› 1w3y

X-ray diffraction
1.65Å resolution

Crystal structure of S. pneumoniae hyaluronate lyase in complex with palmitoyl-vitamin C

Released:
DOI: 10.2210/pdb1w3y/pdb
PDB entry 1w3y coloured by chain, front view.
PDB entry 1w3y coloured by chain, side view.
PDB entry 1w3y coloured by chain, top view.
Source organism: Streptococcus pneumoniae
Primary publication:
L-Ascorbic acid 6-hexadecanoate, a potent hyaluronidase inhibitor. X-ray structure and molecular modeling of enzyme-inhibitor complexes.
Botzki A, Rigden DJ, Braun S, Nukui M, Salmen S, Hoechstetter J, Bernhardt G, Dove S, Jedrzejas MJ, Buschauer A
J Biol Chem 279 45990-7 (2004)
PMID: 15322107

Function and Biology Details

Reaction catalysed: 
Cleaves hyaluronate chains at a beta-D-GlcNAc-(1->4)-beta-D-GlcA bond, ultimately breaking the polysaccharide down to 3-(4-deoxy-beta-D-gluc-4-enuronosyl)-N-acetyl-D-glucosamine
Biochemical function:
Biological process:
Cellular component:
Sequence domains:
Structure domains:

Structure analysis Details

Assembly composition:
monomeric (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-176228 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Hyaluronate lyase Chain: A
Molecule details ›
Chain: A
Length: 731 amino acids
Theoretical weight: 83.56 KDa
Source organism: Streptococcus pneumoniae
Expression system: Escherichia coli
UniProt:
  • Canonical: Q54873 (Residues: 285-1009; Coverage: 70%)
Gene name: SP_0314
Sequence domains:
Structure domains:

Ligands and Environments

3 bound ligands:
Ligand PVC 1 x PVC
Ligand XYL 2 x XYL
Ligand SO4 5 x SO4
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: ALS BEAMLINE 5.0.1
Spacegroup: P212121
Unit cell:
a: 84.131Å b: 102.714Å c: 102.41Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.192 0.192 0.21
Expression system: Escherichia coli

Quick links

Citations

13 review citations

Hyaluronidases: their genomics, structures, and mechanisms of action.
Stern et al. (2006)
12 more

2 mentions without citation

Rapid catalytic template searching as an enzyme function prediction procedure.
Nilmeier et al. (2013)
1 more