1CXN

REFINED THREE-DIMENSIONAL SOLUTION STRUCTURE OF A SNAKE CARDIOTOXIN: ANALYSIS OF THE SIDE-CHAIN ORGANISATION SUGGESTS THE EXISTENCE OF A POSSIBLE PHOSPHOLIPID BINDING SITE


Experimental Data Snapshot

  • Method: SOLUTION NMR
  • Conformers Submitted: 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

Refined three-dimensional solution structure of a snake cardiotoxin: analysis of the side-chain organization suggests the existence of a possible phospholipid binding site.

Gilquin, B.Roumestand, C.Zinn-Justin, S.Menez, A.Toma, F.

(1993) Biopolymers 33: 1659-1675

  • DOI: 10.1002/bip.360331104
  • Primary Citation of Related Structures:  1CXO

  • PubMed Abstract: 
  • The solution structure of toxin gamma (60 residues, 4 disulfides) from Naja nigricollis was determined by proton nmr and molecular modeling with DIANA and X-PLOR. The structures were calculated using 489 distance and 81 dihedral angle constraints. Th ...

    The solution structure of toxin gamma (60 residues, 4 disulfides) from Naja nigricollis was determined by proton nmr and molecular modeling with DIANA and X-PLOR. The structures were calculated using 489 distance and 81 dihedral angle constraints. The average atomic rms deviation between the nine refined structures and the average structure is 0.118 nm for the backbone atoms. Toxin gamma has an overall folding consisting of three loops stabilized by the four disulfides and forming a two- and a three-stranded beta-sheet (loop I and loops II, III, respectively). The same type of folding has been observed for two homologous cardiotoxins. The very close similarity of the solution structure of toxin gamma and the crystal structure of toxin VII4 includes details of the topological arrangement of numerous side chains. Among these are the conserved residues K12, K18, K35, and Y22, known to be critical for the cytolytic activity of toxin gamma. A cluster of hydrophobic side chains organized around Y22 is found on one side of the three-stranded beta-sheet and is spatially close to a group of three lysines (K12, K18, K35). The side chains of these lysines form a cationic site that can accommodate the binding of a phosphate ion as found in the crystal structure of toxin VII4. The hydrophobic cluster constitutes a possible binding site for the hydrophobic moiety of phospholipids. Together with the complementary cationic site, this hydrophobic surface can form a conserved site by which cardiotoxins bind to membrane phospholipids.


    Related Citations: 
    • Proton NMR Studies of the Structural and Dynamical Effects of Chemical Modification of Single Aromatic Side Chain in a Snake Cardiotoxin: Relation with the Structure of the Putative Binding Site and the Cytolitic Activity of the Toxin
      Roumestand, C.,Gilquin, B.,Tremeau, O.,Gatineau, E.,Mouawad, L.,Menez, A.,Toma, F.
      () TO BE PUBLISHED --: --


    Organizational Affiliation

    Département d'Ingénierie et d'Etude des Protéines, CE-Saclay, Gif-sur-Yvette, France.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
CARDIOTOXIN GAMMA
A
60Naja pallidaN/A
Find proteins for P01468 (Naja pallida)
Go to UniProtKB:  P01468
Experimental Data & Validation

Experimental Data

  • Method: SOLUTION NMR
  • Conformers Submitted: 
Software Package:
Software NamePurpose
X-PLORrefinement
X-PLORmodel building
X-PLORphasing

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 1994-12-20
    Type: Initial release
  • Version 1.1: 2008-03-24
    Type: Version format compliance
  • Version 1.2: 2011-07-13
    Type: Version format compliance