7QFD

Crystal structure of a bacterial pyranose 2-oxidase complex with D-glucose

7QFD の概要

• エントリーDOI: 10.2210/pdb7qfd/pdb
• 分子名称: GMC oxidoreductase family protein, FLAVIN-ADENINE DINUCLEOTIDE, alpha-D-glucopyranose, ... (6 entities in total)
• 機能のキーワード: p2ox, fad, bacteria, glucose, flavoproteins, oxidoreductase
• 由来する生物種: Pseudarthrobacter siccitolerans
• タンパク質・核酸の鎖数: 1
• 化学式量合計: 56581.60

構造登録者

Borges, P.T.,Frazao, T.,Taborda, A.,Frazao, C.,Martins, L.O. (登録日: 2021-12-05, 公開日: 2023-07-05, 最終更新日: 2024-05-01)

主引用文献

Taborda, A.,Frazao, T.,Rodrigues, M.V.,Fernandez-Luengo, X.,Sancho, F.,Lucas, M.F.,Frazao, C.,Melo, E.P.,Ventura, M.R.,Masgrau, L.,Borges, P.T.,Martins, L.O.
Mechanistic insights into glycoside 3-oxidases involved in C-glycoside metabolism in soil microorganisms.
Nat Commun, 14:7289-7289, 2023

PubMed Abstract: C-glycosides are natural products with important biological activities but are recalcitrant to degradation. Glycoside 3-oxidases (G3Oxs) are recently identified bacterial flavo-oxidases from the glucose-methanol-coline (GMC) superfamily that catalyze the oxidation of C-glycosides with the concomitant reduction of O to HO. This oxidation is followed by C-C acid/base-assisted bond cleavage in two-step C-deglycosylation pathways. Soil and gut microorganisms have different oxidative enzymes, but the details of their catalytic mechanisms are largely unknown. Here, we report that PsG3Ox oxidizes at 50,000-fold higher specificity (k/K) the glucose moiety of mangiferin to 3-keto-mangiferin than free D-glucose to 2-keto-glucose. Analysis of PsG3Ox X-ray crystal structures and PsG3Ox in complex with glucose and mangiferin, combined with mutagenesis and molecular dynamics simulations, reveal distinctive features in the topology surrounding the active site that favor catalytically competent conformational states suitable for recognition, stabilization, and oxidation of the glucose moiety of mangiferin. Furthermore, their distinction to pyranose 2-oxidases (P2Oxs) involved in wood decay and recycling is discussed from an evolutionary, structural, and functional viewpoint.

PubMed: 37963862
DOI: 10.1038/s41467-023-42000-3

実験手法

X-RAY DIFFRACTION (2.35 Å)