6WPD | pdb_00006wpd

NMR Structure of HSP1-NH2 antimicrobial peptide in presence of DPC-d38 micelles

  • Classification: ANTIMICROBIAL PROTEIN
  • Organism(s): Boana punctata
  • Mutation(s): Yes 

  • Deposited: 2020-04-27 Released: 2020-09-02 
  • Deposition Author(s): Verly, R.M., Gomes, I.P.
  • Funding Organization(s): Minas Gerais State Agency for Research and Development (FAPEMIG), Brazilian National Council for Scientific and Technological Development (CNPq)

Experimental Data Snapshot

  • Method: SOLUTION NMR
  • Conformers Calculated: 100 
  • Conformers Submitted: 10 
  • Selection Criteria: structures with the lowest energy 

wwPDB Validation 3D Report Full Report

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This is version 1.2 of the entry. See complete history

Literature

Membrane interactions of the anuran antimicrobial peptide HSP1-NH2: Different aspects of the association to anionic and zwitterionic biomimetic systems.

Gomes, I.P.Santos, T.L.de Souza, A.N.Nunes, L.O.Cardoso, G.A.Matos, C.O.Costa, L.M.F.Liao, L.M.Resende, J.M.Verly, R.M.

(2020) Biochim Biophys Acta Biomembr 1863: 183449-183449

  • DOI: https://doi.org/10.1016/j.bbamem.2020.183449
  • Primary Citation Related Structures: 
    6WPB, 6WPD

  • PubMed Abstract: 

    Studies have suggested that antimicrobial peptides act by different mechanisms, such as micellisation, self-assembly of nanostructures and pore formation on the membrane surface. This work presents an extensive investigation of the membrane interactions of the 14 amino-acid antimicrobial peptide hylaseptin P1-NH 2 (HSP1-NH 2 ), derived from the tree-frog Hyla punctata, which has stronger antifungal than antibacterial potential. Biophysical and structural analyses were performed and the correlated results were used to describe in detail the interactions of HSP1-NH 2 with zwitterionic and anionic detergent micelles and phospholipid vesicles. HSP1-NH 2 presents similar well-defined helical conformations in both zwitterionic and anionic micelles, although NMR spectroscopy revealed important structural differences in the peptide N-terminus. 2 H exchange experiments of HSP1-NH 2 indicated the insertion of the most N-terminal residues (1-3) in the DPC-d 38 micelles. A higher enthalpic contribution was verified for the interaction of the peptide with anionic vesicles in comparison with zwitterionic vesicles. The pore formation ability of HSP1-NH 2 (examined by dye release assays) and its effect on the size and surface charge as well as on the lipid acyl chain ordering (evaluated by Fourier-transform infrared spectroscopy) of anionic phospholipid vesicles showed membrane disruption even at low peptide-to-phospholipid ratios, and the effect increases proportionately to the peptide concentration. On the other hand, these biophysical investigations showed that a critical peptide-to-phospholipid ratio around 0.6 is essential for promoting disruption of zwitterionic membranes. In conclusion, this study demonstrates that the binding process of the antimicrobial HSP1-NH 2 peptide depends on the membrane composition and peptide concentration.


  • Organizational Affiliation
    • Departamento de Química - Universidade Federal dos Vales do Jequitinhonha e Mucuri, 39100-000 Diamantina, MG, Brazil.

Macromolecule Content 

  • Total Structure Weight: 1.31 kDa 
  • Atom Count: 92 
  • Modeled Residue Count: 15 
  • Deposited Residue Count: 15 
  • Unique protein chains: 1

Macromolecules

Find similar proteins by:  Sequence   |   3D Structure  
Entity ID: 1
MoleculeChains  Sequence LengthOrganismDetailsImage
HSP1-NH215Boana punctataMutation(s): 1 
UniProt
Find proteins for P84292 (Boana punctata)
Explore P84292 
Go to UniProtKB:  P84292
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP84292
Sequence Annotations
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Reference Sequence

Experimental Data & Validation

Experimental Data

  • Method: SOLUTION NMR
  • Conformers Calculated: 100 
  • Conformers Submitted: 10 
  • Selection Criteria: structures with the lowest energy 

Structure Validation

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Entry History 

& Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Minas Gerais State Agency for Research and Development (FAPEMIG)Brazil--
Brazilian National Council for Scientific and Technological Development (CNPq)Brazil--

Revision History  (Full details and data files)

  • Version 1.0: 2020-09-02
    Type: Initial release
  • Version 1.1: 2020-09-16
    Changes: Database references
  • Version 1.2: 2024-11-20
    Changes: Data collection, Database references, Structure summary