Research workbench
Crystal structure of a low occupancy fragment candidate (5-[(4- ISOPROPYLPHENYL)AMINO]-6-methyl-1,2,4-triazin-3(2H)-one) bound in the ubiquitin binding pocket of the HDAC6 zinc-finger domain
Analyse Crystal structure of a low occupancy fragment candidate (5-[(4… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 5KH9
- Type
- protein
- Length
- 100 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Histone deacetylase 6
- EC
- 3.5.1.98
- UniProt
- Q9UBN7
- Ligands
- 6T5, ZN, NA, UNX
Structure
x-ray diffraction · 1 distinct chain · 27% helix, 18% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Histone deacetylase 6 (EC 3.5.1.98) | protein | 100 | 27% helix, 18% strand | Q9UBN7 |
Ligands and binding sites
- 6T5 · 6-methyl-5-[(4-propan-2-ylphenyl)amino]-2~{H}-1,2,4-triazin-3-one · ligand · chains A
- ZN · Zinc ion · metal · 3 copies · chains A
- NA · Sodium ion · metal · chains A
- UNX · Unknown atom or ion · ion · 33 copies · chains A
- FMT · Formic acid · additive · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Compared structures
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 5KH9 · PDBe 5KH9 · UniProt Q9UBN7
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