9DTR
Structure of the yeast post-catalytic P complex spliceosome at 2.3 Angstrom resolution
Entity
| Entity ID | Chain ID | Description | Type | Chain length | Formula weight | Number of molecules | DB Name (Accession) | Biological source | Descriptive keywords |
| 1 | A (2) | U2 snRNA | polymer | 1175 | 376267.4 | 1 | GenBank (NR_132154) | Saccharomyces cerevisiae (brewer's yeast) | |
| 2 | B (5) | U5 snRNA | polymer | 214 | 68643.3 | 1 | GenBank (NR_132184) | Saccharomyces cerevisiae (brewer's yeast) | |
| 3 | C (6) | U6 snRNA | polymer | 112 | 35883.2 | 1 | GenBank (NR_132206) | Saccharomyces cerevisiae (brewer's yeast) | |
| 4 | D (A) | Pre-mRNA-splicing factor 8 | polymer | 2413 | 279867.5 | 1 | UniProt (P33334) Pfam (PF08082) Pfam (PF08083) Pfam (PF10598) Pfam (PF10597) Pfam (PF10596) Pfam (PF12134) Pfam (PF08084) | Saccharomyces cerevisiae (brewer's yeast) | |
| 5 | E (C) | Pre-mRNA-splicing factor SNU114 | polymer | 1008 | 114174.0 | 1 | UniProt (P36048) Pfam (PF03764) Pfam (PF00679) Pfam (PF16004) Pfam (PF00009) | Saccharomyces cerevisiae (brewer's yeast) | 114 kDa U5 small nuclear ribonucleoprotein component,Growth inhibitory protein 10 |
| 6 | F (D) | Protein FYV6 | polymer | 173 | 20066.9 | 1 | UniProt (P53913) Pfam (PF10187) | Saccharomyces cerevisiae (brewer's yeast) | Function required for yeast viability protein 6 |
| 7 | G (E) | UBC4 mRNA spliced exons | polymer | 42 | 13440.0 | 1 | GenBank (NM_001178430) | Saccharomyces cerevisiae | |
| 8 | H (G) | Pre-mRNA-splicing factor ISY1 | polymer | 235 | 28073.8 | 1 | UniProt (P21374) Pfam (PF06246) | Saccharomyces cerevisiae (brewer's yeast) | Interactor of SYF1,PRP19-associated complex protein 30 |
| 9 | I (H) | Pre-mRNA-splicing factor CWC22 | polymer | 577 | 67386.1 | 1 | UniProt (P53333) Pfam (PF02847) | Saccharomyces cerevisiae (brewer's yeast) | Complexed with CEF1 protein 22 |
| 10 | J (I) | UBC4 lariat-intron | polymer | 95 | 30200.7 | 1 | GenBank (1931130107) | Saccharomyces cerevisiae | |
| 11 | K (J) | Pre-mRNA-splicing factor PRP46 | polymer | 451 | 50771.3 | 1 | UniProt (Q12417) Pfam (PF00400) | Saccharomyces cerevisiae (brewer's yeast) | Complexed with CEF1 protein 1,PRP nineteen-associated complex protein 50,PRP19-associated complex protein 50,Pre-mRNA-processing protein 46 |
| 12 | L (K) | Pre-mRNA-processing protein 45 | polymer | 379 | 42548.7 | 1 | UniProt (P28004) Pfam (PF02731) | Saccharomyces cerevisiae (brewer's yeast) | |
| 13 | M (L) | Pre-mRNA-splicing factor BUD31 | polymer | 157 | 18484.5 | 1 | UniProt (P25337) Pfam (PF01125) | Saccharomyces cerevisiae (brewer's yeast) | Bud site selection protein 31,Complexed with CEF1 protein 14 |
| 14 | N (M) | Pre-mRNA-splicing factor CWC2 | polymer | 339 | 38486.6 | 1 | UniProt (Q12046) Pfam (PF16131) Pfam (PF00076) | Saccharomyces cerevisiae (brewer's yeast) | Complexed with CEF1 protein 2,PRP19-associated complex protein 40,Synthetic lethal with CLF1 protein 3 |
