5VI6
Crystal structure of histone deacetylase 8 in complex with trapoxin A
Entity
| Entity ID | Chain ID | Description | Type | Chain length | Formula weight | Number of molecules | DB Name (Accession) | Biological source | Descriptive keywords |
| 1 | A (A) | Histone deacetylase 8 | polymer | 372 | 41161.8 | 1 | UniProt (Q9BY41) Pfam (PF00850) | Homo sapiens (Human) | HD8 |
| 2 | B (B) | Trapoxin A | polymer | 4 | 638.8 | 1 | BIRD (PRD_002282) | Helicoma ambiens | (3S,6S,9S,15aR)-6,9-dibenzyl-3-{6,6-dihydroxy-6-[(2S)-oxiran-2-yl]hexyl}octahydro-2H-pyrido[1,2-a][1,4,7,10]tetraazacyclododecine-1,4,7,10(3H,12H)-tetrone |
| 3 | C (A) | ZINC ION | non-polymer | 65.4 | 1 | Chemie (ZN) | |||
| 4 | D, E (A) | POTASSIUM ION | non-polymer | 39.1 | 2 | Chemie (K) | |||
| 5 | F, G, H, I, J... (A) | 1,2-ETHANEDIOL | non-polymer | 62.1 | 10 | Chemie (EDO) | |||
| 6 | P, Q (A) | 1,4-DIETHYLENE DIOXIDE | non-polymer | 88.1 | 2 | Chemie (DIO) | |||
| 7 | R, S (A, B) | water | water | 18.0 | 377 | Chemie (HOH) |
Sequence modifications
A: 8 - 377 (UniProt: Q9BY41)
| PDB | External Database | Details |
|---|---|---|
| Ser 6 | - | expression tag |
| Asn 7 | - | expression tag |
Sequence viewer
Contents of the asymmetric unit
| Polymers | Number of chains | 2 |
| Total formula weight | 41800.5 | |
| Non-Polymers* | Number of molecules | 15 |
| Total formula weight | 940.5 | |
| All* | Total formula weight | 42741.0 |
