› 3keu

X-ray diffraction
2.1Å resolution

Crystal Structure of Human PL Kinase with bound PLP and ATP

Released:
DOI: 10.2210/pdb3keu/pdb
PDB 3keu coloured by chain and viewed from the front.
PDB 3keu coloured by chain and viewed from the side.
PDB 3keu coloured by chain and viewed from the top.
Source organism: Homo sapiens
Entry authors: Safo MK, Gandhi AK, Musayev FN

Function and Biology Details

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

Structure analysis Details

Assembly composition:
homo dimer (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Pyridoxal kinase Chains: A, B
Molecule details ›
Chains: A, B
Length: 312 amino acids
Theoretical weight: 35.14 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: O00764 (Residues: 1-312; Coverage: 100%)
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

6 bound ligands:
Ligand MG 4 x MG
Ligand NA 2 x NA
Ligand ATP 2 x ATP
Ligand PLP 2 x PLP
Ligand MPD 9 x MPD
Ligand SO4 8 x SO4
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: RIGAKU MICROMAX-007
Spacegroup: I222
Unit cell:
a: 91.202Å b: 114.585Å c: 169.414Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.209 0.209 0.256
Expression system: Escherichia coli

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