1GP7

Acidic Phospholipase A2 from venom of Ophiophagus Hannah


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.60 Å
  • R-Value Free: 0.233 
  • R-Value Work: 0.205 
  • R-Value Observed: 0.205 

wwPDB Validation   3D Report Full Report


This is version 1.2 of the entry. See complete history


Literature

Structure of a Cardiotoxic Phospholipase A(2) from Ophiophagus Hannah with the "Pancreatic Loop"

Zhang, H.Xu, S.Wang, Q.Song, S.Shu, Y.Lin, Z.

(2002) J Struct Biol 138: 207

  • DOI: 10.1016/s1047-8477(02)00022-9
  • Primary Citation of Related Structures:  
    1GP7

  • PubMed Abstract: 
  • The crystal structure of an acidic phospholipase A(2) from Ophiophagus hannah (king cobra) has been determined by molecular replacement at 2.6-A resolution to a crystallographic R factor of 20.5% (R(free)=23.3%) with reasonable stereochemistry. The venom enzyme contains an unusual "pancreatic loop ...

    The crystal structure of an acidic phospholipase A(2) from Ophiophagus hannah (king cobra) has been determined by molecular replacement at 2.6-A resolution to a crystallographic R factor of 20.5% (R(free)=23.3%) with reasonable stereochemistry. The venom enzyme contains an unusual "pancreatic loop." The conformation of the loop is well defined and different from those in pancreas PLA(2), showing its structural variability. This analysis provides the first structure of a PLA(2)-type cardiotoxin. The sites related to the cardiotoxic and myotoxic activities are explored and the oligomer observed in the crystalline state is described.


    Related Citations: 
    • Crystallization and Preliminary X-Ray Analysis of Cardiotoxic Phospholipase A2 from Ophiophagus Hannah (King Cobra)
      Wang, Z., Zhuang, M., Shu, Y., Zhang, H., Song, S., Lin, Z.
      (2001) Acta Crystallogr D Biol Crystallogr D57: 709

    Organizational Affiliation

    National Laboratory of Biomacromolecules, Institute of Biophysics, 100101, Beijing, China.



Macromolecules
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
PHOSPHOLIPASE A2A, B, C151Ophiophagus hannahMutation(s): 0 
EC: 3.1.1.4
Membrane Entity: Yes 
UniProt
Find proteins for P80966 (Ophiophagus hannah)
Explore P80966 
Go to UniProtKB:  P80966
Protein Feature View
Expand
  • Reference Sequence
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
CA
Query on CA

Download Ideal Coordinates CCD File 
D [auth A], E [auth B], F [auth C]CALCIUM ION
Ca
BHPQYMZQTOCNFJ-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.60 Å
  • R-Value Free: 0.233 
  • R-Value Work: 0.205 
  • R-Value Observed: 0.205 
  • Space Group: C 1 2 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 117.92α = 90
b = 62.94β = 100.93
c = 57.16γ = 90
Software Package:
Software NamePurpose
CNSrefinement
DENZOdata reduction
SCALEPACKdata scaling
AMoREphasing

Structure Validation

View Full Validation Report




Entry History 

Deposition Data

  • Deposited Date: 2001-10-30 
  • Released Date: 2002-10-31 
  • Deposition Author(s): Zhang, H., Lin, Z.

Revision History  (Full details and data files)

  • Version 1.0: 2002-10-31
    Type: Initial release
  • Version 1.1: 2011-05-08
    Changes: Version format compliance
  • Version 1.2: 2011-07-13
    Changes: Version format compliance