Understanding the Phase Behavior of Coarse-Grained Model Lipid Bilayers through Computational Calorimetry

被引:65
|
作者
Rodgers, Jocelyn M. [1 ]
Sorensen, Jesper [2 ,3 ,4 ]
de Meyer, Frederick J. -M. [5 ,6 ]
Schiott, Birgit [2 ,3 ,4 ]
Smit, Berend [5 ,6 ,7 ]
机构
[1] Univ Calif Berkeley, Lawrence Berkeley Natl Lab, Phys Biosci Div, Berkeley, CA 94720 USA
[2] Aarhus Univ, Interdisciplinary Nanosci Ctr iNANO, DK-8000 Aarhus C, Denmark
[3] Aarhus Univ, Ctr Insoluble Prot Struct inSPIN, DK-8000 Aarhus C, Denmark
[4] Aarhus Univ, Dept Chem, DK-8000 Aarhus C, Denmark
[5] Univ Calif Berkeley, Dept Chem Engn, Berkeley, CA 94720 USA
[6] Univ Calif Berkeley, Lawrence Berkeley Natl Lab, Div Mat Sci, Berkeley, CA 94720 USA
[7] Univ Calif Berkeley, Dept Chem, Berkeley, CA 94720 USA
来源
JOURNAL OF PHYSICAL CHEMISTRY B | 2012年 / 116卷 / 05期
关键词
MOLECULAR-DYNAMICS; MESOSCOPIC SIMULATION; FORCE-FIELD; CHOLESTEROL; TRANSITIONS; TEMPERATURE; THERMODYNAMICS; VESICLES;
D O I
10.1021/jp207837v
中图分类号
O64 [物理化学(理论化学)、化学物理学];
学科分类号
070304 ; 081704 ;
摘要
We study the phase behavior of saturated lipids as a function of temperature and tail length for two coarse-grained models: the soft-repulsive model typically employed with dissipative particle dynamics (DPD) and the MARTINI model. We characterize the simulated transitions through changes in structural properties, and we introduce a computational method to monitor changes in enthalpy, as is done experimentally with differential scanning calorimetry. The lipid system experimentally presents four different bilayer phases - subgel, gel, ripple, and fluid - and the DPD model describes all of these phases structurally while MARTINI describes a single order disorder transition between the gel and the fluid phases. Given both models' varying degrees of success in displaying accurate structural and thermodynamic signatures, there is an overall satisfying extent of agreement for the coarse-grained models. We also study the lipid dynamics displayed by these models for the various phases, discussing this dynamics with relation to fidelity to experiment and computational efficiency.
引用
收藏
页码:1551 / 1569
页数:19
相关论文
共 50 条
  • [41] Structure and elastic properties of coarse-grained lipid bilayers from molecular theory and simulation
    Frischknecht, AL
    Frink, LJD
    BIOPHYSICAL JOURNAL, 2005, 88 (01) : 247A - 247A
  • [42] Entropic elasticity based coarse-grained model of lipid membranes
    Feng, Shuo
    Hu, Yucai
    Liang, Haiyi
    JOURNAL OF CHEMICAL PHYSICS, 2018, 148 (16):
  • [43] Understanding DNA interactions in crowded environments with a coarse-grained model
    Hong, Fan
    Schreck, John S.
    Sulc, Petr
    NUCLEIC ACIDS RESEARCH, 2020, 48 (19) : 10726 - 10738
  • [44] Capturing Phase Behavior of Ternary Lipid Mixtures with a Refined Martini Coarse-Grained Force Field
    Carpenter, Timothy S.
    Lopez, Cesar A.
    Neale, Chris
    Montour, Cameron
    Ingolfsson, Helgi I.
    Di Natale, Francesco
    Lightstone, Felice C.
    Gnanakaran, S.
    JOURNAL OF CHEMICAL THEORY AND COMPUTATION, 2018, 14 (11) : 6050 - 6062
  • [45] Coarse-grained description of monounsaturated peroxidized phospholipid bilayers
    Zhang, Yangyang
    Liu, Donghui
    Zhang, Yiyang
    Guo, Yachong
    Li, Wenfei
    Thalmann, Fabrice
    JOURNAL OF CHEMICAL PHYSICS, 2022, 157 (08):
  • [46] Coarse-grained model of glycosaminoglycans
    Samsonov, S. A.
    Bichmann, L.
    Pisabarro, M. T.
    EUROPEAN BIOPHYSICS JOURNAL WITH BIOPHYSICS LETTERS, 2015, 44 : S172 - S172
  • [47] Resolving Dynamic Properties of Polymers through Coarse-Grained Computational Studies
    Salerno, K. Michael
    Agrawal, Anupriya
    Perahia, Dvora
    Grest, Gary S.
    PHYSICAL REVIEW LETTERS, 2016, 116 (05)
  • [48] Interactions between Fengycin and Model Bilayers Quantified by Coarse-Grained Molecular Dynamics
    Horn, Joshua N.
    Cravens, Aaron
    Grossfield, Alan
    BIOPHYSICAL JOURNAL, 2013, 105 (07) : 1612 - 1623
  • [49] Coarse-Grained Model of Glycosaminoglycans
    Samsonoy, Sergey A.
    Bichmann, Leon
    Pisabarro, M. Teresa
    JOURNAL OF CHEMICAL INFORMATION AND MODELING, 2015, 55 (01) : 114 - 124
  • [50] Understanding Creep Behavior of Semicrystalline Polymer via Coarse-Grained Modeling
    Wu, Chao
    Wu, Ruidong
    Xia, Wenjie
    Tam, Lik-ho
    JOURNAL OF POLYMER SCIENCE PART B-POLYMER PHYSICS, 2019, 57 (24) : 1779 - 1791