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Digitally filtered molecular dynamics: the frequency specific control of molecular dynamics simulations

Phillips, S.C., Essex, J.W. and Edge, C.M. (2000) Digitally filtered molecular dynamics: the frequency specific control of molecular dynamics simulations The Journal of Chemical Physics, 112, (6), pp. 2586-2597. (doi:10.1063/1.480832).

Record type: Article

Abstract

A new method for modifying the course of a molecular dynamics computer simulation is presented. Digitally filtered molecular dynamics (DFMD) applies the well-established theory of digital filters to molecular dynamics simulations, enabling atomic motion to be enhanced or suppressed in a selective manner solely on the basis of frequency. The basic theory of digital filters and its application to molecular dynamics simulations is presented, together with the application of DFMD to the simple systems of single molecules of water and butane. The extension of the basic theory to the condensed phase is then described followed by its application to liquid phase butane and the Syrian hamster prion protein. The high degree of selectivity and control offered by DFMD, and its ability to enhance the rate of conformational change in butane and in the prion protein, is demonstrated.

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More information

Published date: 8 February 2000
Keywords: potential functions, nucleic-acids, force-field, roteins, trajectories, echoes, motions, water

Identifiers

Local EPrints ID: 19039
URI: http://eprints.soton.ac.uk/id/eprint/19039
ISSN: 0021-9606
PURE UUID: 089a51b2-9429-4370-95ef-9ab0dfcec439
ORCID for S.C. Phillips: ORCID iD orcid.org/0000-0002-7901-0839
ORCID for J.W. Essex: ORCID iD orcid.org/0000-0003-2639-2746

Catalogue record

Date deposited: 21 Dec 2005
Last modified: 17 Jul 2017 16:34

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Contributors

Author: S.C. Phillips ORCID iD
Author: J.W. Essex ORCID iD
Author: C.M. Edge

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