› 6ito

X-ray diffraction
2.55Å resolution

Crystal structure of pyruvate kinase (PYK) from Mycobacterium tuberculosis in complex with Oxalate, AMP and inhibitor Ribose 5-Phosphate

Released:
DOI: 10.2210/pdb6ito/pdb
PDB entry 6ito coloured by chain, front view.
PDB entry 6ito coloured by chain, side view.
PDB entry 6ito coloured by chain, top view.
Source organism: Mycobacterium tuberculosis H37Rv
Primary publication:
Pyruvate Kinase Regulates the Pentose-Phosphate Pathway in Response to Hypoxia in Mycobacterium tuberculosis.
Zhong W, Guo J, Cui L, Chionh YH, Li K, El Sahili A, Cai Q, Yuan M, Michels PAM, Fothergill-Gilmore LA, Walkinshaw MD, Mu Y, Lescar J, Dedon PC
J Mol Biol 431 3690-3705 (2019)
PMID: 31381898

Function and Biology Details

Reaction catalysed: 
ATP + pyruvate = ADP + phosphoenolpyruvate
Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
homo tetramer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-161737 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Pyruvate kinase Chains: A, B, C, D
Molecule details ›
Chains: A, B, C, D
Length: 475 amino acids
Theoretical weight: 51.01 KDa
Source organism: Mycobacterium tuberculosis H37Rv
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: P9WKE5 (Residues: 1-472; Coverage: 100%)
Gene names: MTCY01B2.09, Rv1617, pyk, pykA
Sequence domains:

Ligands and Environments

4 bound ligands:
Ligand MG 4 x MG
Ligand OXL 4 x OXL
Ligand R5P 4 x R5P
Ligand AMP 4 x AMP
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: SLS BEAMLINE X06DA
Spacegroup: P31
Unit cell:
a: 125.55Å b: 125.55Å c: 143.821Å
α: 90° β: 90° γ: 120°
R-values:
R R work R free
0.208 0.206 0.248
Expression system: Escherichia coli BL21(DE3)

Quick links

Citations

1 review citation

Metabolic Versatility of Mycobacterium tuberculosis during Infection and Dormancy.
Chang et al. (2021)
2 other articles