Multiscale modeling of lipids and lipid bilayers.
A multiscale modeling approach is applied for simulations of lipids and lipid assemblies on mesoscale. First, molecular dynamics simulation of initially disordered system of lipid molecules in water within all-atomic model was carried out. On the next stage, structural data obtained from the molecular dynamics (MD) simulation were used to build a coarse-grained (ten sites) lipid model, with effective interaction potentials computed by the inverse Monte Carlo method. Finally, several simulations of the coarse-grained model on longer length- and time-scale were performed, both within Monte Carlo and molecular dynamics simulations: a periodical sample of lipid molecules ordered in bilayer, a free sheet of such bilayer without periodic boundary conditions, formation of vesicle from a plain membrane, process of self-assembly of lipids randomly dispersed in volume. It was shown that the coarse-grained model, developed exclusively from all-atomic simulation data, reproduces well all the basic features of lipids in water solution.
Lyubartsev
Alexander P
AP
Division of Physical Chemistry, Arrhenius Laboratory, Stockholm University, 106 91 Stockholm, Sweden. alexander.lyubartsev@physc.su.se
D003198:Computer Simulation; D008051:Lipid Bilayers / Q000737:chemistry*; D008055:Lipids / Q000737:chemistry*; D008563:Membrane Lipids / Q000737:chemistry*; D008954:Models, Biological; D008968:Molecular Conformation; D009010:Monte Carlo Method; D014867:Water / Q000737:chemistry
D008051:Lipid Bilayers; D008055:Lipids; D008563:Membrane Lipids; D014867:Water