7C8G

Structure of alginate lyase AlyC3

7C8G の概要

• エントリーDOI: 10.2210/pdb7c8g/pdb
• 分子名称: Alginate lyase AlyC3, SUCCINIC ACID, GLYCEROL, ... (4 entities in total)
• 機能のキーワード: alginate, alginate lyase, lyase
• 由来する生物種: Psychromonas sp.
• タンパク質・核酸の鎖数: 2
• 化学式量合計: 60818.63

構造登録者

Zhang, Y.Z.,Xu, F.,Chen, X.L.,Wang, P. (登録日: 2020-05-30, 公開日: 2020-10-07, 最終更新日: 2024-10-23)

主引用文献

Xu, F.,Chen, X.L.,Sun, X.H.,Dong, F.,Li, C.Y.,Li, P.Y.,Ding, H.,Chen, Y.,Zhang, Y.Z.,Wang, P.
Structural and molecular basis for the substrate positioning mechanism of a new PL7 subfamily alginate lyase from the arctic.
J.Biol.Chem., 295:16380-16392, 2020

PubMed Abstract: Alginate lyases play important roles in alginate degradation in the ocean. Although a large number of alginate lyases have been characterized, little is yet known about those in extremely cold polar environments, which may have unique mechanisms for environmental adaptation and for alginate degradation. Here, we report the characterization of a novel PL7 alginate lyase AlyC3 from sp. C-3 isolated from the Arctic brown alga , including its phylogenetic classification, catalytic properties, and structure. We propose the establishment of a new PM-specific subfamily of PL7 (subfamily 6) represented by AlyC3 based on phylogenetic analysis and enzymatic properties. Structural and biochemical analyses showed that AlyC3 is a dimer, representing the first dimeric endo-alginate lyase structure. AlyC3 is activated by NaCl and adopts a novel salt-activated mechanism; that is, salinity adjusts the enzymatic activity by affecting its aggregation states. We further solved the structure of an inactive mutant H127A/Y244A in complex with a dimannuronate molecule and proposed the catalytic process of AlyC3 based on structural and biochemical analyses. We show that Arg and Tyr at the two ends of the catalytic canyon help the positioning of the repeated units of the substrate and that His, Tyr, Arg, and Gln mediate the catalytic reaction. Our study uncovers, for the first time, the amino acid residues for alginate positioning in an alginate lyase and demonstrates that such residues involved in alginate positioning are conserved in other alginate lyases. This study provides a better understanding of the mechanisms of alginate degradation by alginate lyases.

PubMed: 32967968
DOI: 10.1074/jbc.RA120.015106

実験手法

X-RAY DIFFRACTION (2.1 Å)