› 6uo4

X-ray diffraction
1.27Å resolution

Crystal structure of Danio rerio histone deacetylase 6 catalytic domain 1 (CD1) Y363F mutant complexed with Trichostatin A

Released:
DOI: 10.2210/pdb6uo4/pdb
PDB entry 6uo4 coloured by chain, front view.
PDB entry 6uo4 coloured by chain, side view.
PDB entry 6uo4 coloured by chain, top view.
Source organism: Danio rerio
Primary publication:
Structural Basis of Catalysis and Inhibition of HDAC6 CD1, the Enigmatic Catalytic Domain of Histone Deacetylase 6.
Osko JD, Christianson DW
Biochemistry 58 4912-4924 (2019)
PMID: 31755702

Function and Biology Details

Biochemical function:
  • not assigned
Biological process:
  • not assigned
Cellular component:
  • not assigned
Sequence domains:

Structure analysis Details

Assembly composition:
monomeric (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-123745 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
UBP-type domain-containing protein Chains: A, B
Molecule details ›
Chains: A, B
Length: 366 amino acids
Theoretical weight: 40.28 KDa
Source organism: Danio rerio
Expression system: Escherichia coli
UniProt:
  • Canonical: F8W4B7 (Residues: 60-419; Coverage: 33%)
Gene name: hdac6
Sequence domains: Histone deacetylase domain

Ligands and Environments

3 bound ligands:
Ligand ZN 2 x ZN
Ligand K 4 x K
Ligand TSN 2 x TSN
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: APS BEAMLINE 24-ID-C
Spacegroup: P21
Unit cell:
a: 52.892Å b: 124.407Å c: 55.63Å
α: 90° β: 114.462° γ: 90°
R-values:
R R work R free
0.182 0.182 0.196
Expression system: Escherichia coli

Quick links

Citations

4 review citations

Bifunctional HDAC Therapeutics: One Drug to Rule Them All?
Smalley et al. (2020)
3 more

1 mention without citation

Structural Basis of Catalysis and Inhibition of HDAC6 CD1, the Enigmatic Catalytic Domain of Histone Deacetylase 6.
Osko et al. (2019)