Title of article
Long-range force and moment calculations in multiresolution simulations of molecular systems
Author/Authors
Poursina، نويسنده , , Mohammad and Anderson، نويسنده , , Kurt S.، نويسنده ,
Issue Information
روزنامه با شماره پیاپی سال 2012
Pages
18
From page
7237
To page
7254
Abstract
Multiresolution simulations of molecular systems such as DNAs, RNAs, and proteins are implemented using models with different resolutions ranging from a fully atomistic model to coarse-grained molecules, or even to continuum level system descriptions. For such simulations, pairwise force calculation is a serious bottleneck which can impose a prohibitive amount of computational load on the simulation if not performed wisely. Herein, we approximate the resultant force due to long-range particle-body and body-body interactions applicable to multiresolution simulations. Since the resultant force does not necessarily act through the center of mass of the body, it creates a moment about the mass center. Although this potentially important torque is neglected in many coarse-grained models which only use particle dynamics to formulate the dynamics of the system, it should be calculated and used when coarse-grained simulations are performed in a multibody scheme. Herein, the approximation for this moment due to far-field particle-body and body-body interactions is also provided.
Keywords
Long-range interactions , Pseudo-inertia tensor , biopolymers , Coarse-grained molecular systems , pairwise interactions , Pseudo-center , Multiresolution problems
Journal title
Journal of Computational Physics
Serial Year
2012
Journal title
Journal of Computational Physics
Record number
1484656
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