6AL3 image
Entry Detail
PDB ID:
6AL3
Keywords:
Title:
Lys49 PLA2 BPII derived from the venom of Protobothrops flavoviridis.
Biological Source:
PDB Version:
Deposition Date:
2018-09-05
Release Date:
2019-01-16
Method Details:
Experimental Method:
Resolution:
2.57 Å
R-Value Free:
0.24
R-Value Work:
0.21
R-Value Observed:
0.22
Space Group:
P 64
Macromolecular Entities
Polymer Type:polypeptide(L)
Description:Basic phospholipase A2 BP-II
Chain IDs:A, B, C, D
Chain Length:122
Number of Molecules:4
Biological Source:Protobothrops flavoviridis
Ligand Molecules
Primary Citation
SDS-induced oligomerization of Lys49-phospholipase A2from snake venom.
Sci Rep 9 2330 2330 (2019)
PMID: 30787342 DOI: 10.1038/s41598-019-38861-8

Abstact

Phospholipase A2 (PLA2) is one of the representative toxic components of snake venom. PLA2s are categorized into several subgroups according to the amino acid at position 49, which comprises either Asp49, Lys49, Arg49 or Ser49. Previous studies suggested that the Lys49-PLA2 assembles into an extremely stable dimer. Although the behavior on Sodium dodecyl sulfate-polyacrylamide gel electrophoresis (SDS-PAGE) under reducing or non-reducing conditions suggested the presence of intermolecular disulfide bonds, these bonds were not observed in the crystal structure of Lys49-PLA2. The reason for this discrepancy between the crystal structure and SDS-PAGE of Lys49-PLA2 remains unknown. In this study, we analyzed a Lys49-PLA2 homologue from Protobothrops flavoviridis (PflLys49-PLA2 BPII), by biophysical analyses including X-ray crystallography, SDS-PAGE, native-mass spectrometry, and analytical ultracentrifugation. The results demonstrated that PflLys49-PLA2 BPII spontaneously oligomerized in the presence of SDS, which is one of the strongest protein denaturants.

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Primary Citation of related structures