› 1zz3

X-ray diffraction
1.76Å resolution

Crystal structure of a HDAC-like protein with CypX bound

Released:
DOI: 10.2210/pdb1zz3/pdb
PDB entry 1zz3 coloured by chain, front view.
PDB entry 1zz3 coloured by chain, side view.
PDB entry 1zz3 coloured by chain, top view.
Source organism: Alcaligenaceae bacterium FB188
Primary publication:
Crystal structure of a bacterial class 2 histone deacetylase homologue.
Nielsen TK, Hildmann C, Dickmanns A, Schwienhorst A, Ficner R
J Mol Biol 354 107-20 (2005)
PMID: 16242151

Function and Biology Details

Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assemblies composition:
monomeric (preferred)
homo tetramer
Assembly name:
PDBe Complex ID:
PDB-CPX-180684 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Histone deacetylase-like amidohydrolase Chains: A, B, C, D
Molecule details ›
Chains: A, B, C, D
Length: 369 amino acids
Theoretical weight: 39.42 KDa
Source organism: Alcaligenaceae bacterium FB188
Expression system: Escherichia coli
UniProt:
  • Canonical: Q70I53 (Residues: 1-369; Coverage: 100%)
Gene names: hdaH, hdaH1
Sequence domains: Histone deacetylase domain
Structure domains: Histone deacetylase domain

Ligands and Environments

3 bound ligands:
Ligand 3YP 4 x 3YP
Ligand ZN 4 x ZN
Ligand K 8 x K
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: ESRF BEAMLINE BM14
Spacegroup: P21
Unit cell:
a: 68.098Å b: 94.486Å c: 122.632Å
α: 90° β: 104.27° γ: 90°
R-values:
R R work R free
0.158 0.156 0.191
Expression system: Escherichia coli

Quick links

Citations

22 review citations

The Rpd3/Hda1 family of lysine deacetylases: from bacteria and yeast to mice and men.
Yang et al. (2008)
21 more

2 mentions without citation

Modulation of epigenetic targets for anticancer therapy: clinicopathological relevance, structural data and drug discovery perspectives.
Andreoli et al. (2013)
1 more