2QPQ

Structure of Bug27 from Bordetella pertussis

2QPQ の概要

• エントリーDOI: 10.2210/pdb2qpq/pdb
• 関連するPDBエントリー: 2DVZ 2F5X
• 分子名称: protein Bug27, CITRIC ACID (3 entities in total)
• 機能のキーワード: alpha/beta domain; venus flytrap, transport protein
• 由来する生物種: Bordetella pertussis
• タンパク質・核酸の鎖数: 3
• 化学式量合計: 95569.11

構造登録者

Herrou, J.,Bompard, C. (登録日: 2007-07-25, 公開日: 2007-08-21, 最終更新日: 2024-11-20)

主引用文献

Herrou, J.,Bompard, C.,Antoine, R.,Leroy, A.,Rucktooa, P.,Hot, D.,Huvent, I.,Locht, C.,Villeret, V.,Jacob-Dubuisson, F.
Structure-based mechanism of ligand binding for periplasmic solute-binding protein of the Bug family.
J.Mol.Biol., 373:954-964, 2007

PubMed Abstract: Bug proteins form a large family of periplasmic solute-binding proteins well represented in beta-proteobacteria. They adopt a characteristic Venus flytrap fold with two globular domains bisected by a ligand-binding cleft. The structures of two liganded Bug proteins have revealed that the family is specific for carboxylated solutes, with a characteristic mode of binding involving two highly conserved beta strand-beta turn-alpha helix motifs originating from each domain. These two motifs form hydrogen bonds with a carboxylate group of the ligand, both directly and via conserved water molecules, and have thus been termed the carboxylate pincers. In both crystallized Bug proteins, the ligands were found enclosed between the two domains and inaccessible to solvent, suggesting an inter-domain hinge-bending motion upon ligand binding. We report here the first structures of an open, unliganded Bug protein and of the same protein with a citrate ion bound in the open cavity. One of the ligand carboxylate groups is bound to one half of the carboxylate pincers by the beta strand-beta turn-alpha helix motif from domain 1, and the citrate ion forms several additional interactions with domain 1. The ligand is accessible to solvent and has very few contacts with domain 2. In this open, liganded structure, the second part of the carboxylate pincers originating from domain 2 is not stabilized by ligand binding, and a loop replaces the beta turn. In the unliganded structure, both motifs of the carboxylate pincers are highly mobile, and neither of the two beta turns is formed. Thus, ligand recognition is performed by domain 1, with the carboxylate group serving as an initial anchoring point. Stabilization of the closed conformation requires proper interactions to be established with domain 2, and thus domain 2 discriminates between productively and non-productively bound ligands.

PubMed: 17870093
DOI: 10.1016/j.jmb.2007.08.006

実験手法

X-RAY DIFFRACTION (1.92 Å)