› 2a2j

X-ray diffraction
2.5Å resolution

Crystal structure of a putative pyridoxine 5'-phosphate oxidase (Rv2607) from Mycobacterium tuberculosis

Released:
DOI: 10.2210/pdb2a2j/pdb
PDB entry 2a2j coloured by chain, front view.
PDB entry 2a2j coloured by chain, side view.
PDB entry 2a2j coloured by chain, top view.
Source organism: Mycobacterium tuberculosis
Primary publication:
Crystal structure of a putative pyridoxine 5'-phosphate oxidase (Rv2607) from Mycobacterium tuberculosis.
Pédelacq JD, Rho BS, Kim CY, Waldo GS, Lekin TP, Segelke BW, Rupp B, Hung LW, Kim SI, Terwilliger TC
Proteins 62 563-9 (2006)
PMID: 16374842

Function and Biology Details

Reaction catalysed: 
Pyridoxamine 5'-phosphate + H(2)O + O(2) = pyridoxal 5'-phosphate + NH(3) + H(2)O(2)
Biochemical function:
Biological process:
Cellular component:
  • not assigned
Sequence domains:
Structure domain:

Structure analysis Details

Assembly composition:
homo dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-161634 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Pyridoxine 5'-phosphate oxidase Chains: A, B
Molecule details ›
Chains: A, B
Length: 246 amino acids
Theoretical weight: 27.61 KDa
Source organism: Mycobacterium tuberculosis
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: P9WIJ1 (Residues: 1-224; Coverage: 100%)
Gene names: MTCY1A10.26c, Rv2607, pdxH
Sequence domains:
Structure domains: Electron Transport, Fmn-binding Protein; Chain A

Ligands and Environments

No bound ligands
1 modified residue:
Ligand CME 2 x CME

Experiments and Validation Details

Entry percentile scores
X-ray source: ALS BEAMLINE 5.0.1
Spacegroup: P212121
Unit cell:
a: 69.609Å b: 91.108Å c: 92.992Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.209 0.209 0.26
Expression system: Escherichia coli BL21(DE3)

Quick links

Citations

2 review citations

Vitamin B6: a long known compound of surprising complexity.
Mooney et al. (2009)
1 more

4 mentions without citation

Rv2607 from Mycobacterium tuberculosis is a pyridoxine 5'-phosphate oxidase with unusual substrate specificity.
Mashalidis et al. (2011)
3 more