› 6pi1

X-ray diffraction
1.7Å resolution

Crystal structure of Marinobacter subterrani acetylpolyamine amidohydrolase (msAPAH) complexed with 4-(dimethylamino)-N-[7-hydroxyamino)-7-oxoheptyl]benzamide

Released:
DOI: 10.2210/pdb6pi1/pdb
PDB entry 6pi1 coloured by chain, front view.
PDB entry 6pi1 coloured by chain, side view.
PDB entry 6pi1 coloured by chain, top view.
Source organism: Marinobacter subterrani
Primary publication:
Structure and Function of the Acetylpolyamine Amidohydrolase from the Deep Earth Halophile Marinobacter subterrani.
Osko JD, Roose BW, Shinsky SA, Christianson DW
Biochemistry 58 3755-3766 (2019)
PMID: 31436969

Function and Biology Details

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-102215 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Histone deacetylase domain-containing protein Chains: A, B, C, D
Molecule details ›
Chains: A, B, C, D
Length: 348 amino acids
Theoretical weight: 37.98 KDa
Source organism: Marinobacter subterrani
Expression system: Escherichia coli
UniProt:
  • Canonical: A0A0J7JFD7 (Residues: 1-343; Coverage: 100%)
Gene name: Msub_13096
Sequence domains: Histone deacetylase domain

Ligands and Environments

4 bound ligands:
Ligand ZN 4 x ZN
Ligand K 8 x K
Ligand MG 5 x MG
Ligand B3N 4 x B3N
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: APS BEAMLINE 24-ID-C
Spacegroup: P21
Unit cell:
a: 65.624Å b: 163.013Å c: 65.624Å
α: 90° β: 94.51° γ: 90°
R-values:
R R work R free
0.164 0.163 0.199
Expression system: Escherichia coli

Quick links

Citations

4 citation in other articles

Binding of N8-Acetylspermidine Analogues to Histone Deacetylase 10 Reveals Molecular Strategies for Blocking Polyamine Deacetylation.
Herbst-Gervasoni et al. (2019)
3 more

1 mention without citation

Structure and Function of the Acetylpolyamine Amidohydrolase from the Deep Earth Halophile Marinobacter subterrani.
Osko et al. (2019)