Yeast post-catalytic P complex spliceosome, state I, overall map
Resolution: 2.31 Å
EM Method: Single-particle
Fitted PDBs: 9dtr
Q-score: 0.419
Senn KA, Lipinski KA, Zeps NJ, Griffin AF, Wilkinson ME, Hoskins AA
bioRxiv (2024) [ Pubmed: 38746449 DOI: doi:10.1101/2024.05.04.592262 ]
- Pre-mrna-splicing factor atp-dependent rna helicase prp22 (130 kDa, Protein from Saccharomyces cerevisiae)
- Pre-mrna-splicing factor cwc2 (38 kDa, Protein from Saccharomyces cerevisiae)
- U2 small nuclear ribonucleoprotein a' (27 kDa, Protein from Saccharomyces cerevisiae)
- Small nuclear ribonucleoprotein sm d1 (16 kDa, Protein from Saccharomyces cerevisiae)
- U6 snrna (35 kDa, RNA from Saccharomyces cerevisiae)
- Pre-mrna-splicing factor ntc20 (15 kDa, Protein from Saccharomyces cerevisiae)
- Small nuclear ribonucleoprotein-associated protein b (22 kDa, Protein from Saccharomyces cerevisiae)
- Pre-mrna-splicing factor cwc15 (19 kDa, Protein from Saccharomyces cerevisiae)
- Guanosine-5'-triphosphate (523 Da, Ligand)
- Small nuclear ribonucleoprotein g (8 kDa, Protein from Saccharomyces cerevisiae)
- Pre-mrna-splicing factor cwc22 (67 kDa, Protein from Saccharomyces cerevisiae)
- Zinc ion (65 Da, Ligand)
- Pre-mrna-splicing factor slt11 (40 kDa, Protein from Saccharomyces cerevisiae)
- Pre-mrna-processing protein 45 (42 kDa, Protein from Saccharomyces cerevisiae)
- Yeast post-catalytic p complex spliceosome (2 MDa, Complex from Saccharomyces cerevisiae)
- Inositol hexakisphosphate (660 Da, Ligand)
- Ubc4 mrna spliced exons (13 kDa, RNA from Saccharomyces cerevisiae)
- Protein fyv6 (20 kDa, Protein from Saccharomyces cerevisiae)
- U2 snrna (376 kDa, RNA from Saccharomyces cerevisiae)
- Pre-mrna-splicing factor isy1 (28 kDa, Protein from Saccharomyces cerevisiae)
- Pre-mrna-splicing factor syf1 (100 kDa, Protein from Saccharomyces cerevisiae)
- Potassium ion (39 Da, Ligand)
- Pre-mrna-splicing factor prp46 (50 kDa, Protein from Saccharomyces cerevisiae)
- Water (18 Da, Ligand)
- Pre-mrna-splicing factor clf1 (82 kDa, Protein from Saccharomyces cerevisiae)
- Ubc4 lariat-intron (30 kDa, RNA from Saccharomyces cerevisiae)
- Pre-mrna-splicing factor slu7 (44 kDa, Protein from Saccharomyces cerevisiae)
- Small nuclear ribonucleoprotein f (9 kDa, Protein from Saccharomyces cerevisiae)
- Small nuclear ribonucleoprotein sm d2 (12 kDa, Protein from Saccharomyces cerevisiae)
- Small nuclear ribonucleoprotein sm d3 (11 kDa, Protein from Saccharomyces cerevisiae)
- U5 snrna (68 kDa, RNA from Saccharomyces cerevisiae)
- Pre-mrna-processing factor 17 (52 kDa, Protein from Saccharomyces cerevisiae)
- Pre-mrna-splicing factor cwc21 (15 kDa, Protein from Saccharomyces cerevisiae)
- Pre-mrna-splicing factor bud31 (18 kDa, Protein from Saccharomyces cerevisiae)
- U2 small nuclear ribonucleoprotein b'' (12 kDa, Protein 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 factor snu114 (114 kDa, Protein from Saccharomyces cerevisiae)
- Pre-mrna-splicing factor 18 (28 kDa, Protein from Saccharomyces cerevisiae)
- Magnesium ion (24 Da, Ligand)
- Small nuclear ribonucleoprotein e (10 kDa, Protein from Saccharomyces cerevisiae)
- Pre-mrna-splicing factor cef1 (67 kDa, Protein from Saccharomyces cerevisiae)
- Pre-mrna-splicing factor syf2 (24 kDa, Protein from Saccharomyces cerevisiae)
- Pre-mrna-processing factor 19 (56 kDa, Protein from Saccharomyces cerevisiae)
cryo-EM structures of Ufd4 in complex with Ubc4-Ub
Resolution: 3.52 Å
EM Method: Single-particle
Fitted PDBs: 8j1r
Q-score: 0.4
