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) PubChem (888) | |||
| 39 | CB, WA, XA, YA (E, 6) | POTASSIUM ION | non-polymer | 39.1 | 4 | Chemie (K) PubChem (813) | |||
| 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) PubChem (177679032) PubChem (135400627) PubChem (135487750) PubChem (136088935) PubChem (136803486) PubChem (135398633) PubChem (135544356) PubChem (135547949) PubChem (135600366) PubChem (135749822) PubChem (136005188) PubChem (136073923) PubChem (136240914) PubChem (136664747) PubChem (136772743) PubChem (136772744) PubChem (136803487) PubChem (137286749) PubChem (164715984) PubChem (171699466) | |||
| 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 |
