› 3e81

X-ray diffraction
1.63Å resolution

Structure-function Analysis of 2-Keto-3-deoxy-D-glycero-D-galacto-nononate-9-phosphate (KDN) Phosphatase Defines a New Clad Within the Type C0 HAD Subfamily

Released:
DOI: 10.2210/pdb3e81/pdb
Model geometry
Fit model/data
PDB entry 3e81 coloured by chain, front view.
PDB entry 3e81 coloured by chain, side view.
PDB entry 3e81 coloured by chain, top view.
Source organism: Bacteroides thetaiotaomicron
Primary publication:
Structure-function analysis of 2-keto-3-deoxy-D-glycero-D-galactonononate-9-phosphate phosphatase defines specificity elements in type C0 haloalkanoate dehalogenase family members.
Lu Z, Wang L, Dunaway-Mariano D, Allen KN
J Biol Chem 284 1224-33 (2009)
PMID: 18986982

Function and Biology Details

Reaction catalysed: 
3-deoxy-D-glycero-beta-D-galacto-non-2-ulopyranosonate 9-phosphate + H(2)O = 3-deoxy-D-glycero-beta-D-galacto-non-2-ulopyranosonate + phosphate
Biochemical function:
Biological process:
  • not assigned
Cellular component:
  • not assigned
Sequence domains:

Structure analysis Details

Assemblies composition:
homo tetramer (preferred)
homo octamer
Assembly name:
PDBe Complex ID:
PDB-CPX-183728 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
2-keto-3-deoxy-D-glycero-D-galacto-9-phosphonononic acid phosphatase Chains: A, B, C, D
Molecule details ›
Chains: A, B, C, D
Length: 164 amino acids
Theoretical weight: 18.36 KDa
Source organism: Bacteroides thetaiotaomicron
Expression system: Escherichia coli
UniProt:
  • Canonical: Q8A712 (Residues: 1-164; Coverage: 100%)
Gene name: BT_1713
Sequence domains: haloacid dehalogenase-like hydrolase
Structure domains: HAD superfamily/HAD-like

Ligands and Environments

5 bound ligands:
Ligand MG 4 x MG
Ligand PEG 6 x PEG
Ligand EDO 6 x EDO
Ligand VN4 4 x VN4
Ligand SLB 4 x SLB
No modified residues

Experiments and Validation Details

wwPDB Validation report is not available for this entry.
X-ray source: RIGAKU RU300
Spacegroup: P21212
Unit cell:
a: 81.958Å b: 106.602Å c: 74.83Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.176 0.174 0.207
Expression system: Escherichia coli

Quick links

Citations

3 review citations

Human HAD phosphatases: structure, mechanism, and roles in health and disease.
Seifried et al. (2013)
2 more

1 mention without citation

Structure-function analysis of 2-keto-3-deoxy-D-glycero-D-galactonononate-9-phosphate phosphatase defines specificity elements in type C0 haloalkanoate dehalogenase family members.
Lu et al. (2009)