6z6f

Electron Microscopy
3.11Å resolution

Function and Biology Details

Reaction catalysed:
Hydrolysis of an N(6)-acetyl-lysine residue of a histone to yield a deacetylated histone
Biochemical function:
Biological process:
Cellular component:

Structure analysis Details

Assembly composition:
hetero tetramer (preferred)
PDBe Complex ID:
PDB-CPX-156911 (preferred)
Entry contents:
4 distinct polypeptide molecules
Macromolecules (4 distinct):
Histone deacetylase HDA1 Chain: A
Molecule details ›
Chain: A
Length: 661 amino acids
Theoretical weight: 74.85 KDa
Source organism: Saccharomyces cerevisiae S288C
Expression system: Escherichia coli
UniProt:
  • Canonical: P53973 (Residues: 40-700; Coverage: 94%)
Gene names: HDA1, N2819, YNL021W
Sequence domains:
Histone deacetylase HDA1 Chain: B
Molecule details ›
Chain: B
Length: 672 amino acids
Theoretical weight: 76.02 KDa
Source organism: Saccharomyces cerevisiae S288C
Expression system: Escherichia coli
UniProt:
  • Canonical: P53973 (Residues: 29-700; Coverage: 95%)
Gene names: HDA1, N2819, YNL021W
Sequence domains:
HDA1 complex subunit 3 Chain: D
Molecule details ›
Chain: D
Length: 543 amino acids
Theoretical weight: 63.42 KDa
Source organism: Saccharomyces cerevisiae S288C
Expression system: Escherichia coli
UniProt:
  • Canonical: Q06623 (Residues: 28-639; Coverage: 83%)
Gene names: HDA3, PLO1, YPR179C
Sequence domains: Class II histone deacetylase complex subunits 2 and 3
HDA1 complex subunit 2 Chain: C
Molecule details ›
Chain: C
Length: 629 amino acids
Theoretical weight: 71.92 KDa
Source organism: Saccharomyces cerevisiae S288C
Expression system: Escherichia coli
UniProt:
  • Canonical: Q06629 (Residues: 10-638; Coverage: 93%)
Gene names: HDA2, PLO2, YDR295C
Sequence domains: Class II histone deacetylase complex subunits 2 and 3

Ligands and Environments

1 bound ligand:
No modified residues

Experiments and Validation Details

Entry percentile scores
Resolution: 3.11Å
Relevant EMDB volumes: EMD-11092
Expression system: Escherichia coli