› 1vd5

X-ray diffraction
1.8Å resolution

Crystal Structure of Unsaturated Glucuronyl Hydrolase, Responsible for the Degradation of Glycosaminoglycan, from Bacillus sp. GL1 at 1.8 A Resolution

Released:
DOI: 10.2210/pdb1vd5/pdb
PDB entry 1vd5 coloured by chain, front view.
PDB entry 1vd5 coloured by chain, side view.
PDB entry 1vd5 coloured by chain, top view.
Source organism: Bacillus sp. GL1
Primary publication:
Crystal structure of unsaturated glucuronyl hydrolase, responsible for the degradation of glycosaminoglycan, from Bacillus sp. GL1 at 1.8 A resolution.
Itoh T, Akao S, Hashimoto W, Mikami B, Murata K
J Biol Chem 279 31804-12 (2004)
PMID: 15148314

Function and Biology Details

Reaction catalysed: 
Beta-D-4-deoxy-Delta(4)-GlcAp-(1->4)-beta-D-Glcp-(1->4)-alpha-L-Rhap-(1->3)-D-Glcp + H(2)O = 5-dehydro-4-deoxy-D-glucuronate + beta-D-Glcp-(1->4)-alpha-L-Rhap-(1->3)-D-Glcp
Biochemical function:
Biological process:
Cellular component:
Sequence domains:
Structure domain:

Structure analysis Details

Assembly composition:
monomeric (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-193139 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Unsaturated glucuronyl hydrolase Chain: A
Molecule details ›
Chain: A
Length: 377 amino acids
Theoretical weight: 42.91 KDa
Source organism: Bacillus sp. GL1
Expression system: Escherichia coli
UniProt:
  • Canonical: Q9RC92 (Residues: 1-377; Coverage: 100%)
Gene name: ugl
Sequence domains: Glycosyl Hydrolase Family 88
Structure domains: Glycosyltransferase

Ligands and Environments

3 bound ligands:
Ligand GLY 4 x GLY
Ligand DTT 2 x DTT
Ligand MPD 1 x MPD
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: SPRING-8 BEAMLINE BL38B1
Spacegroup: P6522
Unit cell:
a: 103.012Å b: 103.012Å c: 223.039Å
α: 90° β: 90° γ: 120°
R-values:
R R work R free
0.168 0.168 0.189
Expression system: Escherichia coli

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Citations

1 review citation

Enzymatic deconstruction of backbone structures of the ramified regions in pectins.
Wong D. (2008)
23 other articles

4 mentions without citation

Substrate specificity of streptococcal unsaturated glucuronyl hydrolases for sulfated glycosaminoglycan.
Maruyama et al. (2009)
3 more