
- Small nuclear ribonucleoprotein f (9 kDa, Protein from Baker's yeast)
- Magnesium ion (24 Da, Ligand)
- Pre-mrna-splicing factor syf2 (24 kDa, Protein from Baker's yeast)
- 5'exon of ubc4 pre-mrna (6 kDa, RNA from Saccharomyces cerevisiae)
- Zinc ion (65 Da, Ligand)
- Inositol hexakisphosphate (660 Da, Ligand)
- Pre-mrna-splicing factor cef1 (67 kDa, Protein from Baker's yeast)
- Pre-mrna-splicing factor cwc2 (38 kDa, Protein from Baker's yeast)
- Guanosine-5'-triphosphate (523 Da, Ligand)
- Unknown protein (5 kDa, Protein from Baker's yeast)
- U5 snrna (57 kDa, RNA from Baker's yeast)
- Saccharomyces cerevisiae spliceosome. complex c just after prp16-mediated remodeling (Complex)
- Small nuclear ribonucleoprotein sm d3 (11 kDa, Protein from Baker's yeast)
- Pre-mrna-processing factor 17 (52 kDa, Protein from Baker's yeast)
- U2 snrna (376 kDa, RNA from Baker's yeast)
Structure of the yeast spliceosome immediately after branching. 3D class containing helicase module.
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 ]
- Pre-mrna-splicing factor isy1 (28 kDa, Protein from Saccharomyces cerevisiae)
- Small nuclear ribonucleoprotein f (9 kDa, Protein from Saccharomyces cerevisiae)
- Pre-mrna-splicing factor bud31 (18 kDa, Protein from Saccharomyces cerevisiae)
- Pre-mrna-splicing factor cef1 (67 kDa, Protein from Saccharomyces cerevisiae)
- Spliceosome immediately after branching (2 MDa, Complex from Saccharomyces cerevisiae)
- U2 snrna (small nuclear rna) (376 kDa, RNA from Saccharomyces cerevisiae)
- Pre-mrna-splicing factor cwc25 (20 kDa, Protein from Saccharomyces cerevisiae)
- Pre-mrna-splicing factor slt11 (40 kDa, Protein from Saccharomyces cerevisiae)
- U2 small nuclear ribonucleoprotein b'' (12 kDa, Protein from Saccharomyces cerevisiae)
- U2 small nuclear ribonucleoprotein a' (27 kDa, Protein from Saccharomyces cerevisiae)
- Unknown (16 kDa, Protein from Saccharomyces cerevisiae)
- Small nuclear ribonucleoprotein sm d3 (11 kDa, Protein from Saccharomyces cerevisiae)
- Small nuclear ribonucleoprotein g (8 kDa, Protein from Saccharomyces cerevisiae)
- Pre-mrna-processing protein 45 (42 kDa, Protein from Saccharomyces cerevisiae)
- Guanosine-5'-triphosphate (523 Da, Ligand)
- Pre-mrna-splicing factor atp-dependent rna helicase prp16 (121 kDa, Protein from Saccharomyces cerevisiae)
- Exon 1 (5' exon) of ubc4 pre-mrna (5 kDa, RNA from Saccharomyces cerevisiae)
- U5 snrna (small nuclear rna) (57 kDa, RNA from Saccharomyces cerevisiae)
- Pre-mrna-splicing factor cwc21 (15 kDa, Protein from Saccharomyces cerevisiae)
- Pre-mrna-splicing helicase brr2 (246 kDa, Protein from Saccharomyces cerevisiae)
- Pre-mrna-splicing factor clf1 (82 kDa, Protein from Saccharomyces cerevisiae)
- Pre-mrna-processing factor 19 (56 kDa, Protein from Saccharomyces cerevisiae)
- Pre-mrna-splicing factor snt309 (20 kDa, Protein from Saccharomyces cerevisiae)
- Intron of ubc4 pre-mrna (24 kDa, RNA from Saccharomyces cerevisiae)
- Pre-mrna-splicing factor syf1 (100 kDa, Protein from Saccharomyces cerevisiae)
- Small nuclear ribonucleoprotein-associated protein b (22 kDa, Protein from Saccharomyces cerevisiae)
- Protein cwc16 (32 kDa, Protein from Saccharomyces cerevisiae)
- Magnesium ion (24 Da, Ligand)