Mao JX, Ai HS, Wu XW, Cai HY, Pan M, Liu L
To Be Published
- Ufd4 (Complex)
- Ubiquitin fusion degradation protein 4 (168 kDa, Protein from Saccharomyces cerevisiae)
- Ubiquitin-conjugating enzyme e2 4 (16 kDa, Protein from Saccharomyces cerevisiae)
- Ubc4 (Complex)
- Ufd4 in complex with ubc4-ub (Complex from Saccharomyces cerevisiae)
Cryo-EM structure of BRCA1/BARD1 bound to H2AK127-UbcH5c-Ub nucleosome
Resolution: 3.87 Å
EM Method: Single-particle
Fitted PDBs: 8grq
Q-score: 0.352
Ai HS, Tong Z, Deng Z, Tian J, Zhang L, Sun M, Du Y, Xu Z, Shi Q, Liang L, Zheng Q, Li JB, Pan M, Liu L
Chem (2023) [ DOI: doi:10.1016/j.chempr.2023.01.012 ]
- Ubiquitin-conjugating enzyme e2d 3 (ubc4/5 homolog, yeast), isoform cra_a (16 kDa, Protein from Homo sapiens)
- Histone h2a type 1-h (12 kDa, Protein from Homo sapiens)
- Histone h3 (11 kDa, Protein from Homo sapiens)
- Dna (147-mer) (45 kDa, DNA from Homo sapiens)
- H2b (20 kDa, Protein from Homo sapiens)
- Dna (147-mer) (45 kDa, DNA from Homo sapiens)
- Breast cancer type 1 susceptibility protein (10 kDa, Protein from Homo sapiens)
- Histone h4 (9 kDa, Protein from Homo sapiens)
- Brca1-associated ring domain protein 1 (10 kDa, Protein from Homo sapiens)
- Complex of brca1/bard1 and h2ak127-ubch5c-ub nucleosome (Complex from Homo sapiens)
- Zinc ion (65 Da, Ligand)
Yeast C complex spliceosome at 2.8 Angstrom resolution with Prp18/Slu7 bound, composite map
Resolution: 2.8 Å
EM Method: Single-particle
Fitted PDBs: 7b9v
Q-score: 0.378
Wilkinson ME, Fica SM, Galej WP, Nagai K
Mol Cell (2021) 81 pp. 1439- [ Pubmed: 33705709 DOI: doi:10.1016/j.molcel.2021.02.021 ]
- Unassigned structure (20 kDa, Protein from Saccharomyces cerevisiae)
- Pre-mrna-splicing factor cwc2 (38 kDa, Protein from Saccharomyces cerevisiae)
- Small nuclear ribonucleoprotein sm d1 (16 kDa, Protein from Saccharomyces cerevisiae)
- U6 snrna (35 kDa, RNA from Saccharomyces cerevisiae)
- Pre-mrna-splicing factor isy1 (27 kDa, Protein from Saccharomyces cerevisiae)
- Syf1 isoform 1 (100 kDa, Protein from Saccharomyces cerevisiae)
- Clf1 isoform 1 (82 kDa, Protein from Saccharomyces cerevisiae)
- Small nuclear ribonucleoprotein-associated protein b (22 kDa, Protein from Saccharomyces cerevisiae)
- Pre-mrna-splicing factor cwc15 (19 kDa, Protein from Saccharomyces cerevisiae)
- Guanosine-5'-triphosphate (523 Da, Ligand)
- Small nuclear ribonucleoprotein g (8 kDa, Protein from Saccharomyces cerevisiae)
- Ntc20 isoform 1 (15 kDa, Protein from Saccharomyces cerevisiae)
- 5' exon of ubc4 mrna (15 kDa, RNA from Saccharomyces cerevisiae)
- Cwc22 isoform 1 (67 kDa, Protein from Saccharomyces cerevisiae)
- Cdc40 isoform 1 (52 kDa, Protein from Saccharomyces cerevisiae)
- Zinc ion (65 Da, Ligand)
- Pre-mrna-splicing factor slt11 (40 kDa, Protein from Saccharomyces cerevisiae)
- Pre-mrna-processing protein 45 (42 kDa, Protein from Saccharomyces cerevisiae)
- Snt309 isoform 1 (20 kDa, Protein from Saccharomyces cerevisiae)
- Hlj1_g0053790.mrna.1.cds.1 (27 kDa, Protein from Saccharomyces cerevisiae)
- U2 snrna (376 kDa, RNA from Saccharomyces cerevisiae)
- Splicing factor yju2 (33 kDa, Protein from Saccharomyces cerevisiae)
- Potassium ion (39 Da, Ligand)
- Bud31 isoform 1 (18 kDa, Protein from Saccharomyces cerevisiae)
- D-chiro inositol hexakisphosphate (660 Da, Ligand)
- Yeast c complex spliceosome with prp18/slu7 bound (2 MDa, Complex from Saccharomyces cerevisiae)
- Pre-mrna-splicing factor slu7 (44 kDa, Protein from Saccharomyces cerevisiae)
- Small nuclear ribonucleoprotein f (9 kDa, Protein from Saccharomyces cerevisiae)
