› 5fh5

X-ray diffraction
1.55Å resolution

The structure of rat cytosolic PEPCK variant E89Q in complex with phosphoglycolate and GDP

Released:
DOI: 10.2210/pdb5fh5/pdb
PDB entry 5fh5 coloured by chain, front view.
PDB entry 5fh5 coloured by chain, side view.
PDB entry 5fh5 coloured by chain, top view.
Source organism: Rattus norvegicus
Primary publication:
Utilization of Substrate Intrinsic Binding Energy for Conformational Change and Catalytic Function in Phosphoenolpyruvate Carboxykinase.
Johnson TA, Mcleod MJ, Holyoak T
Biochemistry 55 575-87 (2016)
PMID: 26709450

Function and Biology Details

Reaction catalysed: 
GTP + oxaloacetate = GDP + phosphoenolpyruvate + CO(2)
Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
monomeric (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-139574 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Phosphoenolpyruvate carboxykinase, cytosolic [GTP] Chain: A
Molecule details ›
Chain: A
Length: 622 amino acids
Theoretical weight: 69.5 KDa
Source organism: Rattus norvegicus
Expression system: Escherichia coli
UniProt:
  • Canonical: P07379 (Residues: 1-622; Coverage: 100%)
Gene name: Pck1
Sequence domains:
Structure domains:

Ligands and Environments

4 bound ligands:
Ligand MN 2 x MN
Ligand GDP 1 x GDP
Ligand PGA 1 x PGA
Ligand NA 1 x NA
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: SSRL BEAMLINE BL7-1
Spacegroup: P21
Unit cell:
a: 46.176Å b: 119.717Å c: 60.897Å
α: 90° β: 107.29° γ: 90°
R-values:
R R work R free
0.21 0.208 0.237
Expression system: Escherichia coli

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Citations

2 review citations

Integrating multiple regulations on enzyme activity: the case of phosphoenolpyruvate carboxykinases.
Rojas et al. (2023)
1 more