1B8W | pdb_00001b8w

DEFENSIN-LIKE PEPTIDE 1

• PDB DOI: https://doi.org/10.2210/pdb1B8W/pdb

• Classification: TOXIN
• Organism(s): Ornithorhynchus anatinus
• Mutation(s): No 
• Membrane Protein: Yes  OPM


• Deposited: 1999-02-02 Released: 1999-09-15 
• Deposition Author(s): 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.

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Experimental Data Snapshot

• Method: SOLUTION NMR
• Conformers Calculated: 1000 
• Conformers Submitted: 20 
• Selection Criteria: LEAST RESTRAINT VIOLATION 

Literature

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: 785-794

• PubMed: 10417345 
• Primary Citation Related Structures: 
  1B8W


• PubMed Abstract: 
  

  Three defensin-like peptides (DLPs) were isolated from platypus venom and sequenced. One of these peptides, DLP-1, was synthesized chemically and its three-dimensional structure was determined using NMR spectroscopy. The main structural elements of this 42-residue peptide were an anti-parallel beta-sheet comprising residues 15-18 and 37-40 and a small 3(10) helix spanning residues 10-12. The overall three-dimensional fold is similar to that of beta-defensin-12, and similar to the sodium-channel neurotoxin ShI (Stichodactyla helianthus neurotoxin I). However, the side chains known to be functionally important in beta-defensin-12 and ShI are not conserved in DLP-1, suggesting that it has a different biological function. Consistent with this contention, we showed that DLP-1 possesses no anti-microbial properties and has no observable activity on rat dorsal-root-ganglion sodium-channel currents.

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Organizational Affiliation: 
• Department of Biochemistry, University of Sydney, NSW 2006, Australia.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 1 assigned by authors.

Macromolecule Content 

• Total Structure Weight: 4.97 kDa 
• Atom Count: 343 
• Modeled Residue Count: 42 
• Deposited Residue Count: 42 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
PROTEIN (DEFENSIN-LIKE PEPTIDE 1)	A	42	Ornithorhynchus anatinus	Mutation(s): 0  Membrane Entity: Yes
UniProt
Find proteins for P82172 (Ornithorhynchus anatinus) Explore P82172  Go to UniProtKB:  P82172

Experimental Data & Validation

Experimental Data

• Method: SOLUTION NMR
• Conformers Calculated: 1000 
• Conformers Submitted: 20 
• Selection Criteria: LEAST RESTRAINT VIOLATION 

Structure Validation

Entry History 

Deposition Data

• Released Date: 1999-09-15 
Deposition Author(s): 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.

Revision History  

• Version 1.0: 1999-09-15
  Type: Initial release
  
• Version 1.1: 2008-04-26
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance
• Version 1.3: 2019-10-30
  Changes: Data collection, Derived calculations
• Version 1.4: 2023-12-27
  Changes: Data collection, Database references
• Version 1.5: 2024-10-16
  Changes: Structure summary