Literature DB >> 27967165

Markov state modeling of sliding friction.

F Pellegrini1,2, François P Landes3, A Laio1, S Prestipino4,5, E Tosatti1,2,3.   

Abstract

Markov state modeling (MSM) has recently emerged as one of the key techniques for the discovery of collective variables and the analysis of rare events in molecular simulations. In particular in biochemistry this approach is successfully exploited to find the metastable states of complex systems and their evolution in thermal equilibrium, including rare events, such as a protein undergoing folding. The physics of sliding friction and its atomistic simulations under external forces constitute a nonequilibrium field where relevant variables are in principle unknown and where a proper theory describing violent and rare events such as stick slip is still lacking. Here we show that MSM can be extended to the study of nonequilibrium phenomena and in particular friction. The approach is benchmarked on the Frenkel-Kontorova model, used here as a test system whose properties are well established. We demonstrate that the method allows the least prejudiced identification of a minimal basis of natural microscopic variables necessary for the description of the forced dynamics of sliding, through their probabilistic evolution. The steps necessary for the application to realistic frictional systems are highlighted.

Year:  2016        PMID: 27967165     DOI: 10.1103/PhysRevE.94.053001

Source DB:  PubMed          Journal:  Phys Rev E        ISSN: 2470-0045            Impact factor:   2.529


  1 in total

1.  DNA sliding in nucleosomes via twist defect propagation revealed by molecular simulations.

Authors:  Giovanni B Brandani; Toru Niina; Cheng Tan; Shoji Takada
Journal:  Nucleic Acids Res       Date:  2018-04-06       Impact factor: 16.971

  1 in total

北京卡尤迪生物科技股份有限公司 © 2022-2023.