6KWF

Crystal Structure Analysis of Endo-beta-1,4-xylanase II Complexed with Xylotriose

6KWF の概要

• エントリーDOI: 10.2210/pdb6kwf/pdb
• 関連するBIRD辞書のPRD_ID: PRD_900117
• 分子名称: Endo-1,4-beta-xylanase 2, beta-D-xylopyranose-(1-4)-beta-D-xylopyranose-(1-4)-beta-D-xylopyranose, beta-D-xylopyranose, ... (6 entities in total)
• 機能のキーワード: xylanase ii, xylotriose, hydrolase
• 由来する生物種: Trichoderma reesei RUT C-30
• タンパク質・核酸の鎖数: 1
• 化学式量合計: 22071.69

構造登録者

Li, C.,Wan, Q. (登録日: 2019-09-06, 公開日: 2020-12-30, 最終更新日: 2023-11-22)

主引用文献

Li, Z.,Zhang, X.,Li, C.,Kovalevsky, A.,Wan, Q.
Studying the Role of a Single Mutation of a Family 11 Glycoside Hydrolase Using High-Resolution X-ray Crystallography.
Protein J., 39:671-680, 2020

PubMed Abstract: XynII is a family 11 glycoside hydrolase that uses the retaining mechanism for catalysis. In the active site, E177 works as the acid/base and E86 works as the nucleophile. Mutating an uncharged residue (N44) to an acidic residue (D) near E177 decreases the enzyme's optimal pH by ~ 1.0 unit. D44 was previously suggested to be a second proton carrier for catalysis. To test this hypothesis, we abolished the activity of E177 by mutating it to be Q, and mutated N44 to be D or E. These double mutants have dramatically decreased activities. Our high-resolution crystallographic structures and the microscopic pK calculations show that D44 has similar position and pK value during catalysis, indicating that D44 changes electrostatics around E177, which makes it prone to rotate as the acid/base in acidic conditions, thus decreases the pH optimum. Our results could be helpful to design enzymes with different pH optimum.

PubMed: 33128114
DOI: 10.1007/s10930-020-09938-5

実験手法

X-RAY DIFFRACTION (1.22 Å)