Literature DB >> 15527384

Coarse-grained model for phospholipid/cholesterol bilayer.

Teemu Murtola1, Emma Falck, Michael Patra, Mikko Karttunen, Ilpo Vattulainen.   

Abstract

We construct a coarse-grained (CG) model for dipalmitoylphosphatidylcholine (DPPC)/cholesterol bilayers and apply it to large-scale simulation studies of lipid membranes. Our CG model is a two-dimensional representation of the membrane, where the individual lipid and sterol molecules are described by pointlike particles. The effective intermolecular interactions used in the model are systematically derived from detailed atomic-scale molecular dynamics simulations using the Inverse Monte Carlo technique, which guarantees that the radial distribution properties of the CG model are consistent with those given by the corresponding atomistic system. We find that the coarse-grained model for the DPPC/cholesterol bilayer is substantially more efficient than atomistic models, providing a speedup of approximately eight orders of magnitude. The results are in favor of formation of cholesterol-rich and cholesterol-poor domains at intermediate cholesterol concentrations, in agreement with the experimental phase diagram of the system. We also explore the limits of the coarse-grained model, and discuss the general validity and applicability of the present approach. Copyright 2004 American Institute of Physics.

Entities:  

Year:  2004        PMID: 15527384     DOI: 10.1063/1.1803537

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


  30 in total

1.  A structurally relevant coarse-grained model for cholesterol.

Authors:  K R Hadley; C McCabe
Journal:  Biophys J       Date:  2010-11-03       Impact factor: 4.033

Review 2.  Implicit solvent simulation models for biomembranes.

Authors:  Grace Brannigan; Lawrence C-L Lin; Frank L H Brown
Journal:  Eur Biophys J       Date:  2005-09-27       Impact factor: 1.733

3.  Dielectrophoresis of nanocolloids: a molecular dynamics study.

Authors:  E Salonen; E Terama; I Vattulainen; M Karttunen
Journal:  Eur Phys J E Soft Matter       Date:  2005-09-30       Impact factor: 1.890

4.  Multi-scale modeling of phase separation in mixed lipid bilayers.

Authors:  Qiang Shi; Gregory A Voth
Journal:  Biophys J       Date:  2005-07-29       Impact factor: 4.033

5.  Bilayer deformation by the Kv channel voltage sensor domain revealed by self-assembly simulations.

Authors:  Peter J Bond; Mark S P Sansom
Journal:  Proc Natl Acad Sci U S A       Date:  2007-02-14       Impact factor: 11.205

Review 6.  Modeling kinetics of subcellular disposition of chemicals.

Authors:  Stefan Balaz
Journal:  Chem Rev       Date:  2009-05       Impact factor: 60.622

7.  Stochastic dynamics of bionanosystems: Multiscale analysis and specialized ensembles.

Authors:  S Pankavich; Y Miao; J Ortoleva; Z Shreif; P Ortoleva
Journal:  J Chem Phys       Date:  2008-06-21       Impact factor: 3.488

8.  Mesoscale computational studies of membrane bilayer remodeling by curvature-inducing proteins.

Authors:  N Ramakrishnan; P B Sunil Kumar; Ravi Radhakrishnan
Journal:  Phys Rep       Date:  2014-10-01       Impact factor: 25.600

9.  Parametrization of Backbone Flexibility in a Coarse-Grained Force Field for Proteins (COFFDROP) Derived from All-Atom Explicit-Solvent Molecular Dynamics Simulations of All Possible Two-Residue Peptides.

Authors:  Tamara Frembgen-Kesner; Casey T Andrews; Shuxiang Li; Nguyet Anh Ngo; Scott A Shubert; Aakash Jain; Oluwatoni J Olayiwola; Mitch R Weishaar; Adrian H Elcock
Journal:  J Chem Theory Comput       Date:  2015-04-30       Impact factor: 6.006

10.  Hybrid coarse-graining approach for lipid bilayers at large length and time scales.

Authors:  Gary S Ayton; Gregory A Voth
Journal:  J Phys Chem B       Date:  2009-04-02       Impact factor: 2.991

View more

北京卡尤迪生物科技股份有限公司 © 2022-2023.