6DVM
Crystal structure of Danio rerio histone deacetylase 6 catalytic domain 2 in complex with DDK-122
Entity
| Entity ID | Chain ID | Description | Type | Chain length | Formula weight | Number of molecules | DB Name (Accession) | Biological source | Descriptive keywords |
| 1 | A, B, C, D | Hdac6 protein | polymer | 364 | 40285.5 | 4 | UniProt (A7YT55) Pfam (PF00850) UniProt (by SIFTS) (F8W4B7) In PDB | Danio rerio (Zebrafish) | |
| 2 | A, B, C, D | ZINC ION | non-polymer | 65.4 | 4 | Chemie (ZN) | |||
| 3 | D, A, B, C | POTASSIUM ION | non-polymer | 39.1 | 8 | Chemie (K) | |||
| 4 | D, A, B, C | 4-(dimethylamino)-N-{[4-(hydroxycarbamoyl)phenyl]methyl}-N-{2-[(4-methylphenyl)amino]-2-oxoethyl}benzamide | non-polymer | 460.5 | 4 | Chemie (HBJ) | |||
| 5 | D, A, B, C | 1,2-ETHANEDIOL | non-polymer | 62.1 | 13 | Chemie (EDO) | |||
| 6 | C | 2-[BIS-(2-HYDROXY-ETHYL)-AMINO]-2-HYDROXYMETHYL-PROPANE-1,3-DIOL | non-polymer | 209.2 | 1 | Chemie (BTB) | |||
| 7 | water | water | 18.0 | 1859 | Chemie (HOH) |
Sequence modifications
A, B, C, D: 440 - 798 (UniProt: A7YT55)
| PDB | External Database | Details |
|---|---|---|
| Ser 435 | - | expression tag |
| Asn 436 | - | expression tag |
| Ala 437 | - | expression tag |
| Gly 438 | - | expression tag |
| Gly 439 | - | expression tag |
Sequence viewer
Contents of the asymmetric unit
| Polymers | Number of chains | 4 |
| Total formula weight | 161141.9 | |
| Non-Polymers* | Number of molecules | 30 |
| Total formula weight | 3432.6 | |
| All* | Total formula weight | 164574.6 |
