Published in

Wiley, Proteins: Structure, Function, and Bioinformatics, 1(73), p. 185-194, 2008

DOI: 10.1002/prot.22036

Links

Tools

Export citation

Search in Google Scholar

Energetics of K+ permeability through Gramicidin A by forward-reverse steered molecular dynamics

Journal article published in 2008 by G. De Fabritiis ORCID, P. V. Coveney, J. Villà Freixa
This paper is available in a repository.
This paper is available in a repository.

Full text: Download

Green circle
Preprint: archiving allowed
Orange circle
Postprint: archiving restricted
Red circle
Published version: archiving forbidden
Data provided by SHERPA/RoMEO

Abstract

The estimation of ion channel permeability poses a considerable challenge for computer simulations because of the significant free energy barriers involved, but also offers valuable molecular information on the ion permeation process not directly available from experiments. In this article we determine the equilibrium free energy barrier for potassium ion permeability in Gramicidin A in an efficient way by atomistic forward-reverse non-equilibrium steered molecular dynamics simulations, opening the way for its use in more complex biochemical systems. Our results indicate that the tent-shaped energetics of translocation of K+ ions in Gramicidin A is dictated by the different polarization responses to the ion of the external bulk water and the less polar environment of the membrane.