› 5wsb

X-ray diffraction
2.25Å resolution

Pyruvate kinase (PYK) from Mycobacterium tuberculosis in complex with Oxalate, allosteric activators AMP and Glucose 6-Phosphate

Released:
DOI: 10.2210/pdb5wsb/pdb
PDB entry 5wsb coloured by chain, front view.
PDB entry 5wsb coloured by chain, side view.
PDB entry 5wsb coloured by chain, top view.
Source organism: Mycobacterium tuberculosis H37Rv
Primary publication:
Allosteric pyruvate kinase-based "logic gate" synergistically senses energy and sugar levels in Mycobacterium tuberculosis.
Zhong W, Cui L, Goh BC, Cai Q, Ho P, Chionh YH, Yuan M, Sahili AE, Fothergill-Gilmore LA, Walkinshaw MD, Lescar J, Dedon PC
OpenAccess logo Nat Commun 8 1986 (2017)
PMID: 29215013

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-552162 (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:
Structure domains: Phosphoenolpyruvate-binding domains

Ligands and Environments

6 bound ligands:
Ligand AMP 4 x AMP
Ligand G6P 4 x G6P
Ligand MG 4 x MG
Ligand OXL 4 x OXL
Ligand K 1 x K
Ligand PO4 2 x PO4
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: AUSTRALIAN SYNCHROTRON BEAMLINE MX1
Spacegroup: P31
Unit cell:
a: 125.631Å b: 125.631Å c: 144.514Å
α: 90° β: 90° γ: 120°
R-values:
R R work R free
0.189 0.187 0.228
Expression system: Escherichia coli BL21(DE3)

Quick links

Citations

4 review citations

Metabolic principles of persistence and pathogenicity in Mycobacterium tuberculosis.
Ehrt et al. (2018)
3 more

3 mentions without citation

An overview of structure, function, and regulation of pyruvate kinases.
Schormann et al. (2019)
2 more