Literature DB >> 14581199

Unbiased rotational moves for rigid-body dynamics.

Daniel A Beard1, Tamar Schlick.   

Abstract

We introduce an unbiased protocol for performing rotational moves in rigid-body dynamics simulations. This approach-based on the analytic solution for the rotational equations of motion for an orthogonal coordinate system at constant angular velocity-removes deficiencies that have been largely ignored in Brownian dynamics simulations, namely errors for finite rotations that result from applying the noncommuting rotational matrices in an arbitrary order. Our algorithm should thus replace standard approaches to rotate local coordinate frames in Langevin and Brownian dynamics simulations.

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Year:  2003        PMID: 14581199      PMCID: PMC1303575          DOI: 10.1016/S0006-3495(03)74717-1

Source DB:  PubMed          Journal:  Biophys J        ISSN: 0006-3495            Impact factor:   4.033


  6 in total

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Review 6.  Hydrodynamic properties of complex, rigid, biological macromolecules: theory and applications.

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  6 in total
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Journal:  Biophys J       Date:  2006-04-07       Impact factor: 4.033

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Journal:  Biophys J       Date:  2010-10-20       Impact factor: 4.033

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5.  Browndye: A Software Package for Brownian Dynamics.

Authors:  Gary A Huber; J Andrew McCammon
Journal:  Comput Phys Commun       Date:  2010-11-01       Impact factor: 4.390

6.  Effects of Hydrodynamic Interactions on the Near-Surface Diffusion of Spheroidal Molecules.

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Journal:  ACS Omega       Date:  2019-10-03
  6 in total

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