› 1dbs

X-ray diffraction
1.8Å resolution

MECHANISTIC IMPLICATIONS AND FAMILY RELATIONSHIPS FROM THE STRUCTURE OF DETHIOBIOTIN SYNTHETASE

Released:
DOI: 10.2210/pdb1dbs/pdb
PDB entry 1dbs coloured by chain, front view.
PDB entry 1dbs coloured by chain, side view.
PDB entry 1dbs coloured by chain, top view.
Source organism: Escherichia coli
Primary publication:
Mechanistic implications and family relationships from the structure of dethiobiotin synthetase.
Alexeev D, Baxter RL, Sawyer L
Structure 2 1061-72 (1994)
PMID: 7881906

Function and Biology Details

Reaction catalysed: 
ATP + 7,8-diaminononanoate + CO(2) = ADP + phosphate + dethiobiotin
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-146426 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
ATP-dependent dethiobiotin synthetase BioD 1 Chain: A
Molecule details ›
Chain: A
Length: 224 amino acids
Theoretical weight: 24.03 KDa
Source organism: Escherichia coli
Expression system: Not provided
UniProt:
  • Canonical: P13000 (Residues: 2-225; Coverage: 100%)
Gene names: JW0761, b0778, bioD1
Sequence domains: CobQ/CobB/MinD/ParA nucleotide binding domain
Structure domains: P-loop containing nucleotide triphosphate hydrolases

Ligands and Environments

1 bound ligand:
Ligand SO4 3 x SO4
No modified residues

Experiments and Validation Details

Entry percentile scores
Spacegroup: C2
Unit cell:
a: 72.874Å b: 49Å c: 61.309Å
α: 90° β: 106.38° γ: 90°
R-values:
R R work R free
0.179 0.179 not available
Expression system: Not provided

Quick links

Citations

3 review citations

Structural enzymology of biotin biosynthesis.
Schneider et al. (2001)
2 more

3 mentions without citation

Crystal structure of Escherichia coli cytidine triphosphate synthetase, a nucleotide-regulated glutamine amidotransferase/ATP-dependent amidoligase fusion protein and homologue of anticancer and antiparasitic drug targets.
Endrizzi et al. (2004)
2 more