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JCC
2002
81views more  JCC 2002»
14 years 9 months ago
Multiple grid methods for classical molecular dynamics
: Presented in the context of classical molecular mechanics and dynamics are multilevel summation methods for the fast calculation of energies/forces for pairwise interactions, whi...
Robert D. Skeel, Ismail Tezcan, David J. Hardy
JCC
2010
116views more  JCC 2010»
14 years 7 months ago
A comment to the nudged elastic band method
: The minimum energy path (MEP) is an important reaction path concept of theoretical chemistry, and the nudged elastic band (NEB) method with its many facets is a central method to...
Wolfgang Quapp, Josep Maria Bofill
JCC
2008
122views more  JCC 2008»
14 years 8 months ago
Asynchronous replica exchange for molecular simulations
: An asynchronous implementation of the replica exchange method that addresses some of the limitations of conventional synchronous replica exchange implementations is presented. In...
Emilio Gallicchio, Ronald M. Levy, Manish Parashar
JCC
2006
57views more  JCC 2006»
14 years 9 months ago
A search algorithm for fixed-composition protein design
: We present a computational protein design algorithm for finding low-energy sequences of fixed amino acid composition. The search algorithms used in protein design typically do no...
Geoffrey K. Hom, Stephen L. Mayo
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JCC
2006
39views more  JCC 2006»
14 years 9 months ago
A theoretical study of thermal [1, 3]-sigmatropic rearrangements of 3-trimethylsilyl-1-pyrazoline: Concerted vs. stepwise mechan
Abstract: Possible reaction mechanisms of 1,3-silyl and 1,3-hydrogen thermal rearrangements of trimethylsilyl-1pyrazoline and its model systems were theoretically explored using B3...
Chultack Lim, Hee Soon Lee, Young-Woo Kwak, Cheol ...