› 2ajp

X-ray diffraction
2.5Å resolution

Crystal structure of a human pyridoxal kinase

Released:
DOI: 10.2210/pdb2ajp/pdb
PDB entry 2ajp coloured by chain, front view.
PDB entry 2ajp coloured by chain, side view.
PDB entry 2ajp coloured by chain, top view.
Source organism: Homo sapiens
Entry authors: Ismail S, Dimov S, Atanassova A, Tempel W, Arrowsmith C, Edwards A, Sundstrom M, Weigelt J, Bochkarev A, Park H, Structural Genomics Consortium (SGC)

Function and Biology Details

Reaction catalysed: 
ATP + pyridoxal = ADP + pyridoxal 5'-phosphate
Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assemblies composition:
monomeric (preferred)
homo dimer
Assembly name:
PDBe Complex ID:
PDB-CPX-126390 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Pyridoxal kinase Chains: A, B
Molecule details ›
Chains: A, B
Length: 326 amino acids
Theoretical weight: 36.55 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: O00764 (Residues: 6-312; Coverage: 98%)
Gene names: C21orf124, C21orf97, PDXK, PKH, PNK, PRED79
Sequence domains: Phosphomethylpyrimidine kinase
Structure domains: UDP-N-acetylmuramoyl-L-alanine:D-glutamate ligase

Ligands and Environments

3 bound ligands:
Ligand MG 2 x MG
Ligand UNX 40 x UNX
Ligand ANP 2 x ANP
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: APS BEAMLINE 17-ID
Spacegroup: I222
Unit cell:
a: 92.132Å b: 114.971Å c: 169.261Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.243 0.241 0.283
Expression system: Escherichia coli BL21(DE3)

Quick links