› 6v75

X-ray diffraction
2.85Å resolution

Crystal Structure of Human PKM2 in Complex with L-aspartate

Released:
DOI: 10.2210/pdb6v75/pdb
Model geometry
Data not analysed
Fit model/data
Data not analysed
PDB entry 6v75 coloured by chain, front view.
PDB entry 6v75 coloured by chain, side view.
PDB entry 6v75 coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
Biochemical and structural insights into how amino acids regulate pyruvate kinase muscle isoform 2.
Nandi S, Dey M
J Biol Chem 295 5390-5403 (2020)
PMID: 32144209

Function and Biology Details

Reactions catalysed: 
ATP + pyruvate = ADP + phosphoenolpyruvate
ATP + a [protein]-L-tyrosine = ADP + a [protein]-L-tyrosine phosphate
ATP + a protein = ADP + a phosphoprotein
Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
homo tetramer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-146985 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Pyruvate kinase PKM Chains: A, B, C, D
Molecule details ›
Chains: A, B, C, D
Length: 550 amino acids
Theoretical weight: 60.05 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: P14618 (Residues: 1-531; Coverage: 100%)
Gene names: OIP3, PK2, PK3, PKM, PKM2
Sequence domains:

Ligands and Environments

8 bound ligands:
Ligand K 6 x K
Ligand GOL 12 x GOL
Ligand CL 1 x CL
Ligand FBP 4 x FBP
Ligand MG 4 x MG
Ligand OXL 1 x OXL
Ligand ASP 2 x ASP
Ligand PEG 3 x PEG
No modified residues

Experiments and Validation Details

wwPDB Validation report is not available for this entry.
X-ray source: ALS BEAMLINE 4.2.2
Spacegroup: P21
Unit cell:
a: 82.523Å b: 157.955Å c: 93.031Å
α: 90° β: 101.08° γ: 90°
R-values:
R R work R free
0.248 0.246 0.284
Expression system: Escherichia coli

Quick links

Citations

1 review citation

Tumor pyruvate kinase M2 modulators: a comprehensive account of activators and inhibitors as anticancer agents.
Rathod et al. (2021)
7 other articles

1 mention without citation

Biochemical and structural insights into how amino acids regulate pyruvate kinase muscle isoform 2.
Nandi et al. (2020)