Research workbench
HDAC6 znf domain inhibitor - darpin (designed ankyrin repeat protein) F10
Analyse HDAC6 znf domain inhibitor - darpin (designed ankyrin repeat protein) F10 in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 7ZYU
- Type
- protein
- Length
- 267 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Histone deacetylase 6; Designed ankyrin repeat protein F10
- EC
- 3.5.1.98, 3.5.1.-
- UniProt
- Q9UBN7
- Ligands
- ZN
- Pockets
- 2 · best druggability 0.71
Structure
x-ray diffraction · 2 distinct chains · 41% helix, 7% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Histone deacetylase 6 (EC 3.5.1.98, 3.5.1.-) | protein | 107 | 23% helix, 18% strand | Q9UBN7 |
| B | Designed ankyrin repeat protein F10 | protein | 160 | 53% helix, 0% strand | — |
Ligands and binding sites
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
2 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 167 | 0.71 | 0.89 | 27 | EDO |
| 2 | 84 | 0.47 | 0.82 | 20 | empty |
Interfaces
1 interface between chains.
- A–B · 938 Ų buried · 12 hydrogen bonds · protein-protein
Compared structures
- 7ZYU · HDAC6 ZnF domain inhibitor - DARPin (Designed Ankyrin repeat protein) F10 · the same entry in another collection · chain A against A, TM-score 1.00
- Q9UBN7 · AlphaFold monomer V2.0 prediction for histone deacetylase 6 (Q9UBN7) · a predicted model of the same protein · chain A against A, TM-score 0.97
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 Q9UBN7
- Elsewhere: RCSB PDB 7ZYU · PDBe 7ZYU · UniProt Q9UBN7
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