Literature DB >> 11297936

Electrostatics calculations: recent methodological advances and applications to membranes.

D J Tobias1.   

Abstract

Calculations of electrostatic energies and forces are at the heart of the theoretical modeling of biological molecules. During the past year, new methods for accurately treating electrostatic interactions have been developed for all-atom simulations and for modeling systems in which the uninteresting part of the system, for example, the solvent, is represented implicitly. Recent applications of electrostatic energy calculations have revealed new principles concerning the role of electrostatics in peptide binding to membranes and ion transport across membranes through protein channels.

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Year:  2001        PMID: 11297936     DOI: 10.1016/s0959-440x(00)00198-6

Source DB:  PubMed          Journal:  Curr Opin Struct Biol        ISSN: 0959-440X            Impact factor:   6.809


  17 in total

1.  Reservoir boundaries in Brownian dynamics simulations of ion channels.

Authors:  Ben Corry; Matthew Hoyles; Toby W Allen; Michael Walker; Serdar Kuyucak; Shin-Ho Chung
Journal:  Biophys J       Date:  2002-04       Impact factor: 4.033

2.  The implementation of slab geometry for membrane-channel molecular dynamics simulations.

Authors:  David Bostick; Max L Berkowitz
Journal:  Biophys J       Date:  2003-07       Impact factor: 4.033

3.  Interface connections of a transmembrane voltage sensor.

Authors:  J Alfredo Freites; Douglas J Tobias; Gunnar von Heijne; Stephen H White
Journal:  Proc Natl Acad Sci U S A       Date:  2005-10-10       Impact factor: 11.205

4.  Homology modelling and molecular dynamics simulations: comparative studies of human aquaporin-1.

Authors:  Richard J Law; Mark S P Sansom
Journal:  Eur Biophys J       Date:  2004-04-08       Impact factor: 1.733

5.  Molecular simulation study of structural and dynamic properties of mixed DPPC/DPPE bilayers.

Authors:  Sukit Leekumjorn; Amadeu K Sum
Journal:  Biophys J       Date:  2006-03-13       Impact factor: 4.033

6.  Molecular dynamics simulations of lipid bilayers: major artifacts due to truncating electrostatic interactions.

Authors:  M Patra; M Karttunen; M T Hyvönen; E Falck; P Lindqvist; I Vattulainen
Journal:  Biophys J       Date:  2003-06       Impact factor: 4.033

7.  The range and shielding of dipole-dipole interactions in phospholipid bilayers.

Authors:  Jakob Wohlert; Olle Edholm
Journal:  Biophys J       Date:  2004-10       Impact factor: 4.033

Review 8.  Acyl chain order parameter profiles in phospholipid bilayers: computation from molecular dynamics simulations and comparison with 2H NMR experiments.

Authors:  Louic S Vermeer; Bert L de Groot; Valérie Réat; Alain Milon; Jerzy Czaplicki
Journal:  Eur Biophys J       Date:  2007-06-28       Impact factor: 1.733

9.  Lipid-protein interactions of integral membrane proteins: a comparative simulation study.

Authors:  Sundeep S Deol; Peter J Bond; Carmen Domene; Mark S P Sansom
Journal:  Biophys J       Date:  2004-10-01       Impact factor: 4.033

10.  Cationic DMPC/DMTAP lipid bilayers: molecular dynamics study.

Authors:  Andrey A Gurtovenko; Michael Patra; Mikko Karttunen; Ilpo Vattulainen
Journal:  Biophys J       Date:  2004-06       Impact factor: 4.033

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