- Small nuclear ribonucleoprotein sm d2 (12 kDa, Protein from Saccharomyces cerevisiae)
- Small nuclear ribonucleoprotein sm d3 (11 kDa, Protein from Saccharomyces cerevisiae)
- U5 snrna (68 kDa, RNA from Saccharomyces cerevisiae)
- Bj4_g0054360.mrna.1.cds.1 (50 kDa, Protein from Saccharomyces cerevisiae)
- Y55_g0042700.mrna.1.cds.1 (67 kDa, Protein from Saccharomyces cerevisiae)
- Branched intron and 3' exon of ubc4 pre-mrna (30 kDa, RNA from Saccharomyces cerevisiae)
- Pre-mrna-splicing factor cwc21 (15 kDa, Protein from Saccharomyces cerevisiae)
- Pre-mrna-splicing factor 8 (279 kDa, Protein from Saccharomyces cerevisiae)
- Pre-mrna-splicing factor snu114 (114 kDa, Protein from Saccharomyces cerevisiae)
- Pre-mrna-splicing factor cwc25 (20 kDa, Protein from Saccharomyces cerevisiae)
- Pre-mrna-splicing helicase brr2 (246 kDa, Protein from Saccharomyces cerevisiae)
- Pre-mrna-splicing factor 18 (28 kDa, Protein from Saccharomyces cerevisiae)
- Magnesium ion (24 Da, Ligand)
- Small nuclear ribonucleoprotein e (10 kDa, Protein from Saccharomyces cerevisiae)
- Bj4_g0027490.mrna.1.cds.1 (12 kDa, Protein from Saccharomyces cerevisiae)
- Pre-mrna-splicing factor atp-dependent rna helicase prp16 (121 kDa, Protein from Saccharomyces cerevisiae)
- Pre-mrna-splicing factor syf2 (24 kDa, Protein from Saccharomyces cerevisiae)
- Pre-mrna-processing factor 19 (56 kDa, Protein from Saccharomyces cerevisiae)
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 ]
- Ubc4 pre-mrna (81 kDa, RNA from Saccharomyces cerevisiae S288C)
- Small nuclear ribonucleoprotein sm d3 (11 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- U1 small nuclear ribonucleoprotein 70 kda homolog (34 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Small nuclear ribonucleoprotein f (9 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Zinc ion (65 Da, Ligand)
- Protein luc7 (30 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 d1 (16 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))
- U1 small nuclear ribonucleoprotein a (40 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- U1 small nuclear ribonucleoprotein c (27 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))
- 56 kda u1 small nuclear ribonucleoprotein component (56 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Small nuclear ribonucleoprotein g (8 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- U1 snrna (182 kDa, RNA 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))
- Saccharomyces cerevisiae spliceosomal e complex (ebc4) (Complex from Saccharomyces cerevisiae)
- Nuclear cap-binding protein complex subunit 1 (100 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Small nuclear ribonucleoprotein e (10 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))
- Pre-mrna-processing protein prp40 (69 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
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 [ DOI: doi:10.1016/j.cell.2019.02.006 Pubmed: 30879786 ]
- Catalytically activated spliceosome b*-b1 complex (Complex from Saccharomyces cerevisiae S288C)
- Pre-mrna-splicing factor syf2 (24 kDa, Protein from Saccharomyces cerevisiae S288c)
- Pre-mrna-splicing factor syf1 (100 kDa, Protein from Saccharomyces cerevisiae S288c)
- Pre-mrna-processing factor 19 (56 kDa, Protein from Saccharomyces cerevisiae S288c)
- Guanosine-5'-triphosphate (523 Da, Ligand)
- Pre-mrna-splicing factor cwc2 (38 kDa, Protein from Saccharomyces cerevisiae S288c)
