Literature DB >> 31228924

Dual approach for effective potentials that accurately model structure and energetics.

Kathryn M Lebold1, W G Noid1.   

Abstract

Because they eliminate unnecessary degrees of freedom, coarse-grained (CG) models enable studies of phenomena that are intractable with more detailed models. For the same reason, the effective potentials that govern CG degrees of freedom incorporate entropic contributions from the eliminated degrees of freedom. Consequently, these effective potentials demonstrate limited transferability and provide a poor estimate of atomic energetics. Here, we propose a simple dual-potential approach that combines "structure-based" and "energy-based" variational principles to determine effective potentials that model free energies and potential energies, respectively, as a function of the CG configuration. We demonstrate this approach for 1-site CG models of water and methanol. We accurately sample configuration space by performing simulations with the structure-based potential. We accurately estimate average atomic energies by postprocessing the sampled configurations with the energy-based potential. Finally, the difference between the two potentials predicts a qualitatively accurate estimate for the temperature dependence of the structure-based potential.

Entities:  

Year:  2019        PMID: 31228924     DOI: 10.1063/1.5094330

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


  5 in total

1.  Understanding Missing Entropy in Coarse-Grained Systems: Addressing Issues of Representability and Transferability.

Authors:  Jaehyeok Jin; Alexander J Pak; Gregory A Voth
Journal:  J Phys Chem Lett       Date:  2019-07-30       Impact factor: 6.475

Review 2.  Bottom-up Coarse-Graining: Principles and Perspectives.

Authors:  Jaehyeok Jin; Alexander J Pak; Aleksander E P Durumeric; Timothy D Loose; Gregory A Voth
Journal:  J Chem Theory Comput       Date:  2022-09-07       Impact factor: 6.578

3.  A new one-site coarse-grained model for water: Bottom-up many-body projected water (BUMPer). II. Temperature transferability and structural properties at low temperature.

Authors:  Jaehyeok Jin; Alexander J Pak; Yining Han; Gregory A Voth
Journal:  J Chem Phys       Date:  2021-01-28       Impact factor: 3.488

4.  Importance of Interface in the Coarse-Grained Model of CNT /Epoxy Nanocomposites.

Authors:  Ke Duan; Li Li; Fei Wang; Weishuang Meng; Yujin Hu; Xuelin Wang
Journal:  Nanomaterials (Basel)       Date:  2019-10-17       Impact factor: 5.076

5.  An Information-Theory-Based Approach for Optimal Model Reduction of Biomolecules.

Authors:  Marco Giulini; Roberto Menichetti; M Scott Shell; Raffaello Potestio
Journal:  J Chem Theory Comput       Date:  2020-10-27       Impact factor: 6.006

  5 in total

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