9V2W
Cryo-EM structure of the histone deacetylase complex Rpd3L in complex with di-nucleosome
Entity
| Entity ID | Chain ID | Description | Type | Chain length | Formula weight | Number of molecules | DB Name (Accession) | Biological source | Descriptive keywords |
| 1 | A (A) | Transcriptional regulatory protein SIN3 | polymer | 1096 | 126786.0 | 1 | UniProt (P22579) Pfam (PF02671) Pfam (PF08295) Pfam (PF16879) | Saccharomyces cerevisiae S288C | |
| 2 | B, M, O, S (B, M, O, S) | Histone H2A | polymer | 107 | 11722.7 | 4 | UniProt (Q6AZJ8) Pfam (PF00125) Pfam (PF16211) | Xenopus laevis (African clawed frog) | |
| 3 | C (C) | Histone deacetylase RPD3 | polymer | 378 | 42747.4 | 1 | UniProt (P32561) Pfam (PF00850) | Saccharomyces cerevisiae S288C | Transcriptional regulatory protein RPD3 |
| 4 | D, N, P, T (D, N, P, T) | Histone H2B | polymer | 93 | 10407.0 | 4 | UniProt (A0A8J1LZU9) Pfam (PF00125) | Xenopus laevis (African clawed frog) | |
| 5 | E (E) | Transcriptional regulatory protein DEP1 | polymer | 119 | 14553.6 | 1 | UniProt (P31385) Pfam (PF08598) | Saccharomyces cerevisiae S288C | |
| 6 | F (F) | Transcriptional regulatory protein SDS3 | polymer | 311 | 35851.2 | 1 | UniProt (P40505) Pfam (PF08598) | Saccharomyces cerevisiae S288C | Suppressor of defective silencing protein 3 |
| 7 | G (G) | Transcriptional regulatory protein SAP30 | polymer | 119 | 14210.0 | 1 | UniProt (P38429) Pfam (PF13867) | Saccharomyces cerevisiae S288C | |
| 8 | H, Q, U, W (H, Q, U, W) | Histone H3 | polymer | 98 | 11560.5 | 4 | UniProt (A0A310TTQ1) Pfam (PF00125) | Xenopus laevis (African clawed frog) | |
| 9 | I (I) | Transcriptional regulatory protein PHO23 | polymer | 105 | 12360.2 | 1 | UniProt (P50947) Pfam (PF12998) | Saccharomyces cerevisiae S288C | |
| 10 | J (J) | Transcriptional regulatory protein RXT2 | polymer | 206 | 23359.2 | 1 | UniProt (P38255) Pfam (PF08595) | Saccharomyces cerevisiae S288C | |
| 11 | K (K) | Histone deacetylase complex subunit CTI6 | polymer | 249 | 28742.3 | 1 | UniProt (Q08923) | Saccharomyces cerevisiae S288C | CYC8-TUP1-interacting protein 6,Transcriptional regulatory protein CTI6 |
| 12 | L, R, V, X (L, R, V, Z) | Histone H4 | polymer | 79 | 9066.6 | 4 | UniProt (P62799) Pfam (PF15511) | Xenopus laevis (African clawed frog) | |
| 13 | Y (X) | DNA (329-MER) | polymer | 329 | 102177.9 | 1 | synthetic construct | ||
| 14 | Z (Y) | DNA (329-MER) | polymer | 329 | 101038.1 | 1 | synthetic construct | ||
| 15 | AA (C) | ZINC ION | non-polymer | 65.4 | 1 | Chemie (ZN) PubChem (32051) |
Sequence viewer
Contents of the asymmetric unit
| Polymers | Number of chains | 26 |
| Total formula weight | 672853.1 | |
| Non-Polymers* | Number of molecules | 1 |
| Total formula weight | 65.4 | |
| All* | Total formula weight | 672918.5 |
