2N5W

The NMR solution structure of octyl-tridecaptin A1 in DPC micelles


Experimental Data Snapshot

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

wwPDB Validation   3D Report Full Report


This is version 2.0 of the entry. See complete history


Literature

Antimicrobial lipopeptide tridecaptin A1 selectively binds to Gram-negative lipid II.

Cochrane, S.A.Findlay, B.Bakhtiary, A.Acedo, J.Z.Rodriguez-Lopez, E.M.Mercier, P.Vederas, J.C.

(2016) Proc Natl Acad Sci U S A 113: 11561-11566

  • DOI: https://doi.org/10.1073/pnas.1608623113
  • Primary Citation of Related Structures:  
    2N5W, 2N5Y

  • PubMed Abstract: 

    Tridecaptin A 1 (TriA 1 ) is a nonribosomal lipopeptide with selective antimicrobial activity against Gram-negative bacteria. Here we show that TriA 1 exerts its bactericidal effect by binding to the bacterial cell-wall precursor lipid II on the inner membrane, disrupting the proton motive force. Biochemical and biophysical assays show that binding to the Gram-negative variant of lipid II is required for membrane disruption and that only the proton gradient is dispersed. The NMR solution structure of TriA 1 in dodecylphosphocholine micelles with lipid II has been determined, and molecular modeling was used to provide a structural model of the TriA 1 -lipid II complex. These results suggest that TriA 1 kills Gram-negative bacteria by a mechanism of action using a lipid-II-binding motif.


  • Organizational Affiliation

    Department of Chemistry, University of Alberta, Edmonton, AB, Canada T6G 2G2.


Macromolecules

Find similar proteins by:  Sequence   |   3D Structure  

Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Octyl-tridecaptin A113N/AMutation(s): 0 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
Sequence Annotations
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  • Reference Sequence
Small Molecules
Modified Residues  1 Unique
IDChains TypeFormula2D DiagramParent
DAB
Query on DAB
A
L-PEPTIDE LINKINGC4 H10 N2 O2ALA
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: 2016-09-28
    Type: Initial release
  • Version 1.1: 2016-10-19
    Changes: Database references
  • Version 1.2: 2016-10-26
    Changes: Database references
  • Version 2.0: 2023-11-15
    Changes: Atomic model, Data collection, Database references, Derived calculations