1M8S

Crystal Structures of Cadmium-binding Acidic Phospholipase A2 from the Venom of Agkistrodon halys pallas at 1.9 Resolution (crystal grown at pH 5.9)

1M8S の概要

• エントリーDOI: 10.2210/pdb1m8s/pdb
• 関連するPDBエントリー: 1BK9 1M8R 1PSJ
• 分子名称: phospholipase a2, CADMIUM ION, 1,4-BUTANEDIOL, ... (4 entities in total)
• 機能のキーワード: phopholipase a2-metal cation complex, three alpha, two beta, hydrolase
• 由来する生物種: Gloydius halys (halys viper)
• 細胞内の位置: Secreted: P14418
• タンパク質・核酸の鎖数: 1
• 化学式量合計: 14249.34

構造登録者

Xu, S.,Gu, L.,Zhou, Y.,Lin, Z. (登録日: 2002-07-25, 公開日: 2003-02-11, 最終更新日: 2024-10-23)

主引用文献

Xu, S.,Gu, L.,Jiang, T.,Zhou, Y.,Lin, Z.
Structures of cadmium-binding acidic phospholipase A(2) from the venom of Agkistrodon halys Pallas at 1.9A resolutio
Biochem.Biophys.Res.Commun., 300:271-277, 2003

PubMed Abstract: Phospholipase A(2) coordinates Ca(2+) ion through three carbonyl oxygen atoms of residues 28, 30, and 32, two carboxyl oxygen atoms of residue Asp49, and two (or one) water molecules, forming seven (or six) coordinate geometry of Ca(2+) ligands. Two crystal structures of cadmium-binding acidic phospholipase A(2) from the venom of Agkistrodon halys Pallas (i.e., Agkistrodon blomhoffii brevicaudus) at different pH values (5.9 and 7.4) were determined to 1.9A resolution by the isomorphous difference Fourier method. The well-refined structures revealed that a Cd(2+) ion occupied the position expected for a Ca(2+) ion, and that the substitution of Cd(2+) for Ca(2+) resulted in detectable changes in the metal-binding region: one of the carboxyl oxygen atoms from residue Asp49 was farther from the metal ion while the other one was closer and there were no water molecules coordinating to the metal ion. Thus the Cd(2+)-binding region appears to have four coordinating oxygen ligands. The cadmium binding to the enzyme induced no other significant conformational change in the enzyme molecule elsewhere. The mechanism for divalent cadmium cation to support substrate binding but not catalysis is discussed.

PubMed: 12504079
DOI: 10.1016/S0006-291X(02)02833-4

実験手法

X-RAY DIFFRACTION (1.9 Å)