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

Araya Ranok, Jantana Wongsantichon, Robert C. Robinson, Wipa Suginta

Research output: Contribution to journalArticle

16 Citations (Scopus)

Abstract

Four crystal structures of human YKL-39 were solved in the absence and presence of chitooligosaccharides. The structure of YKL-39 comprises a major (β/α)8 triose-phosphate isomerase barrel domain and a small α + β insertion domain. Structural analysis demonstrates that YKL-39 interacts with chitooligosaccharides through hydrogen bonds and hydrophobic interactions. The binding of chitin fragments induces local conformational changes that facilitate tight binding. Compared with other GH-18 members, YKL-39 has the least extended chitin-binding cleft, containing five subsites for sugars, namely (-3)(-2)(-1)(+1)(+2), with Trp-360 playing a prominent role in the sugar-protein interactions at the center of the chitin-binding cleft. Evaluation of binding affinities obtained from isothermal titration calorimetry and intrinsic fluorescence spectroscopy suggests that YKL-39 binds to chitooligosaccharides with Kd values in the micromolar concentration range and that the binding energies increase with the chain length. There were no significant differences between the Kd values of chitopentaose and chitohexaose, supporting the structural evidence for the five binding subsite topology. Thermodynamic analysis indicates that binding of chitooligosaccharide to YKL-39 is mainly driven by enthalpy.

Original languageEnglish
Pages (from-to)2617-2629
Number of pages13
JournalJournal of Biological Chemistry
Volume290
Issue number5
DOIs
Publication statusPublished - Jan 30 2015
Externally publishedYes

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Chitinases
Cartilage
Thermodynamics
Chitin
Sugars
Proteins
Triose-Phosphate Isomerase
Calorimetry
Fluorescence Spectrometry
Fluorescence spectroscopy
Binding energy
Titration
Hydrophobic and Hydrophilic Interactions
Chain length
Structural analysis
Hydrogen
Enthalpy
Hydrogen bonds
Crystal structure
Topology

ASJC Scopus subject areas

  • Biochemistry
  • Molecular Biology
  • Cell Biology

Cite this

Structural and thermodynamic insights into chitooligosaccharide binding to human cartilage chitinase 3-like protein 2 (CHI3L2 or YKL-39). / Ranok, Araya; Wongsantichon, Jantana; Robinson, Robert C.; Suginta, Wipa.

In: Journal of Biological Chemistry, Vol. 290, No. 5, 30.01.2015, p. 2617-2629.

Research output: Contribution to journalArticle

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