| 15 | O (N) | Pre-mRNA-splicing factor SLT11 | polymer | 364 | 40988.6 | 1 | UniProt (P38241) Pfam (PF21369) | Saccharomyces cerevisiae (brewer's yeast) | Extracellular mutant protein 2,Synthetic lethality with U2 protein 11 |
| 16 | P (O) | Pre-mRNA-splicing factor CEF1 | polymer | 590 | 67837.8 | 1 | UniProt (Q03654) Pfam (PF00249) Pfam (PF11831) | Saccharomyces cerevisiae (brewer's yeast) | PRP nineteen-associated complex protein 85,PRP19-associated complex protein 85 |
| 17 | Q (P) | Pre-mRNA-splicing factor CWC15 | polymer | 175 | 19975.2 | 1 | UniProt (Q03772) Pfam (PF04889) | Saccharomyces cerevisiae (brewer's yeast) | Complexed with CEF1 protein 15 |
| 18 | R (R) | Pre-mRNA-splicing factor CWC21 | polymer | 135 | 15793.6 | 1 | UniProt (Q03375) Pfam (PF08312) | Saccharomyces cerevisiae (brewer's yeast) | Complexed with CEF1 protein 21 |
| 19 | S (S) | Pre-mRNA-splicing factor CLF1 | polymer | 687 | 82555.9 | 1 | UniProt (Q12309) Pfam (PF23233) Pfam (PF23240) | Saccharomyces cerevisiae (brewer's yeast) | Crooked neck-like factor 1,PRP19-associated complex protein 77,Synthetic lethal with CDC40 protein 3 |
| 20 | T (T) | Pre-mRNA-splicing factor SYF1 | polymer | 859 | 100344.0 | 1 | UniProt (Q04048) Pfam (PF23233) Pfam (PF23220) Pfam (PF23231) | Saccharomyces cerevisiae (brewer's yeast) | PRP19-associated complex protein 90,Synthetic lethal with CDC40 protein 1 |
| 21 | U (V) | Pre-mRNA-splicing factor ATP-dependent RNA helicase PRP22 | polymer | 1145 | 130171.4 | 1 | UniProt (P24384) Pfam (PF00575) Pfam (PF00270) Pfam (PF00271) Pfam (PF04408) Pfam (PF21010) Pfam (PF07717) | Saccharomyces cerevisiae (brewer's yeast) | |
| 22 | V (W) | U2 small nuclear ribonucleoprotein A' | polymer | 238 | 27232.3 | 1 | UniProt (Q08963) Pfam (PF14580) | Saccharomyces cerevisiae (brewer's yeast) | U2 snRNP A',Looks exceptionally like U2A protein 1 |
| 23 | W (Y) | U2 small nuclear ribonucleoprotein B'' | polymer | 111 | 12850.9 | 1 | UniProt (P40567) Pfam (PF13893) | Saccharomyces cerevisiae (brewer's yeast) | U2 snRNP B'' |
| 24 | X (Z) | Pre-mRNA-splicing factor NTC20 | polymer | 140 | 15992.9 | 1 | UniProt (P38302) | Saccharomyces cerevisiae (brewer's yeast) | PRP19-associated complex protein 20,Synergistic to PRP19 mutation protein 384 |
| 25 | Y (a) | Pre-mRNA-splicing factor 18 | polymer | 251 | 28414.4 | 1 | UniProt (P33411) Pfam (PF02840) | Saccharomyces cerevisiae (brewer's yeast) | |
| 26 | HA, Z (b, k) | Small nuclear ribonucleoprotein-associated protein B | polymer | 196 | 22427.0 | 2 | UniProt (P40018) Pfam (PF01423) | Saccharomyces cerevisiae (brewer's yeast) | snRNP-B,Sm protein B,Sm-B,SmB |
| 27 | AA (c) | Pre-mRNA-splicing factor SLU7 | polymer | 382 | 44722.9 | 1 | UniProt (Q02775) Pfam (PF11708) | Saccharomyces cerevisiae (brewer's yeast) | Synthetic lethal with U2 snRNA protein 17,Synthetic lethal with U5 snRNA protein 7 |
| 28 | BA, KA (d, n) | Small nuclear ribonucleoprotein Sm D3 | polymer | 101 | 11240.1 | 2 | UniProt (P43321) Pfam (PF01423) | Saccharomyces cerevisiae (brewer's yeast) | Sm-D3,snRNP core protein D3 |
