1H5O | pdb_00001h5o

Solution structure of Crotamine, a neurotoxin from Crotalus durissus terrificus


Experimental Data Snapshot

  • Method: SOLUTION NMR
  • Conformers Calculated: 50 
  • Conformers Submitted: 26 
  • Selection Criteria: LEAST RESTRAINT VIOLATION, LEAST RESIDUAL DEVIATIONS FROM IDEALIZED GEOMETRY 

wwPDB Validation 3D Report Full Report

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Literature

Solution Structure of Crotamine, a Na+ Channel Affecting Toxin from Crotalus Durissus Terrificus Venom

Nicastro, G.Franzoni, L.De Chiara, C.Mancin, A.C.A.Giglio, J.R.Spisni, A.

(2003) Eur J Biochem 270: 1969

  • DOI: https://doi.org/10.1046/j.1432-1033.2003.03563.x
  • Primary Citation Related Structures: 
    1H5O

  • PubMed Abstract: 

    Crotamine is a component of the venom of the snake Crotalus durissus terrificus and it belongs to the myotoxin protein family. It is a 42 amino acid toxin cross-linked by three disulfide bridges and characterized by a mild toxicity (LD50 = 820 micro g per 25 g body weight, i.p. injection) when compared to other members of the same family. Nonetheless, it possesses a wide spectrum of biological functions. In fact, besides being able to specifically modify voltage-sensitive Na+ channel, it has been suggested to exhibit analgesic activity and to be myonecrotic. Here we report its solution structure determined by proton NMR spectroscopy. The secondary structure comprises a short N-terminal alpha-helix and a small antiparallel triple-stranded beta-sheet arranged in an alphabeta1beta2beta3 topology never found among toxins active on ion channels. Interestingly, some scorpion toxins characterized by a biological activity on Na+ channels similar to the one reported for crotamine, exhibit an alpha/beta fold, though with a beta1alphabeta2beta3 topology. In addition, as the antibacterial beta-defensins, crotamine interacts with lipid membranes. A comparison of crotamine with human beta-defensins shows a similar fold and a comparable net positive potential surface. To the best of our knowledge, this is the first report on the structure of a toxin from snake venom active on Na+ channel.


  • Organizational Affiliation
    • Department of Experimental Medicine, Section of Chemistry and Structural Biochemistry, University of Parma, Italy.

Macromolecule Content 

  • Total Structure Weight: 4.9 kDa 
  • Atom Count: 339 
  • Modeled Residue Count: 42 
  • Deposited Residue Count: 42 
  • Unique protein chains: 1

Macromolecules

Find similar proteins by:|  3D Structure
Entity ID: 1
MoleculeChains  Sequence LengthOrganismDetailsImage
Crotamine42Crotalus durissus terrificusMutation(s): 0 
UniProt
Find proteins for Q9PWF3 (Crotalus durissus terrificus)
Explore Q9PWF3 
Go to UniProtKB:  Q9PWF3
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ9PWF3
Sequence Annotations
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Reference Sequence

Experimental Data & Validation

Experimental Data

  • Method: SOLUTION NMR
  • Conformers Calculated: 50 
  • Conformers Submitted: 26 
  • Selection Criteria: LEAST RESTRAINT VIOLATION, LEAST RESIDUAL DEVIATIONS FROM IDEALIZED GEOMETRY 

Structure Validation

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Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2003-05-09
    Type: Initial release
  • Version 1.1: 2013-07-24
    Changes: Derived calculations, Other, Structure summary, Version format compliance
  • Version 1.2: 2024-11-20
    Changes: Data collection, Database references, Structure summary
  • Version 2.0: 2024-12-04
    Changes: Advisory, Atomic model, Data collection, Database references, Derived calculations, Source and taxonomy, Structure summary