MolNFT v1 · #159073 · protein
Crystal structure of HDAC8 in complex with compound 30
6ODC: “Crystal structure of HDAC8 in complex with compound 30”. X-ray diffraction, 3 ligands (M7Y, K, ZN). MolNFT v1 #159073 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 6ODC
- Type
- protein
- Length
- 1,087 residues
- Chains
- 3
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- UniProt
- Q9BY41
- Ligands
- M7Y, K, ZN
Structure
x-ray diffraction · 3 distinct chains.
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | — | protein | 367 | — | Q9BY41 |
| B | — | protein | 366 | — | Q9BY41 |
| C | — | protein | 354 | — | Q9BY41 |
Ligands and binding sites
- M7Y · (2E)-3-[2-(3-cyclopentyl-5,5-dimethyl-2-oxoimidazolidin-1-yl)phenyl]-N-hydroxyprop-2-enamide · ligand · 3 copies · chains A, B, C
- K · Potassium ion · metal · 6 copies · chains A, B, C
- ZN · Zinc ion · metal · 3 copies · chains A, B, C
- EDO · 1,2-ethanediol · additive · 4 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Compared structures
- 6ODC · Crystal structure of HDAC8 in complex with compound 30 · the same entry in another collection · chain A against A, TM-score 1.00
Analyse
- Open in the research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides and crosslinks on the 3D structure
- Every structure of UniProt Q9BY41
- Elsewhere: RCSB PDB 6ODC · PDBe 6ODC · UniProt Q9BY41
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