- Pre-mrna-splicing factor prp46 (50 kDa, Protein from Saccharomyces cerevisiae S288c)
- Zinc ion (65 Da, Ligand)
- Inositol hexakisphosphate (660 Da, Ligand)
- U2 small nuclear ribonucleoprotein b'' (12 kDa, Protein from Saccharomyces cerevisiae S288c)
- Pre-mrna-processing protein 45 (42 kDa, Protein from Saccharomyces cerevisiae S288c)
- Pre-mrna-splicing factor clf1 (82 kDa, Protein from Saccharomyces cerevisiae S288c)
- Small nuclear ribonucleoprotein e (10 kDa, Protein from Saccharomyces cerevisiae S288c)
- Pre-mrna-splicing factor snt309 (20 kDa, Protein from Saccharomyces cerevisiae S288c)
- Small nuclear ribonucleoprotein g (8 kDa, Protein from Saccharomyces cerevisiae S288c)
- Pre-mrna-splicing factor snu114 (114 kDa, Protein from Saccharomyces cerevisiae S288c)
- Ubc4 pre-mrna (78 kDa, RNA from Saccharomyces cerevisiae S288c)
- Pre-mrna-splicing factor cwc21 (15 kDa, Protein from Saccharomyces cerevisiae S288c)
- Pre-mrna-splicing factor bud31 (18 kDa, Protein from Saccharomyces cerevisiae S288c)
- Pre-mrna-splicing factor slt11 (40 kDa, Protein from Saccharomyces cerevisiae S288c)
- U2 small nuclear ribonucleoprotein a' (27 kDa, Protein from Saccharomyces cerevisiae S288c)
- Small nuclear ribonucleoprotein sm d3 (11 kDa, Protein from Saccharomyces cerevisiae S288c)
- Pre-mrna-splicing factor isy1 (28 kDa, Protein from Saccharomyces cerevisiae S288c)
- Small nuclear ribonucleoprotein sm d1 (16 kDa, Protein from Saccharomyces cerevisiae S288c)
- Small nuclear ribonucleoprotein-associated protein b (22 kDa, Protein from Saccharomyces cerevisiae S288c)
- U6 snrna (35 kDa, RNA from Saccharomyces cerevisiae S288c)
- U5 snrna (68 kDa, RNA from Saccharomyces cerevisiae S288c)
- Pre-mrna-splicing factor cwc15 (19 kDa, Protein from Saccharomyces cerevisiae S288c)
- Small nuclear ribonucleoprotein sm d2 (12 kDa, Protein from Saccharomyces cerevisiae S288c)
- Pre-mrna-splicing factor 8 (279 kDa, Protein from Saccharomyces cerevisiae S288c)
- Pre-mrna-splicing factor cef1 (67 kDa, Protein from Saccharomyces cerevisiae S288c)
- Small nuclear ribonucleoprotein f (9 kDa, Protein from Saccharomyces cerevisiae S288c)
- Pre-mrna-splicing factor cwc22 (67 kDa, Protein from Saccharomyces cerevisiae S288c)
- U2 snrna (376 kDa, RNA from Saccharomyces cerevisiae S288c)
- Pre-mrna-processing factor 17 (52 kDa, Protein from Saccharomyces cerevisiae S288c)
- Magnesium ion (24 Da, Ligand)
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 [ DOI: doi:10.1016/j.cell.2019.02.006 Pubmed: 30879786 ]
- Pre-mrna-processing factor 19 (56 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Splicing factor yju2 (32 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Small nuclear ribonucleoprotein sm d3 (11 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Pre-mrna-splicing factor slt11 (40 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Small nuclear ribonucleoprotein f (9 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Guanosine-5'-triphosphate (523 Da, Ligand)
- Pre-mrna-splicing factor clf1 (82 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Zinc ion (65 Da, Ligand)
- Pre-mrna-splicing factor cwc22 (67 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Pre-mrna-splicing factor prp46 (50 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Pre-mrna-processing factor 17 (52 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Inositol hexakisphosphate (660 Da, Ligand)
