› 3q9f

X-ray diffraction
2.35Å resolution

Crystal Structure of APAH complexed with CAPS

Released:
DOI: 10.2210/pdb3q9f/pdb
PDB entry 3q9f coloured by chain, front view.
PDB entry 3q9f coloured by chain, side view.
PDB entry 3q9f coloured by chain, top view.
Source organism: Mycoplana ramosa
Primary publication:
Structure of prokaryotic polyamine deacetylase reveals evolutionary functional relationships with eukaryotic histone deacetylases.
Lombardi PM, Angell HD, Whittington DA, Flynn EF, Rajashankar KR, Christianson DW
Biochemistry 50 1808-17 (2011)
PMID: 21268586

Function and Biology Details

Reactions catalysed: 
N(8)-acetylspermidine + H(2)O = acetate + spermidine
N-acetylputrescine + H(2)O = acetate + putrescine
Biochemical function:
Biological process:
Cellular component:
  • not assigned
Sequence domains:

Structure analysis Details

Assembly composition:
homo dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-175372 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Acetylpolyamine amidohydrolase Chains: A, B, C, D, E, F, G, H, I, J, K, L
Molecule details ›
Chains: A, B, C, D, E, F, G, H, I, J, K, L
Length: 341 amino acids
Theoretical weight: 36.37 KDa
Source organism: Mycoplana ramosa
Expression system: Escherichia coli
UniProt:
  • Canonical: Q48935 (Residues: 1-341; Coverage: 100%)
Gene names: aph, aphA
Sequence domains: Histone deacetylase domain
Structure domains: Histone deacetylase domain

Ligands and Environments

5 bound ligands:
Ligand CXS 12 x CXS
Ligand PO4 12 x PO4
Ligand K 20 x K
Ligand NA 12 x NA
Ligand ZN 12 x ZN
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: APS BEAMLINE 24-ID-C
Spacegroup: P1
Unit cell:
a: 118.252Å b: 119.651Å c: 119.571Å
α: 98.34° β: 94.94° γ: 114.95°
R-values:
R R work R free
0.189 0.189 0.225
Expression system: Escherichia coli

Quick links

Citations

9 review citations

Antibiotic dialogues: induction of silent biosynthetic gene clusters by exogenous small molecules.
Okada et al. (2017)
8 more

3 mentions without citation

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