Using Novel Variable Transformations to Enhance Conformational Sampling in Molecular Dynamics

Zhongwei Zhu, Mark E. Tuckerman, Shane O. Samuelson, and Glenn J. Martyna
Phys. Rev. Lett. 88, 100201 – Published 25 February 2002
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Abstract

One of the computational “grand challenges” is to develop methodology capable of sampling conformational equilibria in systems with rough energy landscapes. Here, a significant step forward is made by combining molecular dynamics with a novel variable transformation designed to enhance sampling by reducing barriers without introducing bias and, thus, to preserve, perfectly, equilibrium properties.

  • Received 28 March 2001

DOI:https://doi.org/10.1103/PhysRevLett.88.100201

©2002 American Physical Society

Authors & Affiliations

Zhongwei Zhu

  • Department of Chemistry, New York University, New York, New York 10003

Mark E. Tuckerman

  • Department of Chemistry and Courant Institute of Mathematical Sciences, New York University, New York, New York 10003

Shane O. Samuelson and Glenn J. Martyna*

  • Department of Chemistry, Indiana University, Bloomington, Indiana 47405

  • *Present address: T. J. Watson Research Center, International Business Corporation, P.O. Box 218, Yorktown Heights, New York 10598.

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Vol. 88, Iss. 10 — 11 March 2002

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