› 2dgk

X-ray diffraction
1.9Å resolution

Crystal structure of an N-terminal deletion mutant of Escherichia coli GadB in an autoinhibited state (aldamine)

Released:
DOI: 10.2210/pdb2dgk/pdb
PDB entry 2dgk coloured by chain, front view.
PDB entry 2dgk coloured by chain, side view.
PDB entry 2dgk coloured by chain, top view.
Source organism: Escherichia coli
Primary publication:
Escherichia coli acid resistance: pH-sensing, activation by chloride and autoinhibition in GadB.
Gut H, Pennacchietti E, John RA, Bossa F, Capitani G, De Biase D, Grütter MG
EMBO J 25 2643-51 (2006)
PMID: 16675957

Function and Biology Details

Reaction catalysed: 
L-glutamate = 4-aminobutanoate + CO(2)
Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assemblies composition:
homo hexamer
homo dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-159687 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Glutamate decarboxylase beta Chains: A, B, C, D, E, F
Molecule details ›
Chains: A, B, C, D, E, F
Length: 452 amino acids
Theoretical weight: 51.07 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli
UniProt:
  • Canonical: P69910 (Residues: 15-466; Coverage: 97%)
Gene names: JW1488, b1493, gadB
Sequence domains: Pyridoxal-dependent decarboxylase conserved domain
Structure domains:

Ligands and Environments


Cofactor: Ligand PLP 6 x PLP
2 bound ligands:
Ligand SO4 6 x SO4
Ligand EDO 8 x EDO
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: SLS BEAMLINE X06SA
Spacegroup: P212121
Unit cell:
a: 92.77Å b: 158.56Å c: 201.42Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.218 0.218 0.246
Expression system: Escherichia coli

Quick links

Citations

10 review citations

Molecular aspects of bacterial pH sensing and homeostasis.
Krulwich et al. (2011)
9 more

2 mentions without citation

Escherichia coli acid resistance: pH-sensing, activation by chloride and autoinhibition in GadB.
Gut et al. (2006)
1 more