- Small nuclear ribonucleoprotein sm d1 (16 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-splicing factor isy1 (28 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Pre-mrna-splicing factor bud31 (18 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Ubc4 pre-mrna (78 kDa, RNA from Saccharomyces cerevisiae S288c)
- Pre-mrna-splicing factor snt309 (20 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))
- U2 small nuclear ribonucleoprotein b'' (12 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- U6 snrna (35 kDa, RNA from Saccharomyces cerevisiae S288c)
- U5 snrna (68 kDa, RNA from Saccharomyces cerevisiae 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))
- Catalytically activated spliceosome b*-a2 complex (Complex from Saccharomyces cerevisiae S288c)
- Small nuclear ribonucleoprotein sm d2 (12 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 syf2 (24 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Small nuclear ribonucleoprotein g (8 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- U2 snrna (376 kDa, RNA from Saccharomyces cerevisiae S288c)
- Pre-mrna-splicing factor cwc2 (38 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Small nuclear ribonucleoprotein e (10 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Magnesium ion (24 Da, Ligand)
- Pre-mrna-splicing factor cwc21 (15 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Pre-mrna-processing protein 45 (42 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- U2 small nuclear ribonucleoprotein a' (27 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Pre-mrna-splicing factor snu114 (114 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
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 [ DOI: doi:10.1038/s41586-018-0323-8 Pubmed: 29995849 ]
- U2 small nuclear ribonucleoprotein a' (27 kDa, Protein from Saccharomyces cerevisiae)
- Small nuclear ribonucleoprotein sm d1 (16 kDa, Protein from Saccharomyces cerevisiae)
- Small nuclear ribonucleoprotein-associated protein b (22 kDa, Protein from Saccharomyces cerevisiae)
- U1 small nuclear ribonucleoprotein c (27 kDa, Protein from Saccharomyces cerevisiae)
- U1 small nuclear ribonucleoprotein component prp42 (65 kDa, Protein from Saccharomyces cerevisiae)
- Small nuclear ribonucleoprotein g (8 kDa, Protein from Saccharomyces cerevisiae)
- Protein hsh49 (24 kDa, Protein from Saccharomyces cerevisiae)
- Unknown (4 kDa, Protein from Saccharomyces cerevisiae)
- Zinc ion (65 Da, Ligand)
- U1 snrna,u1 snrna,u1 snrna,u1 snrna,u1 snrna (126 kDa, RNA from Saccharomyces cerevisiae)
- Cold sensitive u2 snrna suppressor 1 (50 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)
- Rds3 complex subunit 10 (10 kDa, Protein from Saccharomyces cerevisiae)
- 56 kda u1 small nuclear ribonucleoprotein component (56 kDa, Protein from Saccharomyces cerevisiae)
- U1 small nuclear ribonucleoprotein component snu71 (71 kDa, Protein from Saccharomyces cerevisiae)
- Pre-mrna-processing factor 39 (74 kDa, Protein from Saccharomyces cerevisiae)
- U2 snrna (45 kDa, RNA from Saccharomyces cerevisiae)
- Small nuclear ribonucleoprotein f (9 kDa, Protein from Saccharomyces cerevisiae)
- Small nuclear ribonucleoprotein sm d2 (12 kDa, Protein from Saccharomyces cerevisiae)
- Small nuclear ribonucleoprotein sm d3 (11 kDa, Protein from Saccharomyces cerevisiae)
- U2 snrnp component hsh155 (110 kDa, Protein from Saccharomyces cerevisiae)
- Yeast ubc4 pre-mrna (mutant) (12 kDa, RNA from Saccharomyces cerevisiae)
- Pre-mrna-splicing factor prp21 (33 kDa, Protein from Saccharomyces cerevisiae)
- Pre-mrna-splicing factor prp9 (63 kDa, Protein from Saccharomyces cerevisiae)
