Literature DB >> 18517326

Calculation of the potential of mean force from nonequilibrium measurements via maximum likelihood estimators.

Riccardo Chelli1, Simone Marsili, Piero Procacci.   

Abstract

We present an approach to the estimate of the potential of mean force along a generic reaction coordinate based on maximum likelihood methods and path-ensemble averages in systems driven far from equilibrium. Following similar arguments, various free energy estimators can be recovered, all providing comparable computational accuracy. The method, applied to the unfolding process of the alpha -helix form of an alanine decapeptide, gives results in good agreement with thermodynamic integration.

Entities:  

Year:  2008        PMID: 18517326     DOI: 10.1103/PhysRevE.77.031104

Source DB:  PubMed          Journal:  Phys Rev E Stat Nonlin Soft Matter Phys        ISSN: 1539-3755


  4 in total

1.  Using stochastic models calibrated from nanosecond nonequilibrium simulations to approximate mesoscale information.

Authors:  Christopher P Calderon; Lorant Janosi; Ioan Kosztin
Journal:  J Chem Phys       Date:  2009-04-14       Impact factor: 3.488

2.  Optimized free energies from bidirectional single-molecule force spectroscopy.

Authors:  David D L Minh; Artur B Adib
Journal:  Phys Rev Lett       Date:  2008-05-06       Impact factor: 9.161

3.  Quantifying multiscale noise sources in single-molecule time series.

Authors:  Christopher P Calderon; Nolan C Harris; Ching-Hwa Kiang; Dennis D Cox
Journal:  J Phys Chem B       Date:  2009-01-08       Impact factor: 2.991

4.  A Self-Adaptive Steered Molecular Dynamics Method Based on Minimization of Stretching Force Reveals the Binding Affinity of Protein-Ligand Complexes.

Authors:  Junfeng Gu; Hongxia Li; Xicheng Wang
Journal:  Molecules       Date:  2015-10-22       Impact factor: 4.411

  4 in total

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