7B8B

ADPG2 - ENDOPOLYGALACTURONASE FROM ARABIDOPSIS THALIANA

7B8B の概要

• エントリーDOI: 10.2210/pdb7b8b/pdb
• 関連するPDBエントリー: 7B7A
• 分子名称: Polygalacturonase ADPG2, PHOSPHATE ION (3 entities in total)
• 機能のキーワード: pectinase, beta-sheets, hydrolase, gh28
• 由来する生物種: Arabidopsis thaliana (Mouse-ear cress)
• タンパク質・核酸の鎖数: 2
• 化学式量合計: 90465.88

構造登録者

Safran, J.,Tabi, W.,Habrylo, O.,Bouckaert, J.,Lefebvre, V.,Senechal, F.,Pelloux, J. (登録日: 2020-12-12, 公開日: 2022-06-22, 最終更新日: 2024-11-13)

主引用文献

Safran, J.,Tabi, W.,Ung, V.,Lemaire, A.,Habrylo, O.,Bouckaert, J.,Rouffle, M.,Voxeur, A.,Pongrac, P.,Bassard, S.,Molinie, R.,Fontaine, J.X.,Pilard, S.,Pau-Roblot, C.,Bonnin, E.,Larsen, D.S.,Morel-Rouhier, M.,Girardet, J.M.,Lefebvre, V.,Senechal, F.,Mercadante, D.,Pelloux, J.
Plant polygalacturonase structures specify enzyme dynamics and processivities to fine-tune cell wall pectins.
Plant Cell, 2023

PubMed Abstract: Polygalacturonases (PGs) fine-tune pectins to modulate cell wall chemistry and mechanics, impacting plant development. The large number of PGs encoded in plant genomes leads to questions on the diversity and specificity of distinct isozymes. Herein, we report the crystal structures of 2 Arabidopsis thaliana PGs, POLYGALACTURONASE LATERAL ROOT (PGLR), and ARABIDOPSIS DEHISCENCE ZONE POLYGALACTURONASE2 (ADPG2), which are coexpressed during root development. We first determined the amino acid variations and steric clashes that explain the absence of inhibition of the plant PGs by endogenous PG-inhibiting proteins (PGIPs). Although their beta helix folds are highly similar, PGLR and ADPG2 subsites in the substrate binding groove are occupied by divergent amino acids. By combining molecular dynamic simulations, analysis of enzyme kinetics, and hydrolysis products, we showed that these structural differences translated into distinct enzyme-substrate dynamics and enzyme processivities: ADPG2 showed greater substrate fluctuations with hydrolysis products, oligogalacturonides (OGs), with a degree of polymerization (DP) of ≤4, while the DP of OGs generated by PGLR was between 5 and 9. Using the Arabidopsis root as a developmental model, exogenous application of purified enzymes showed that the highly processive ADPG2 had major effects on both root cell elongation and cell adhesion. This work highlights the importance of PG processivity on pectin degradation regulating plant development.

PubMed: 37202370
DOI: 10.1093/plcell/koad134

実験手法

X-RAY DIFFRACTION (2.03 Å)