› 4p8x

X-ray diffraction
2.48Å resolution

The crystal structures of YKL-39 in the presence of chitooligosaccharides (GlcNAc6) were solved to resolutions of 2.48 angstrom

Released:
DOI: 10.2210/pdb4p8x/pdb
PDB entry 4p8x coloured by chain, front view.
PDB entry 4p8x coloured by chain, side view.
PDB entry 4p8x coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
Structural and thermodynamic insights into chitooligosaccharide binding to human cartilage chitinase 3-like protein 2 (CHI3L2 or YKL-39).
Ranok A, Wongsantichon J, Robinson RC, Suginta W
J Biol Chem 290 2617-29 (2015)
PMID: 25477513

Function and Biology Details

Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
monomeric (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-172395 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecules (2 distinct):
Chitinase-3-like protein 2 Chain: A
Molecule details ›
Chain: A
Length: 371 amino acids
Theoretical weight: 41.62 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: Q15782 (Residues: 27-390; Coverage: 100%)
Gene name: CHI3L2
Sequence domains: Glycosyl hydrolases family 18
Structure domains:

Ligands and Environments

Carbohydrate polymer : NEW Components: NAG
Carbohydrate polymer
1 bound ligand:
Ligand SO4 3 x SO4
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: NSRRC BEAMLINE BL13B1
Spacegroup: P41212
Unit cell:
a: 71.207Å b: 71.207Å c: 141.023Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.19 0.187 0.235
Expression system: Escherichia coli BL21(DE3)

Quick links

Citations

6 review citations

Live and let die: insights into pseudoenzyme mechanisms from structure.
Murphy et al. (2017)
5 more

1 mention without citation

Structural and thermodynamic insights into chitooligosaccharide binding to human cartilage chitinase 3-like protein 2 (CHI3L2 or YKL-39).
Ranok et al. (2015)