| 29 | CA, MA (e, p) | Small nuclear ribonucleoprotein E | polymer | 94 | 10385.1 | 2 | UniProt (Q12330) Pfam (PF01423) | Saccharomyces cerevisiae (brewer's yeast) | snRNP-E,Sm protein E,Sm-E,SmE |
| 30 | DA, NA (f, q) | Small nuclear ribonucleoprotein F | polymer | 86 | 9669.9 | 2 | UniProt (P54999) Pfam (PF01423) | Saccharomyces cerevisiae (brewer's yeast) | snRNP-F,Sm protein F,Sm-F,SmF |
| 31 | EA, OA (g, r) | Small nuclear ribonucleoprotein G | polymer | 77 | 8490.8 | 2 | UniProt (P40204) Pfam (PF01423) | Saccharomyces cerevisiae (brewer's yeast) | snRNP-G,Sm protein G,Sm-G,SmG |
| 32 | FA, IA (h, l) | Small nuclear ribonucleoprotein Sm D1 | polymer | 146 | 16296.8 | 2 | UniProt (Q02260) Pfam (PF01423) | Saccharomyces cerevisiae (brewer's yeast) | Sm-D1,snRNP core protein D1 |
| 33 | GA, JA (j, m) | Small nuclear ribonucleoprotein Sm D2 | polymer | 110 | 12876.1 | 2 | UniProt (Q06217) Pfam (PF01423) | Saccharomyces cerevisiae (brewer's yeast) | Sm-D2,snRNP core protein D2 |
| 34 | LA (o) | Pre-mRNA-processing factor 17 | polymer | 455 | 52128.8 | 1 | UniProt (P40968) Pfam (PF00400) | Saccharomyces cerevisiae (brewer's yeast) | Cell division control protein 40 |
| 35 | PA (s) | Pre-mRNA-splicing factor SNT309 | polymer | 175 | 20741.5 | 1 | UniProt (Q06091) | Saccharomyces cerevisiae (brewer's yeast) | PRP19-associated complex protein 25,Synergistic to PRP19 mutation protein 309 |
| 36 | QA, RA, SA, TA (t, u, v, w) | Pre-mRNA-processing factor 19 | polymer | 503 | 56629.8 | 4 | UniProt (P32523) Pfam (PF08606) | Saccharomyces cerevisiae (brewer's yeast) | RING-type E3 ubiquitin transferase PRP19 |
| 37 | UA (y) | Pre-mRNA-splicing factor SYF2 | polymer | 215 | 24850.7 | 1 | UniProt (P53277) Pfam (PF08231) | Saccharomyces cerevisiae (brewer's yeast) | PRP19 complex protein 31,Synthetic lethal with CDC40 protein 2 |
| 38 | BB, VA (C, 6) | MAGNESIUM ION | non-polymer | 24.3 | 2 | Chemie (MG) | |||
| 39 | CB, WA, XA, YA (E, 6) | POTASSIUM ION | non-polymer | 39.1 | 4 | Chemie (K) | |||
| 40 | JB, ZA (S, A) | INOSITOL HEXAKISPHOSPHATE | non-polymer | 660.0 | 2 | Chemie (IHP) | |||
| 41 | AB (C) | GUANOSINE-5'-TRIPHOSPHATE | non-polymer | 523.2 | 1 | Chemie (GTP) | |||
| 42 | DB, EB, FB, GB, HB... (L, M, N, c) | ZINC ION | non-polymer | 65.4 | 7 | Chemie (ZN) | |||
| 43 | LB (6) | water | water | 18.0 | 1 | Chemie (HOH) |
Sequence modifications
E: -20 - 22 (GenBank: NM_001178430)
V: 1 - 1145 (UniProt: P24384)
| PDB | External Database | Details |
|---|---|---|
| G 21 | C 68 | conflict |
| C 22 | A 69 | conflict |
| PDB | External Database | Details |
|---|---|---|
| Ala 635 | Ser 635 | engineered mutation |
Sequence viewer
Contents of the asymmetric unit
| Polymers | Number of chains | 47 |
| Total formula weight | 2278185.6 | |
| Non-Polymers* | Number of molecules | 16 |
| Total formula weight | 2506.1 | |
| All* | Total formula weight | 2280691.7 |
