Literature DB >> 27786477

Training and Validation of a Liquid-Crystalline Phospholipid Bilayer Force Field.

Keri A McKiernan, Lee-Ping Wang1, Vijay S Pande.   

Abstract

We present a united-atom model (gb-fb15) for the molecular dynamics simulation of hydrated liquid-crystalline dipalmitoylphosphatidylcholine (DPPC) phospholipid bilayers. This model was constructed through the parameter-space minimization of a regularized least-squares objective function via the ForceBalance method. The objective function was computed using a training set of experimental bilayer area per lipid and deuterium order parameter. This model was validated by comparison to experimental volume per lipid, X-ray scattering form factor, thermal area expansivity, area compressibility modulus, and lipid lateral diffusion coefficient. These comparisons demonstrate that gb-fb15 is robust to temperature variation and an improvement over the original model for both the training and validation properties.

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Year:  2016        PMID: 27786477     DOI: 10.1021/acs.jctc.6b00801

Source DB:  PubMed          Journal:  J Chem Theory Comput        ISSN: 1549-9618            Impact factor:   6.006


  2 in total

1.  Semi-automated Optimization of the CHARMM36 Lipid Force Field to Include Explicit Treatment of Long-Range Dispersion.

Authors:  Yalun Yu; Andreas Krämer; Richard M Venable; Andrew C Simmonett; Alexander D MacKerell; Jeffery B Klauda; Richard W Pastor; Bernard R Brooks
Journal:  J Chem Theory Comput       Date:  2021-02-23       Impact factor: 6.006

2.  The automated optimisation of a coarse-grained force field using free energy data.

Authors:  Javier Caceres-Delpiano; Lee-Ping Wang; Jonathan W Essex
Journal:  Phys Chem Chem Phys       Date:  2021-11-10       Impact factor: 3.676

  2 in total

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