- Protein luc7,protein luc7,protein luc7 (28 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)
- U2 small nuclear ribonucleoprotein b'' (12 kDa, Protein from Saccharomyces cerevisiae)
- Prespliceosome a complex (1 MDa, Complex 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)
- Small nuclear ribonucleoprotein e (10 kDa, Protein from Saccharomyces cerevisiae)
- Protein nam8 (57 kDa, Protein from Saccharomyces cerevisiae)
- Pre-mrna-splicing factor rds3 (12 kDa, Protein from Saccharomyces cerevisiae)
- Pre-mrna-splicing factor rse1 (153 kDa, Protein from Saccharomyces cerevisiae)
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 [ Pubmed: 29146871 DOI: doi:10.1126/science.aar3729 ]
- Small nuclear ribonucleoprotein sm d1 (16 kDa, Protein from Baker's yeast)
- Small nuclear ribonucleoprotein sm d2 (12 kDa, Protein from Baker's yeast)
- Intron lariat: ubc4 rna (30 kDa, RNA from Saccharomyces cerevisiae S288c)
- Pre-mrna-splicing factor cef1 (67 kDa, Protein from Baker's yeast)
- Pre-mrna-splicing factor snu114 (114 kDa, Protein from Baker's yeast)
- Pre-mrna-splicing factor clf1 (82 kDa, Protein from Baker's yeast)
- Small nuclear ribonucleoprotein sm d3 (11 kDa, Protein from Baker's yeast)
- Pre-mrna-splicing factor syf2 (24 kDa, Protein from Baker's yeast)
- Small nuclear ribonucleoprotein f (9 kDa, Protein from Baker's yeast)
- Zinc ion (65 Da, Ligand)
- P complex spliceosome (Complex from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Pre-mrna-splicing factor prp18 (28 kDa, Protein from Baker's yeast)
- Pre-mrna-splicing factor cwc15 (19 kDa, Protein from Baker's yeast)
- U5 snrna (57 kDa, RNA from Baker's yeast)
- U6 snrna (35 kDa, RNA from Baker's yeast)
- U2 small nuclear ribonucleoprotein b'' (12 kDa, Protein from Baker's yeast)
- Pre-mrna-splicing factor cwc22 (67 kDa, Protein from Baker's yeast)
- Pre-mrna-splicing factor bud31 (18 kDa, Protein from Baker's yeast)
- Pre-mrna-splicing factor snt309 (20 kDa, Protein from Baker's yeast)
- P complex spliceosome with 3' exon docked (2 MDa, Complex)
- Pre-mrna-processing protein 45 (42 kDa, Protein from Baker's yeast)
- Small nuclear ribonucleoprotein g (8 kDa, Protein from Baker's yeast)
- Guanosine-5'-triphosphate (523 Da, Ligand)
- Pre-mrna-processing factor prp17 (52 kDa, Protein from Baker's yeast)
- Pre-mrna-splicing factor prp8 (279 kDa, Protein from Baker's yeast)
- Pre-mrna-splicing factor prp46 (50 kDa, Protein from Baker's yeast)
- U2 small nuclear ribonucleoprotein a' (27 kDa, Protein from Baker's yeast)
- 3' exon (Complex from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Ligated exons: ubc4 mrna (12 kDa, RNA from Saccharomyces cerevisiae S288c)
- Unassigned structure (8 kDa, Protein from Baker's yeast)
- Small nuclear ribonucleoprotein e (10 kDa, Protein from Baker's yeast)
- Pre-mrna-splicing factor syf1 (100 kDa, Protein from Baker's yeast)
- U2 snrna (376 kDa, RNA from Saccharomyces cerevisiae S288c)
- Pre-mrna-splicing factor cwc2 (38 kDa, Protein from Baker's yeast)
- Pre-mrna-splicing factor cwc21 (15 kDa, Protein from Baker's yeast)
- Small nuclear ribonucleoprotein-associated protein b (22 kDa, Protein from Baker's yeast)
- Pre-mrna-splicing factor cwc16 (32 kDa, Protein from Baker's yeast)
- Magnesium ion (24 Da, Ligand)
- Pre-mrna-splicing factor slu7 (44 kDa, Protein from Baker's yeast)
- Inositol hexakisphosphate (660 Da, Ligand)
- Pre-mrna-splicing factor slt11 (40 kDa, Protein from Baker's yeast)
- 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)