1D6B

SOLUTION STRUCTURE OF DEFENSIN-LIKE PEPTIDE-2 (DLP-2) FROM PLATYPUS VENOM


Experimental Data Snapshot

  • Method: SOLUTION NMR
  • Conformers Calculated: 4800 
  • Conformers Submitted: 20 
  • Selection Criteria: LOWEST ENERGY 

wwPDB Validation   3D Report Full Report


This is version 1.3 of the entry. See complete history


Literature

Defensin-like peptide-2 from platypus venom: member of a class of peptides with a distinct structural fold.

Torres, A.M.de Plater, G.M.Doverskog, M.Birinyi-Strachan, L.C.Nicholson, G.M.Gallagher, C.H.Kuchel, P.W.

(2000) Biochem J 348: 649-656

  • Primary Citation of Related Structures:  
    1D6B

  • PubMed Abstract: 
  • The venom of the male Australian duck-billed platypus contains a family of four polypeptides of appox. 5 kDa, which are referred to as defensin-like peptides (DLPs). They are unique in that their amino acid sequences have no significant similarities to those of any known peptides; however, the tertiary structure of one of them, DLP-1, has recently been shown to be similar to beta-defensin-12 and to the sodium neurotoxin peptide ShI (Stichodactyla helianthus neurotoxin I) ...

    The venom of the male Australian duck-billed platypus contains a family of four polypeptides of appox. 5 kDa, which are referred to as defensin-like peptides (DLPs). They are unique in that their amino acid sequences have no significant similarities to those of any known peptides; however, the tertiary structure of one of them, DLP-1, has recently been shown to be similar to beta-defensin-12 and to the sodium neurotoxin peptide ShI (Stichodactyla helianthus neurotoxin I). Although DLPs are the major peptides in the platypus venom, little is known about their biological roles. In this study, we determined the three-dimensional structure of DLP-2 by NMR spectroscopy, with the aim of gaining insights into the natural function of the DLPs in platypus venom. The DLP-2 structure was found to incorporate a short helix that spans residues 9-12, and an antiparallel beta-sheet defined by residues 15-18 and 37-40. The overall fold and cysteine-pairing pattern of DLP-2 were found to be similar to those of DLP-1, and hence beta-defensin-12; however, the sequence similarities between the three molecules are relatively small. The distinct structural fold of the DLP-1, DLP-2, and beta-defensin-12 is based upon several key residues that include six cysteines. DLP-3 and DLP-4 are also likely to be folded similarly since they have high sequence similarity with DLP-2. The DLPs, and beta-defensin-12 may thus be grouped together into a class of polypeptide molecules which have a common or very similar global fold. The fact that the DLPs did not display antimicrobial, myotoxic, or cell-growth-promoting activities implies that the nature of the side chains in this group of peptides is likely to play an important role in defining the biological function(s).


    Related Citations: 
    • Solution Structure of a Defensin-Like Peptide From Platypus Venom
      Torres, A.M., Wang, X., Fletcher, J.I., Alewood, D., Alewood, P.F., Smith, R., Simpson, R.J., Nicholson, G.M., Sutherland, S.K., Gallagher, C.H., King, G.F., Kuchel, P.W.
      (1999) Biochem J 341: 785
    • Solution Structure of Bovine Neutrophil Beta-Defensin-12: The Peptide Fold of the Beta-Defensins is Identical to That of the Classical Defensins
      Zimmermann, G.R., Legault, P., Selsted, M.E., Pardi, A.
      (1995) Biochemistry 34: 13663

    Organizational Affiliation

    Department of Biochemistry, University of Sydney, NSW 2006, Australia.



Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
DEFENSIN-LIKE PEPTIDE-2A42Ornithorhynchus anatinusMutation(s): 0 
Membrane Entity: Yes 
UniProt
Find proteins for P82140 (Ornithorhynchus anatinus)
Explore P82140 
Go to UniProtKB:  P82140
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP82140
Protein Feature View
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: SOLUTION NMR
  • Conformers Calculated: 4800 
  • Conformers Submitted: 20 
  • Selection Criteria: LOWEST ENERGY 

Structure Validation

View Full Validation Report



Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2000-06-21
    Type: Initial release
  • Version 1.1: 2008-04-27
    Changes: Version format compliance
  • Version 1.2: 2011-07-13
    Changes: Version format compliance
  • Version 1.3: 2022-02-16
    Changes: Data collection, Database references, Derived calculations