Literature DB >> 26605484

Hybrid Particle-Field Coarse-Grained Models for Biological Phospholipids.

Antonio De Nicola1,2, Ying Zhao1, Toshihiro Kawakatsu3, Danilo Roccatano4, Giuseppe Milano1,2.   

Abstract

In the framework of a recently developed scheme for a hybrid particle-field simulation technique where self-consistent field theory (SCF) and molecular dynamics (MD) are combined [ J. Chem. Phys. 2009 , 130 , 214106 ], specific coarse-grained models for phospholipids and water have been developed. We optimized the model parameters, which are necessary in evaluating the interactions between the particles and the density fields, so that the coarse-grained model can reproduce the structural properties of the reference particle-particle simulations. The development of these specific coarse-grained models suitable for hybrid particle-field simulations opens the way toward simulations of large-scale systems employing models with chemical specificity, especially for biological systems.

Entities:  

Year:  2011        PMID: 26605484     DOI: 10.1021/ct200132n

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


  7 in total

1.  Testing physical models of passive membrane permeation.

Authors:  Siegfried S F Leung; Jona Mijalkovic; Kenneth Borrelli; Matthew P Jacobson
Journal:  J Chem Inf Model       Date:  2012-05-24       Impact factor: 4.956

2.  Molecular dynamics simulations of DPPC bilayers using "LIME", a new coarse-grained model.

Authors:  Emily M Curtis; Carol K Hall
Journal:  J Phys Chem B       Date:  2013-04-16       Impact factor: 2.991

3.  Derivation and systematic validation of a refined all-atom force field for phosphatidylcholine lipids.

Authors:  Joakim P M Jämbeck; Alexander P Lyubartsev
Journal:  J Phys Chem B       Date:  2012-03-01       Impact factor: 2.991

Review 4.  Computational Modeling of Realistic Cell Membranes.

Authors:  Siewert J Marrink; Valentina Corradi; Paulo C T Souza; Helgi I Ingólfsson; D Peter Tieleman; Mark S P Sansom
Journal:  Chem Rev       Date:  2019-01-09       Impact factor: 72.087

5.  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

6.  Micellization of Pluronic P123 in Water/Ethanol/Turpentine Oil Mixed Solvents: Hybrid Particle-Field Molecular Dynamic Simulation.

Authors:  Ying Zhao; Su-Min Ma; Bin Li; Antonio De Nicola; Nai-Sen Yu; Bin Dong
Journal:  Polymers (Basel)       Date:  2019-11-03       Impact factor: 4.329

7.  Can Polarity-Inverted Surfactants Self-Assemble in Nonpolar Solvents?

Authors:  Manuel Carrer; Tatjana Škrbić; Sigbjørn Løland Bore; Giuseppe Milano; Michele Cascella; Achille Giacometti
Journal:  J Phys Chem B       Date:  2020-07-14       Impact factor: 2.991

  7 in total

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