5YZK

Solution structure of LysM domain from a chitinase derived from Volvox carteri

5YZK の概要

• エントリーDOI: 10.2210/pdb5yzk/pdb
• 関連するPDBエントリー: 5YZ6
• 分子名称: Chitinase, lysozyme (1 entity in total)
• 機能のキーワード: lysin motif, chitin-specific, cbm50, sugar binding protein, hydrolase
• 由来する生物種: Volvox carteri f. nagariensis
• タンパク質・核酸の鎖数: 1
• 化学式量合計: 5290.04

構造登録者

Kitaoku, Y.,Nishimura, S.,Fukamizo, T.,Ohnuma, T. (登録日: 2017-12-15, 公開日: 2018-12-19, 最終更新日: 2024-11-13)

主引用文献

Kitaoku, Y.,Nishimura, S.,Hirono, T.,Suginta, W.,Ohnuma, T.,Fukamizo, T.
Structures and chitin-binding properties of two N-terminal lysin motifs (LysMs) found in a chitinase from Volvox carteri.
Glycobiology, 29:565-575, 2019

PubMed Abstract: Two N-terminal lysin motifs (LysMs) found in a chitinase from the green alga Volvox carteri (VcLysM1 and VcLysM2) were produced, and their structures and chitin-binding properties were characterized. The binding affinities of VcLysM1 toward chitin oligomers determined by isothermal titration calorimetry (ITC) were higher than those of VcLysM2 by 0.8-1.1 kcal/mol of ΔG°. Based on the NMR solution structures of the two LysMs, the differences in binding affinities were found to result from amino acid substitutions at the binding site. The NMR spectrum of a two-domain protein (VcLysM1+2), in which VcLysM1 and VcLysM2 are linked in tandem through a flexible linker, suggested that the individual domains of VcLysM1+2 independently fold and do not interact with each other. ITC analysis of chitin-oligomer binding revealed two different binding sites in VcLysM1+2, showing no cooperativity. The binding affinities of the VcLysM1 domain in VcLysM1+2 were lower than those of VcLysM1 alone, probably due to the flexible linker destabilizing the interaction between the chito-oligosaccahrides and VcLysM1 domain. Overall, two LysMs attached to the chitinase from the primitive plant species, V. carteri, were found to resemble bacterial LysMs reported thus far.

PubMed: 30976779
DOI: 10.1093/glycob/cwz024

実験手法

SOLUTION NMR