› 4s1m

X-ray diffraction
1.64Å resolution

Crystal Structure of Pyridoxal Kinase from Entamoeba histolytica

Released:
DOI: 10.2210/pdb4s1m/pdb
PDB 4s1m coloured by chain and viewed from the front.
PDB 4s1m coloured by chain and viewed from the side.
PDB 4s1m coloured by chain and viewed from the top.
Source organism: Entamoeba histolytica
Primary publication:
Characterization and functional insights into the Entamoeba histolytica pyridoxal kinase, an enzyme essential for its survival.
Tarique KF, Devi S, Tomar P, Ali MF, Rehman SAA, Gourinath S
J Struct Biol 212 107645 (2020)
PMID: 33045383

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: 287 amino acids
Theoretical weight: 32.17 KDa
Source organism: Entamoeba histolytica
Expression system: Escherichia coli BL21
UniProt:
  • Canonical: C4LVZ4 (Residues: 1-279; Coverage: 100%)
Gene name: EHI_126090
Sequence domains: Phosphomethylpyrimidine kinase
Structure domains: UDP-N-acetylmuramoyl-L-alanine:D-glutamate ligase

Ligands and Environments

1 bound ligand:
Ligand MG 2 x MG
1 modified residue:
Ligand CME 2 x CME

Experiments and Validation Details

Entry percentile scores
X-ray source: ESRF BEAMLINE BM14
Spacegroup: P21
Unit cell:
a: 44.131Å b: 91.111Å c: 76.777Å
α: 90° β: 99.64° γ: 90°
R-values:
R R work R free
0.175 0.174 0.198
Expression system: Escherichia coli BL21

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