› 1qj3

X-ray diffraction
2.7Å resolution

Crystal structure of 7,8-diaminopelargonic acid synthase in complex with 7-keto-8-aminopelargonic acid

Released:
DOI: 10.2210/pdb1qj3/pdb
PDB entry 1qj3 coloured by chain, front view.
PDB entry 1qj3 coloured by chain, side view.
PDB entry 1qj3 coloured by chain, top view.
Source organism: Escherichia coli BL21(DE3)
Primary publication:
Crystal structure of diaminopelargonic acid synthase: evolutionary relationships between pyridoxal-5'-phosphate-dependent enzymes.
Käck H, Sandmark J, Gibson K, Schneider G, Lindqvist Y
J Mol Biol 291 857-76 (1999)
PMID: 10452893

Function and Biology Details

Reaction catalysed: 
S-adenosyl-L-methionine + 8-amino-7-oxononanoate = S-adenosyl-4-methylthio-2-oxobutanoate + 7,8-diaminononanoate
Biochemical function:
Biological process:
Cellular component:
Sequence domains:
Structure domain:

Structure analysis Details

Assembly composition:
homo dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-146421 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Adenosylmethionine-8-amino-7-oxononanoate aminotransferase Chains: A, B
Molecule details ›
Chains: A, B
Length: 429 amino acids
Theoretical weight: 47.31 KDa
Source organism: Escherichia coli BL21(DE3)
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: P12995 (Residues: 1-429; Coverage: 100%)
Gene names: JW0757, b0774, bioA
Sequence domains: Aminotransferase class-III
Structure domains:

Ligands and Environments


Cofactor: Ligand PLP 2 x PLP
2 bound ligands:
Ligand KAP 2 x KAP
Ligand NA 2 x NA
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: RIGAKU FR-D
Spacegroup: P21
Unit cell:
a: 57.97Å b: 55.94Å c: 120.84Å
α: 90° β: 95.69° γ: 90°
R-values:
R R work R free
0.225 0.225 0.279
Expression system: Escherichia coli BL21(DE3)

Quick links

Citations

9 review citations

The manifold of vitamin B6 dependent enzymes.
Schneider et al. (2000)
8 more

4 mentions without citation

Structural characterization of the Mycobacterium tuberculosis biotin biosynthesis enzymes 7,8-diaminopelargonic acid synthase and dethiobiotin synthetase .
Dey et al. (2010)
3 more