› 1qd9

X-ray diffraction
1.7Å resolution

Bacillus subtilis YABJ

Released:
DOI: 10.2210/pdb1qd9/pdb
PDB entry 1qd9 coloured by chain, front view.
PDB entry 1qd9 coloured by chain, side view.
PDB entry 1qd9 coloured by chain, top view.
Source organism: Bacillus subtilis
Primary publication:
Crystal structure of Bacillus subtilis YabJ, a purine regulatory protein and member of the highly conserved YjgF family.
Sinha S, Rappu P, Lange SC, Mäntsälä P, Zalkin H, Smith JL
Proc Natl Acad Sci U S A 96 13074-9 (1999)
PMID: 10557275

Function and Biology Details

Reaction catalysed: 
2-iminobutanoate + H(2)O = 2-oxobutanoate + NH(3)
Biochemical function:
Biological process:
Cellular component:
Sequence domains:
Structure domain:

Structure analysis Details

Assembly composition:
homo trimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-153427 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
2-iminobutanoate/2-iminopropanoate deaminase Chains: A, B, C
Molecule details ›
Chains: A, B, C
Length: 124 amino acids
Theoretical weight: 13.54 KDa
Source organism: Bacillus subtilis
Expression system: Escherichia coli
UniProt:
  • Canonical: P37552 (Residues: 2-125; Coverage: 99%)
Gene names: BSU00480, ridA, yabJ
Sequence domains: Endoribonuclease L-PSP
Structure domains: RutC-like

Ligands and Environments

3 bound ligands:
Ligand HG 1 x HG
Ligand ACY 6 x ACY
Ligand EMC 2 x EMC
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: APS BEAMLINE 14-BM-D
Spacegroup: P65
Unit cell:
a: 53.35Å b: 53.35Å c: 204.96Å
α: 90° β: 90° γ: 120°
R-values:
R R work R free
0.166 0.166 0.197
Expression system: Escherichia coli

Quick links

Citations

6 review citations

A tour of structural genomics.
Brenner SE. (2001)
5 more

9 mentions without citation

RidA Proteins Protect against Metabolic Damage by Reactive Intermediates.
Irons et al. (2020)
8 more