› 3dt7

X-ray diffraction
1.5Å resolution

The structure of rat cytosolic PEPCK in complex with beta-sulfopyruvate and GTP

Released:
DOI: 10.2210/pdb3dt7/pdb
PDB entry 3dt7 coloured by chain, front view.
PDB entry 3dt7 coloured by chain, side view.
PDB entry 3dt7 coloured by chain, top view.
Source organism: Rattus norvegicus
Primary publication:
Enzymes with lid-gated active sites must operate by an induced fit mechanism instead of conformational selection.
Sullivan SM, Holyoak T
Proc Natl Acad Sci U S A 105 13829-34 (2008)
PMID: 18772387

Function and Biology Details

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

Structure analysis Details

Assemblies composition:
monomeric (preferred)
homo dimer
Assembly name:
PDBe Complex ID:
PDB-CPX-139574 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Phosphoenolpyruvate carboxykinase, cytosolic [GTP] Chains: A, B
Molecule details ›
Chains: A, B
Length: 624 amino acids
Theoretical weight: 69.64 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

6 bound ligands:
Ligand MN 5 x MN
Ligand NA 2 x NA
Ligand GTP 2 x GTP
Ligand SPV 2 x SPV
Ligand 1PE 1 x 1PE
Ligand ETX 2 x ETX
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: APS BEAMLINE 14-BM-C
Spacegroup: P21
Unit cell:
a: 62.019Å b: 119.503Å c: 87.283Å
α: 90° β: 107.07° γ: 90°
R-values:
R R work R free
0.176 0.174 0.209
Expression system: Escherichia coli

Quick links

Citations

17 review citations

Enzyme dynamics point to stepwise conformational selection in catalysis.
Ma et al. (2010)
16 more

7 mentions without citation

Enzymes with lid-gated active sites must operate by an induced fit mechanism instead of conformational selection.
Sullivan et al. (2008)
6 more