• 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