3KRQ

Crystal structure of the complex of lactoperoxidase with a potent inhibitor amino-triazole at 2.2a resolution

3KRQ の概要

• エントリーDOI: 10.2210/pdb3krq/pdb
• 関連するPDBエントリー: 3GC1
• 分子名称: Lactoperoxidase, DI(HYDROXYETHYL)ETHER, alpha-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose, ... (11 entities in total)
• 機能のキーワード: heme, peroxidase, complex, antibiotic, antimicrobial, cleavage on pair of basic residues, disulfide bond, glycoprotein, hydrogen peroxide, iron, metal-binding, secreted, oxidoreductase-oxidoreductase inhibitor complex, oxidoreductase/oxidoreductase inhibitor
• 由来する生物種: Bos taurus (bovine)
• タンパク質・核酸の鎖数: 1
• 化学式量合計: 71974.65

構造登録者

Singh, A.K.,Singh, N.,Sinha, M.,Kushwaha, G.S.,Kaur, P.,Srinivasan, A.,Sharma, S.,Singh, T.P. (登録日: 2009-11-19, 公開日: 2010-05-26, 最終更新日: 2024-11-20)

主引用文献

Singh, A.K.,Singh, N.,Tiwari, A.,Sinha, M.,Kushwaha, G.S.,Kaur, P.,Srinivasan, A.,Sharma, S.,Singh, T.P.
First structural evidence for the mode of diffusion of aromatic ligands and ligand-induced closure of the hydrophobic channel in heme peroxidases
J.Biol.Inorg.Chem., 15:1099-1107, 2010

PubMed Abstract: The mode of binding of aromatic ligands in the substrate binding site on the distal heme side in heme peroxidases is well understood. However, the mode of diffusion through the extended hydrophobic channel and the regulatory role of the channel are not yet clear. To provide answers to these questions, the crystal structure of the complex of lactoperoxidase and 3-amino-1,2,4-triazole (amitrole) has been determined, which revealed the presence of two ligand molecules, one in the substrate binding site and the second in the hydrophobic channel. The binding of ligand in the channel induced a remarkable conformational change in the side chain of Phe254, which flips from its original distant position to interact with the trapped ligand in the hydrophobic channel. As a result, the channel is completely blocked so that no ligand can diffuse through it to the substrate binding site. Another amitrole molecule is bound to lactoperoxidase in the substrate binding site by replacing three water molecules, including the crucial iron-bound water molecule, W1. In this arrangement, the amino nitrogen atom of amitrole occupies the position of W1 and interacts directly with ferric iron. As a consequence, it prevents the binding of H2O2 to heme iron. Thus, the interactions of amitrole with lactoperoxidase obstruct both the passage of ligands through the hydrophobic channel as well as the binding of H2O2. This explains the amitrole toxicity. From binding studies, the dissociation constant (Kd) for amitrole with lactoperoxidase was found to be approximately 5.5x10(-7) M, indicating high affinity.

PubMed: 20461536
DOI: 10.1007/s00775-010-0669-3

実験手法

X-RAY DIFFRACTION (2.25 Å)