› 1z3z

X-ray diffraction
2.9Å resolution

The crystal structure of a DGD mutant: Q52A

Released:
DOI: 10.2210/pdb1z3z/pdb
PDB entry 1z3z coloured by chain, front view.
PDB entry 1z3z coloured by chain, side view.
PDB entry 1z3z coloured by chain, top view.
Source organism: Burkholderia cepacia
Primary publication:
Role of Q52 in catalysis of decarboxylation and transamination in dialkylglycine decarboxylase.
Fogle EJ, Liu W, Woon ST, Keller JW, Toney MD
Biochemistry 44 16392-404 (2005)
PMID: 16342932

Function and Biology Details

Reaction catalysed: 
2,2-dialkylglycine + pyruvate = dialkyl ketone + CO(2) + L-alanine
Biochemical function:
Biological process:
Cellular component:
  • not assigned
Sequence domains:
Structure domain:

Structure analysis Details

Assembly composition:
monomeric (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-147845 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
2,2-dialkylglycine decarboxylase Chain: A
Molecule details ›
Chain: A
Length: 431 amino acids
Theoretical weight: 46.3 KDa
Source organism: Burkholderia cepacia
Expression system: Escherichia coli
UniProt:
  • Canonical: P16932 (Residues: 3-433; Coverage: 100%)
Gene name: dgdA
Sequence domains: Aminotransferase class-III
Structure domains:

Ligands and Environments


Cofactor: Ligand PLP 1 x PLP
3 bound ligands:
Ligand NA 1 x NA
Ligand K 1 x K
Ligand MES 1 x MES
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: BRUKER
Spacegroup: P6422
Unit cell:
a: 150.04Å b: 150.04Å c: 84.42Å
α: 90° β: 90° γ: 120°
R-values:
R R work R free
0.248 0.209 0.266
Expression system: Escherichia coli

Quick links

Citations

5 review citations

Controlling reaction specificity in pyridoxal phosphate enzymes.
Toney MD. (2011)
4 more

1 mention without citation

Interactive comparison and remediation of collections of macromolecular structures.
Moriarty et al. (2018)