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Issue 16, 2013
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Hierarchical multiscale modeling of macromolecules and their assemblies

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Abstract

Soft materials (e.g., enveloped viruses, liposomes, membranes and supercooled liquids) simultaneously deform or display collective behaviors, while undergoing atomic scale vibrations and collisions. While the multiple space-time character of such systems often makes traditional molecular dynamics simulation impractical, a multiscale approach has been presented that allows for long-time simulation with atomic detail based on the co-evolution of slowly varying order parameters (OPs) with the quasi-equilibrium probability density of atomic configurations. However, this approach breaks down when the structural change is extreme, e.g., when nearest-neighbor connectivity between structural subsystems is not maintained. In the current study, a self-consistent approach is presented wherein OPs and a reference structure co-evolve slowly to yield long-time simulation for dynamical soft-matter phenomena such as structural transitions and self-assembly. The development begins with the Liouville equation for N classical atoms and an ansatz on the form of the associated N-atom probability density. Multiscale techniques are used to derive Langevin equations for the coupled OP-configurational dynamics. The net result is a set of equations for the coupled stochastic dynamics of the OPs and centers of mass of the subsystems that constitute a soft material body. The theory is based on an all-atom methodology and an interatomic force field, and therefore enables calibration-free simulations of soft matter, such as macromolecular assemblies.

Graphical abstract: Hierarchical multiscale modeling of macromolecules and their assemblies

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Publication details

The article was received on 05 Oct 2012, accepted on 20 Feb 2013 and first published on 13 Mar 2013


Article type: Paper
DOI: 10.1039/C3SM50176K
Citation: Soft Matter, 2013,9, 4319-4335

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    Hierarchical multiscale modeling of macromolecules and their assemblies

    P. Ortoleva, A. Singharoy and S. Pankavich, Soft Matter, 2013, 9, 4319
    DOI: 10.1039/C3SM50176K

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