4J3S

Crystal structure of barley limit dextrinase soaked with 300mM maltotetraose

4J3S の概要

• エントリーDOI: 10.2210/pdb4j3s/pdb
• 関連するPDBエントリー: 4J3T 4J3U 4J3V 4J3W 4J3X
• 関連するBIRD辞書のPRD_ID: PRD_900009 PRD_900010
• 分子名称: Limit dextrinase, alpha-D-glucopyranose-(1-4)-alpha-D-glucopyranose-(1-4)-alpha-D-glucopyranose-(1-4)-alpha-D-glucopyranose, alpha-D-glucopyranose-(1-4)-alpha-D-glucopyranose-(1-4)-alpha-D-glucopyranose, ... (7 entities in total)
• 機能のキーワード: gh13 hydrolase, hydrolase
• 由来する生物種: Hordeum vulgare (barley)
• タンパク質・核酸の鎖数: 1
• 化学式量合計: 102477.92

構造登録者

Sim, L.,Windahl, M.S.,Moeller, M.S.,Henriksen, A. (登録日: 2013-02-06, 公開日: 2014-02-12, 最終更新日: 2023-11-08)

主引用文献

Moeller, M.S.,Windahl, M.S.,Sim, L.,Bjstrup, M.,Abou Hachem, M.,Hindsgaul, O.,Palcic, M.,Svensson, B.,Henriksen, A.
Oligosaccharide and substrate binding in the starch debranching enzyme barley limit dextrinase
J.Mol.Biol., 427:1263-1277, 2015

PubMed Abstract: Complete hydrolytic degradation of starch requires hydrolysis of both the α-1,4- and α-1,6-glucosidic bonds in amylopectin. Limit dextrinase (LD) is the only endogenous barley enzyme capable of hydrolyzing the α-1,6-glucosidic bond during seed germination, and impaired LD activity inevitably reduces the maltose and glucose yields from starch degradation. Crystal structures of barley LD and active-site mutants with natural substrates, products and substrate analogues were sought to better understand the facets of LD-substrate interactions that confine high activity of LD to branched maltooligosaccharides. For the first time, an intact α-1,6-glucosidically linked substrate spanning the active site of a LD or pullulanase has been trapped and characterized by crystallography. The crystal structure reveals both the branch and main-chain binding sites and is used to suggest a mechanism for nucleophilicity enhancement in the active site. The substrate, product and analogue complexes were further used to outline substrate binding subsites and substrate binding restraints and to suggest a mechanism for avoidance of dual α-1,6- and α-1,4-hydrolytic activity likely to be a biological necessity during starch synthesis.

PubMed: 25562209
DOI: 10.1016/j.jmb.2014.12.019

実験手法

X-RAY DIFFRACTION (1.75 Å)