Literature DB >> 23470157

Phase separation in a lipid/cholesterol system: comparison of coarse-grained and united-atom simulations.

Davit Hakobyan1, Andreas Heuer.   

Abstract

Ternary mixtures of saturated and unsaturated phospholipids and cholesterol constitute a well-known model system to study raft formation in membranes. This phenomenon is, e.g., observed in cell membranes. Here, coarse-grained (CG) and microscopic united-atom (UA) simulations are performed to investigate the phase separation of a membrane bilayer for the ternary system of saturated 16:0 (DPPC) and unsaturated 18:2 (DUPC) phospholipids and cholesterol (CHOL). The results of a 9 μs UA simulation demonstrate the onset of phase separation and can be compared with properties of the corresponding CG system. While sharing the structural features of phase separation in the CG model, the onset of demixing for the UA model is 40 times slower. This factor can be rationalized by the different short-time diffusion constants. Various system properties such as order parameters and lipid-CHOL and CHOL-CHOL interactions are analyzed and compared between the UA and CG models. From the structural perspective, the phase separation process appears to be rather similar for both models, which illustrates once more the power of using CG approaches.

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Year:  2013        PMID: 23470157     DOI: 10.1021/jp312245y

Source DB:  PubMed          Journal:  J Phys Chem B        ISSN: 1520-5207            Impact factor:   2.991


  18 in total

1.  Multiscale Simulations of Biological Membranes: The Challenge To Understand Biological Phenomena in a Living Substance.

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Journal:  Chem Rev       Date:  2019-03-12       Impact factor: 60.622

2.  Multiscale modeling of four-component lipid mixtures: domain composition, size, alignment, and properties of the phase interface.

Authors:  David G Ackerman; Gerald W Feigenson
Journal:  J Phys Chem B       Date:  2015-01-22       Impact factor: 2.991

3.  Membrane-mediated regulation of the intrinsically disordered CD3ϵ cytoplasmic tail of the TCR.

Authors:  Cesar A López; Anurag Sethi; Byron Goldstein; Bridget S Wilson; S Gnanakaran
Journal:  Biophys J       Date:  2015-05-19       Impact factor: 4.033

4.  Regimes of Complex Lipid Bilayer Phases Induced by Cholesterol Concentration in MD Simulation.

Authors:  George A Pantelopulos; John E Straub
Journal:  Biophys J       Date:  2018-10-19       Impact factor: 4.033

5.  Critical size dependence of domain formation observed in coarse-grained simulations of bilayers composed of ternary lipid mixtures.

Authors:  George A Pantelopulos; Tetsuro Nagai; Asanga Bandara; Afra Panahi; John E Straub
Journal:  J Chem Phys       Date:  2017-09-07       Impact factor: 3.488

6.  To Hop or not to Hop: Exceptions in the FCS Diffusion Law.

Authors:  Anjali Gupta; Inn Yee Phang; Thorsten Wohland
Journal:  Biophys J       Date:  2020-04-15       Impact factor: 4.033

Review 7.  Molecular dynamics simulations of biological membranes and membrane proteins using enhanced conformational sampling algorithms.

Authors:  Takaharu Mori; Naoyuki Miyashita; Wonpil Im; Michael Feig; Yuji Sugita
Journal:  Biochim Biophys Acta       Date:  2016-01-05

8.  Methodologies for the analysis of instantaneous lipid diffusion in MD simulations of large membrane systems.

Authors:  Matthieu Chavent; Tyler Reddy; Joseph Goose; Anna Caroline E Dahl; John E Stone; Bruno Jobard; Mark S P Sansom
Journal:  Faraday Discuss       Date:  2014-06-17       Impact factor: 4.394

Review 9.  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

10.  Bilayer compositional asymmetry influences the nanoscopic to macroscopic phase domain size transition.

Authors:  Naveen Mohideen; Michael D Weiner; Gerald W Feigenson
Journal:  Chem Phys Lipids       Date:  2020-09-15       Impact factor: 3.570

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