1JIA

STRUCTURE OF A BASIC PHOSPHOLIPASE A2 FROM AGKISTRODON HALYS PALLAS AT 2.13A RESOLUTION

1JIA の概要

• エントリーDOI: 10.2210/pdb1jia/pdb
• 分子名称: PHOSPHOLIPASE A2, CALCIUM ION (3 entities in total)
• 機能のキーワード: phospholipase a2, agkistrodon halys pallas crystal structure, phospholipase
• 由来する生物種: Gloydius halys (halys viper)
• 細胞内の位置: Secreted: O42187
• タンパク質・核酸の鎖数: 2
• 化学式量合計: 27926.49

構造登録者

Zhao, K.,Lin, Z. (登録日: 1997-06-09, 公開日: 1998-06-10, 最終更新日: 2024-10-23)

主引用文献

Zhao, K.,Song, S.,Lin, Z.,Zhou, Y.
Structure of a basic phospholipase A2 from Agkistrodon halys Pallas at 2.13 A resolution.
Acta Crystallogr.,Sect.D, 54:510-521, 1998

PubMed Abstract: The basic phospholipase A2 isolated from the venom of Agkistrodon halys Pallas (Agkistrodon blomhoffii Brevicaudus) is a hemolytic toxin and one of the few PLA2's capable of hydrolyzing the phospholipids of E. coli membranes in the presence of a bactericidal/permeability-increasing protein (BPI) of neutrophils. The crystal structure has been determined and refined at 2.13 A to an R factor of 16.5% (F > 3sigma) with excellent stereochemistry. A superposition of the two molecules in the asymmetric unit gives an r. m.s. deviation of 0.326 A for all Calpha atoms. The refined structure allowed a detailed comparison with other PLA2 species of known structures. The overall architecture is similar to those of other PLA2's with a few significant differences. One of which is in the region connecting the N-terminal helix and the Ca2+-binding loop. Unexpectedly, the conformation of the peptide plane Cys29-Gly30 in the Ca2+-binding loop is very different to that of other PLA2's. The amide NH of Gly30 does not point toward the proposed site for stabilization of the tetrahedral intermediate oxyanion of the substrate analogue. The structure includes four residues which occur less frequently in other PLA2's. His1, Arg6 and Trp70 located at the interfacial recognition site may play an important role in the interaction with aggregated substrates, while Trp77 contributes to the hydrophobic interactions between the beta-wing and the main body of the molecule. This structure analysis reveals that two clusters of basic residues are located at or near the interfacial recognition site, forming an asymmetric positively charge distribution. In contrast to the acidic isoform, the present enzyme is a dimer in the crystalline state. The special phospholipid hydrolysis behaviors are discussed in the light of the structure determined.

PubMed: 9761847
DOI: 10.1107/S0907444997013644

実験手法

X-RAY DIFFRACTION (2.13 Å)