8K7V

the alpha-galactosidase 5 with inhibitor ABP2

8K7V の概要

• エントリーDOI: 10.2210/pdb8k7v/pdb
• EMDBエントリー: 36944
• 分子名称: Alpha-galactosidase, 8-azido-1-((1S,2S,3S,4S,5R,6S)-2,3,4-trihydroxy-5-(hydroxymethyl)-7-azabicyclo[4.1.0]heptan-7-yl)octan-1-one (2 entities in total)
• 機能のキーワード: alpha-galactosidase, hydrolase, inhibitor abp2
• 由来する生物種: Blautia pseudococcoides
• タンパク質・核酸の鎖数: 4
• 化学式量合計: 353438.63

構造登録者

Li, Y.W.,Ru, Y.X. (登録日: 2023-07-27, 公開日: 2024-07-31, 最終更新日: 2025-06-25)

主引用文献

Jiang, J.,Czuchry, D.,Ru, Y.,Peng, H.,Shen, J.,Wang, T.,Zhao, W.,Chen, W.,Sui, S.F.,Li, Y.,Li, N.
Activity-based metaproteomics driven discovery and enzymological characterization of potential alpha-galactosidases in the mouse gut microbiome.
Commun Chem, 7:184-184, 2024

PubMed Abstract: The gut microbiota offers an extensive resource of enzymes, but many remain uncharacterized. To distinguish the activities of similar annotated proteins and mine the potentially applicable ones in the microbiome, we applied an effective Activity-Based Metaproteomics (ABMP) strategy using a specific activity-based probe (ABP) to screen the entire gut microbiome for directly discovering active enzymes and their potential applications, not for exploring host-microbiome interactions. By using an activity-based cyclophellitol aziridine probe specific to α-galactosidases (AGAL), we successfully identified and characterized several gut microbiota enzymes possessing AGAL activities. Cryo-electron microscopy analysis of a newly characterized enzyme (AGLA5) revealed the covalent binding conformations between the AGAL5 active site and the cyclophellitol aziridine ABP, which could provide insights into the enzyme's catalytic mechanism. The four newly characterized AGALs have diverse potential activities, including raffinose family oligosaccharides (RFOs) hydrolysis and enzymatic blood group transformation. Collectively, we present a ABMP platform that facilitates gut microbiota AGALs discovery, biochemical activity annotations and potential industrial or biopharmaceutical applications.

PubMed: 39152233
DOI: 10.1038/s42004-024-01273-5

実験手法

ELECTRON MICROSCOPY (3.17 Å)