Literature DB >> 15260711

Dynamical origin of enhanced conformational searches of Tsallis statistics sampling.

Jae Gil Kim1, Yoshifumi Fukunishi, Haruki Nakamura.   

Abstract

The characteristic sampling dynamics of importance samplings driven by the Tsallis weight [C. Tsallis, J. Stat. Phys. 52, 479 (1988)] has been analyzed in terms of recently developed Langevin stochastic model by considering the effects of the density of states and the potential smoothing of the Tsallis transformation. Our study reveals that the fixed points, which are determined by the crossing points of the statistical temperature and the Tsallis effective temperature, play a critical role in overall dynamics of the Tsallis statistics sampling. The dynamical origin of enhanced conformational searches of the Tsallis weight has been investigated by unveiling the intimate relationship between the sampling dynamics and the stability change of corresponding fixed points. Based on this stochastic analysis, we propose one effective method to realize a broad energy distribution in the Tsallis statistics sampling by determining optimal Tsallis parameters systematically based on preliminary canonical samplings. The effectiveness of our method has been validated in the folding simulation of Met-Enkephalin and liquid-solid transition simulation of Lennard-Jones cluster systems. (c) 2004 American Institute of Physics

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Year:  2004        PMID: 15260711     DOI: 10.1063/1.1763841

Source DB:  PubMed          Journal:  J Chem Phys        ISSN: 0021-9606            Impact factor:   3.488


  4 in total

1.  Generalized replica exchange method.

Authors:  Jaegil Kim; Thomas Keyes; John E Straub
Journal:  J Chem Phys       Date:  2010-06-14       Impact factor: 3.488

2.  Optimal replica exchange method combined with Tsallis weight sampling.

Authors:  Jaegil Kim; John E Straub
Journal:  J Chem Phys       Date:  2009-04-14       Impact factor: 3.488

3.  Communication: Iteration-free, weighted histogram analysis method in terms of intensive variables.

Authors:  Jaegil Kim; Thomas Keyes; John E Straub
Journal:  J Chem Phys       Date:  2011-08-14       Impact factor: 3.488

4.  Replica exchange statistical temperature Monte Carlo.

Authors:  Jaegil Kim; Thomas Keyes; John E Straub
Journal:  J Chem Phys       Date:  2009-03-28       Impact factor: 3.488

  4 in total

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