Multiscale coupling of mesoscopic- and atomistic-level lipid bilayer simulations

被引:50
作者
Chang, R
Ayton, GS
Voth, GA
机构
[1] Univ Utah, Ctr Biophys Modeling & Simulat, Salt Lake City, UT 84112 USA
[2] Univ Utah, Dept Chem, Salt Lake City, UT 84112 USA
关键词
D O I
10.1063/1.1931651
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
A multiscale method is presented to bridge between the atomistic and mesoscopic membrane systems. The atomistic model in this case is the united atom dimyristoylphosphatidylcholine membrane system, although the method is completely general. Atomistic molecular dynamics provides the expansion modulus which is used to parametrize a mesoscopic elastic membrane model. The resulting elastic membrane model, including explicit mesoscopic solvent, shows appropriate static and dynamic undulation behaviors. Large membranes of similar to 100 nm in length can then be easily simulated using the mesoscopic membrane system. The critical feedback from the mesoscopic system back down to the atomistic-scale system is accomplished by bridging the stress (or surface tension) of a small region in the mesoscopic membrane to the corresponding atomistic membrane system. Because of long length-scale modes of membranes such as undulation and buckling, the local tension responds differently from the frame tension, when subjected to external perturbations. The effect of these membrane modes is shown for the stress response of a local membrane region and therefore the atomistic membrane system. In addition, certain equilibrium static and dynamic properties of stand-alone and multiscale coupled systems are presented for several different membrane sizes. Although static properties such as two-dimensional pair-correlation function and order parameters show no noticeable discrepancy for the different systems, lipid self-diffusion and the rotational relaxation of lipid dipoles have a strong dependence on the membrane size (or long-wavelength membrane motions), which is properly modeled by the present multiscale method. (c) 2005 American Institute of Physics.
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页数:12
相关论文
共 74 条
[1]   MOLECULAR-DYNAMICS OF TETHERED MEMBRANES [J].
ABRAHAM, FF ;
RUDGE, WE ;
PLISCHKE, M .
PHYSICAL REVIEW LETTERS, 1989, 62 (15) :1757-1759
[2]   Bridging microscopic and mesoscopic simulations of lipid bilayers [J].
Ayton, G ;
Voth, GA .
BIOPHYSICAL JOURNAL, 2002, 83 (06) :3357-3370
[3]   Calculating the bulk modulus for a lipid bilayer with nonequilibrium molecular dynamics simulation [J].
Ayton, G ;
Smondyrev, AM ;
Bardenhagen, SG ;
McMurtry, P ;
Voth, GA .
BIOPHYSICAL JOURNAL, 2002, 82 (03) :1226-1238
[4]   Interfacing molecular dynamics and macro-scale simulations for lipid bilayer vesicles [J].
Ayton, G ;
Smondyrev, AM ;
Bardenhagen, SG ;
McMurtry, P ;
Voth, GA .
BIOPHYSICAL JOURNAL, 2002, 83 (02) :1026-1038
[5]   Interfacing continuum and molecular dynamics: An application to lipid bilayers [J].
Ayton, G ;
Bardenhagen, SG ;
McMurtry, P ;
Sulsky, D ;
Voth, GA .
JOURNAL OF CHEMICAL PHYSICS, 2001, 114 (15) :6913-6924
[6]   A new perspective on the coarse-grained dynamics of fluids [J].
Ayton, GS ;
Tepper, HL ;
Mirijanian, DT ;
Voth, GA .
JOURNAL OF CHEMICAL PHYSICS, 2004, 120 (09) :4074-4088
[7]   Electrostatics of nanosystems: Application to microtubules and the ribosome [J].
Baker, NA ;
Sept, D ;
Joseph, S ;
Holst, MJ ;
McCammon, JA .
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA, 2001, 98 (18) :10037-10041
[8]   Solvent-free simulations of fluid membrane bilayers [J].
Brannigan, G ;
Brown, FLH .
JOURNAL OF CHEMICAL PHYSICS, 2004, 120 (02) :1059-1071
[9]   FREQUENCY SPECTRUM OF FLICKER PHENOMENON IN ERYTHROCYTES [J].
BROCHARD, F ;
LENNON, JF .
JOURNAL DE PHYSIQUE, 1975, 36 (11) :1035-1047
[10]   Regulation of protein mobility via thermal membrane undulations [J].
Brown, FLH .
BIOPHYSICAL JOURNAL, 2003, 84 (02) :842-853