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Single-Molecule Tracking Microscopy - A Tool for Determining the Diffusive States of Cytosolic Molecules
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Diffusion Monte Carlo in internal coordinates.

Andrew S Petit1, Anne B McCoy

  • 1Department of Chemistry and Biochemistry, The Ohio State University, Columbus, Ohio 43210, USA.

The Journal of Physical Chemistry. A
|February 16, 2013
PubMed
Summary
This summary is machine-generated.

A new internal coordinate method for diffusion Monte Carlo (DMC) accurately describes molecular ground states with large vibrations. This approach, applied to H(3)(+), aids in selecting coordinates for vibrational calculations.

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Area of Science:

  • Quantum chemistry
  • Computational physics
  • Molecular dynamics

Background:

  • Diffusion Monte Carlo (DMC) is a powerful quantum mechanical simulation method.
  • Accurately modeling molecules with large-amplitude vibrational motions, like H(3)(+), remains challenging.
  • Reduced-dimensional approaches can simplify complex molecular simulations.

Purpose of the Study:

  • To develop an internal coordinate extension of DMC for generalized reduced-dimensional calculations.
  • To apply the method to H(3)(+) and its isotopologues to assess its capabilities.
  • To investigate the suitability of different internal coordinates for fixed-node DMC.

Main Methods:

  • An internal coordinate formulation of DMC was developed without constraints on coordinate independence.
  • The method was tested on H(3)(+) and its isotopologues to compute ground state properties.
  • The fixed-node approximation was combined with the internal coordinate DMC for excited states.

Main Results:

  • The internal coordinate DMC successfully described the ground state properties of H(3)(+) and its isotopologues.
  • Analysis of probability distributions identified less coupled internal coordinates.
  • Curvilinear normal mode coordinates proved effective for nodal surfaces in fluxional molecules like H(2)D(+) and D(2)H(+).

Conclusions:

  • The developed internal coordinate DMC is a promising step towards generalized reduced-dimensional calculations.
  • The method accurately captures large-amplitude zero-point vibrational motions.
  • Insights into coordinate coupling aid in optimizing fixed-node DMC calculations for complex molecular systems.