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Potential energy functions: From consistent force fields to spectroscopically determined polarizable force fields
Author(s) -
Palmo Kim,
Mannfors Berit,
Mirkin Noemi G.,
Krimm Samuel
Publication year - 2003
Publication title -
biopolymers
Language(s) - English
Resource type - Journals
SCImago Journal Rank - 0.556
H-Index - 125
eISSN - 1097-0282
pISSN - 0006-3525
DOI - 10.1002/bip.10254
Subject(s) - force field (fiction) , polarizability , context (archaeology) , potential energy , ab initio , representation (politics) , transformation (genetics) , chemistry , field (mathematics) , constraint (computer aided design) , statistical physics , function (biology) , energy (signal processing) , classical mechanics , computational chemistry , physics , quantum mechanics , mechanical engineering , molecule , mathematics , paleontology , biochemistry , organic chemistry , evolutionary biology , politics , political science , gene , pure mathematics , law , biology , engineering
We review our methodology for producing physically accurate potential energy functions, particularly relevant in the context of Lifson's goal of including frequency agreement as one of the criteria of a self‐consistent force field. Our spectroscopically determined force field (SDFF) procedure guarantees such agreement by imposing it as an initial constraint on parameter optimization, and accomplishes this by an analytical transformation of ab initio “data” into the energy function format. After describing the elements of the SDFF protocol, we indicate its implementation to date and then discuss recent advances in our representation of the force field, in particular those required to produce an SDFF for the peptide group. © 2003 Wiley Periodicals, Inc. Biopolymers: 383–394, 2003