› 1me5

X-ray diffraction
2.4Å resolution

Crystal Structure of Mycobacterium Tuberculosis Alkylperoxidase AhpD H132Q Mutant

Released:
DOI: 10.2210/pdb1me5/pdb
PDB entry 1me5 coloured by chain, front view.
PDB entry 1me5 coloured by chain, side view.
PDB entry 1me5 coloured by chain, top view.
Source organism: Mycobacterium tuberculosis
Primary publication:
The mechanism of Mycobacterium tuberculosis alkylhydroperoxidase AhpD as defined by mutagenesis, crystallography, and kinetics.
Koshkin A, Nunn CM, Djordjevic S, Ortiz de Montellano PR
J Biol Chem 278 29502-8 (2003)
PMID: 12761216

Function and Biology Details

Reaction catalysed: 
A [lipoyl-carrier protein]-N(6)-((R)-dihydrolipoyl)-L-lysine + ROOH = a [lipoyl-carrier protein]-N(6)-((R)-lipoyl)-L-lysine + H(2)O + ROH
Biochemical function:
Biological process:
Cellular component:
Sequence domains:
Structure domain:

Structure analysis Details

Assembly composition:
homo trimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-162063 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Alkyl hydroperoxide reductase AhpD Chains: A, B, C
Molecule details ›
Chains: A, B, C
Length: 177 amino acids
Theoretical weight: 18.79 KDa
Source organism: Mycobacterium tuberculosis
Expression system: Escherichia coli
UniProt:
  • Canonical: P9WQB5 (Residues: 1-177; Coverage: 100%)
Gene names: MTCY428.17c, Rv2429, ahpD
Sequence domains: Carboxymuconolactone decarboxylase family
Structure domains: AhpD-like

Ligands and Environments

No bound ligands
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: SRS BEAMLINE PX9.6
Spacegroup: C2
Unit cell:
a: 100.119Å b: 58.652Å c: 88.914Å
α: 90° β: 120.47° γ: 90°
R-values:
R R work R free
0.239 0.223 0.35
Expression system: Escherichia coli

Quick links

Citations

2 review citations

Conservation and diversity of radiation and oxidative stress resistance mechanisms in Deinococcus species.
Lim et al. (2019)
1 more

2 mentions without citation

A unified statistical model to support local sequence order independent similarity searching for ligand-binding sites and its application to genome-based drug discovery.
Xie et al. (2009)
1 more