2L2R | pdb_00002l2r

Helical hairpin structure of a novel antimicrobial peptide EcAMP1 from seeds of barnyard grass (Echinochloa crus-galli)


Experimental Data Snapshot

  • Method: SOLUTION NMR
  • Conformers Calculated: 100 
  • Conformers Submitted: 20 
  • Selection Criteria: target function 

wwPDB Validation 3D Report Full Report

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This is version 1.5 of the entry. See complete history

Literature

Disulfide-stabilized Helical Hairpin Structure and Activity of a Novel Antifungal Peptide EcAMP1 from Seeds of Barnyard Grass (Echinochloa crus-galli).

Nolde, S.B.Vassilevski, A.A.Rogozhin, E.A.Barinov, N.A.Balashova, T.A.Samsonova, O.V.Baranov, Y.V.Feofanov, A.V.Egorov, T.A.Arseniev, A.S.Grishin, E.V.

(2011) J Biological Chem 286: 25145-25153

  • DOI: https://doi.org/10.1074/jbc.M110.200378
  • Primary Citation Related Structures: 
    2L2R

  • PubMed Abstract: 

    This study presents purification, activity characterization, and (1)H NMR study of the novel antifungal peptide EcAMP1 from kernels of barnyard grass Echinochloa crus-galli. The peptide adopts a disulfide-stabilized α-helical hairpin structure in aqueous solution and thus represents a novel fold among naturally occurring antimicrobial peptides. Micromolar concentrations of EcAMP1 were shown to inhibit growth of several fungal phytopathogens. Confocal microscopy revealed intensive EcAMP1 binding to the surface of fungal conidia followed by internalization and accumulation in the cytoplasm without disturbance of membrane integrity. Close spatial structure similarity between EcAMP1, the trypsin inhibitor VhTI from seeds of Veronica hederifolia, and some scorpion and cone snail toxins suggests natural elaboration of different functions on a common fold.


  • Organizational Affiliation
    • M.M. Shemyakin and Yu.A. Ovchinnikov Institute of Bioorganic Chemistry, Russian Academy of Sciences, Miklukho-Maklaya 16/10, 117997 Moscow, Russian Federation.

Macromolecule Content 

  • Total Structure Weight: 4.29 kDa 
  • Atom Count: 294 
  • Modeled Residue Count: 37 
  • Deposited Residue Count: 37 
  • Unique protein chains: 1

Macromolecules

Find similar proteins by:|  3D Structure
Entity ID: 1
MoleculeChains  Sequence LengthOrganismDetailsImage
Antimicrobial peptide EcAMP137Echinochloa crus-galliMutation(s): 0 
Membrane Entity: Yes 
UniProt
Find proteins for B3EWR6 (Echinochloa crus-galli)
Explore B3EWR6 
Go to UniProtKB:  B3EWR6
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupB3EWR6
Sequence Annotations
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Reference Sequence

Experimental Data & Validation

Experimental Data

  • Method: SOLUTION NMR
  • Conformers Calculated: 100 
  • Conformers Submitted: 20 
  • Selection Criteria: target function 

Structure Validation

View Full Validation Report



Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2011-05-11
    Type: Initial release
  • Version 1.1: 2011-07-13
    Changes: Version format compliance
  • Version 1.2: 2011-08-03
    Changes: Database references
  • Version 1.3: 2020-02-05
    Changes: Data collection, Database references, Other
  • Version 1.4: 2023-06-14
    Changes: Database references, Other
  • Version 1.5: 2024-10-09
    Changes: Data collection, Database references, Structure summary