Literature DB >> 24909682

Efficient solvent-free dissipative particle dynamics for lipid bilayers.

G J A Sevink1, J G E M Fraaije.   

Abstract

We rigorously derived effective potentials for solvent-free DPD simulation of lipid bilayers. The derivation relies on an earlier developed hybrid particle/field method and is based on the idea that the solvent is always in local equilibrium on a coarse-grained time scale, given the instantaneous templates set by the self-assembly structure. By relating the parameters in the effective implicit-solvent potentials directly to the lipid-solvent interactions and membrane properties for the explicit solvent DPD model, we constitute an efficient and general procedure for reformulating any DPD membrane model in an implicit-solvent form. Here, we determined these membrane properties for two existing DPD models, via an analysis of membrane fluctuation spectra. Equivalent single-processor implicit- and explicit-solvent calculations show the trade-mark of implicit solvent simulation: a 20-fold reduction of the total simulation time for a system containing 92% solvent. This increased efficiency enabled us to realistically simulate the spontaneous formation of a ∼20 nm diameter vesicle on a single processor overnight. We believe that this work will contribute to an enhanced computational study of large vesicles and thus a better understanding of experimental liposome dynamics.

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Year:  2014        PMID: 24909682     DOI: 10.1039/c4sm00297k

Source DB:  PubMed          Journal:  Soft Matter        ISSN: 1744-683X            Impact factor:   3.679


  5 in total

1.  Implicit-solvent dissipative particle dynamics force field based on a four-to-one coarse-grained mapping scheme.

Authors:  Mingwei Wan; Lianghui Gao; Weihai Fang
Journal:  PLoS One       Date:  2018-05-24       Impact factor: 3.240

2.  Predicting asymmetric phospholipid microstructures in solutions.

Authors:  Yue Shan; Yongyun Ji; Xianghong Wang; Linli He; Shiben Li
Journal:  RSC Adv       Date:  2020-06-26       Impact factor: 3.361

3.  Systematic Parameterization of Ion-Surfactant Interactions in Dissipative Particle Dynamics Using Setschenow Coefficients.

Authors:  Ennio Lavagnini; Joanne L Cook; Patrick B Warren; Christopher A Hunter
Journal:  J Phys Chem B       Date:  2022-03-15       Impact factor: 3.466

4.  Self-Assembly of Lipid Mixtures in Solutions: Structures, Dynamics Processes and Mechanical Properties.

Authors:  Lingling Sun; Fan Pan; Shiben Li
Journal:  Membranes (Basel)       Date:  2022-07-23

5.  Shear-induced microstructures and dynamics processes of phospholipid cylinders in solutions.

Authors:  Yue Shan; Xiaowei Qiang; Jianzhu Ye; Xianghong Wang; Linli He; Shiben Li
Journal:  Sci Rep       Date:  2019-10-28       Impact factor: 4.379

  5 in total

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