- U6 snrna (small nuclear rna) (35 kDa, RNA from Saccharomyces cerevisiae)
- Small nuclear ribonucleoprotein sm d1 (16 kDa, Protein from Saccharomyces cerevisiae)
- Pre-mrna-splicing factor cwc2 (38 kDa, Protein from Saccharomyces cerevisiae)
- Small nuclear ribonucleoprotein e (10 kDa, Protein from Saccharomyces cerevisiae)
- Pre-mrna-splicing factor 8 (279 kDa, Protein from Saccharomyces cerevisiae)
- Cwc22 (69 kDa, Protein from Saccharomyces cerevisiae)
- Pre-mrna-splicing factor snu114 (114 kDa, Protein from Saccharomyces cerevisiae)
- Zinc ion (65 Da, Ligand)
- Cwc15 (19 kDa, Protein from Saccharomyces cerevisiae)
- Pre-mrna-splicing factor prp46 (50 kDa, Protein from Saccharomyces cerevisiae)
- Small nuclear ribonucleoprotein sm d2 (12 kDa, Protein from Saccharomyces cerevisiae)
Overall map of the yeast spliceosome immediately after branching
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 ]
- Small nuclear ribonucleoprotein f (9 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)
- Spliceosome immediately after branching (2 MDa, Complex from Saccharomyces cerevisiae)
- U2 snrna (small nuclear rna) (376 kDa, RNA from Saccharomyces cerevisiae)
- Small nuclear ribonucleoprotein sm d3 (11 kDa, Protein from Saccharomyces cerevisiae )
- Small nuclear ribonucleoprotein sm d1 (16 kDa, Protein from Saccharomyces cerevisiae )
- U2 small nuclear ribonucleoprotein a' (27 kDa, Protein from Saccharomyces cerevisiae)
- U2 small nuclear ribonucleoprotein b'' (12 kDa, Protein from Saccharomyces cerevisiae )
- Pre-mrna-processing protein 45 (42 kDa, Protein from Saccharomyces cerevisiae)
- Pre-mrna-splicing factor snu114 (114 kDa, Protein from Saccharomyces cerevisiae )
- Small nuclear ribonucleoprotein sm d2 (12 kDa, Protein from Saccharomyces cerevisiae )
- Pre-mrna-splicing factor cwc21 (15 kDa, Protein from Saccharomyces cerevisiae )
- Guanosine-5'-triphosphate (523 Da, Ligand)
- Exon 1 (5' exon) of ubc4 pre-mrna (5 kDa, RNA from Saccharomyces cerevisiae)
- Unknown (11 kDa, Protein from Saccharomyces cerevisiae)
- Clf1 (82 kDa, Protein from Saccharomyces cerevisiae)
- U5 snrna (small nuclear rna) (57 kDa, RNA from Saccharomyces cerevisiae)
- Cef1 (67 kDa, Protein from Saccharomyces cerevisiae)
- Intron of ubc4 pre-mrna (24 kDa, RNA from Saccharomyces cerevisiae)
- Pre-mrna-splicing factor cwc25 (20 kDa, Protein from Saccharomyces cerevisiae )
- Small nuclear ribonucleoprotein g (8 kDa, Protein from Saccharomyces cerevisiae )
- Protein cwc16 (32 kDa, Protein from Saccharomyces cerevisiae )
- Small nuclear ribonucleoprotein e (10 kDa, Protein from Saccharomyces cerevisiae )
- Magnesium ion (24 Da, Ligand)
- U6 snrna (small nuclear rna) (35 kDa, RNA from Saccharomyces cerevisiae)
- Cwc22 (69 kDa, Protein from Saccharomyces cerevisiae)
- Prp46 (50 kDa, Protein from Saccharomyces cerevisiae)
- Zinc ion (65 Da, Ligand)
- Cwc15 (19 kDa, Protein from Saccharomyces cerevisiae)
- Isy1 (28 kDa, Protein from Saccharomyces cerevisiae)
- Pre-mrna-splicing factor 8 (279 kDa, Protein from Saccharomyces cerevisiae )
- Syf1 (100 kDa, Protein from Saccharomyces cerevisiae)
- Small nuclear ribonucleoprotein-associated protein b (22 kDa, Protein from Saccharomyces cerevisiae )
- Cwc2 (38 kDa, Protein from Saccharomyces cerevisiae)