Assessing the accuracy of the general AMBER force field for 2,2,2-trifluoroethanol as solvent

Xiangyu Jia, John Zhang, Ye Mei

Research output: Contribution to journalArticle

Abstract

The alcohol-based cosolvent 2,2,2-trifluoroethanol (TFE) has been used widely in protein science and engineering. Many experimental and computational studies of its impact on protein structure have been carried out, but consensus on the mechanism has not been reached. In the past decade, several molecular mechanical models have been proposed to model the structure and dynamics of TFE. However, further calibration is still necessary. In particular, its compatibility with protein force fields has not been well examined. The general AMBER force field (GAFF) has proved quite successful in modeling small organic molecules, and is compatible with contemporary AMBER force field. In this work, we assessed the accuracy of GAFF for the TFE molecule as a bulk solvent. Several properties, such as density, dipole moment, radial distribution function, etc., were calculated and compared with experimental data. The results show that GAFF plays fairly well in the description of bulk TFE, although there is still room for improvement.

Original languageEnglish (US)
Pages (from-to)2355-2361
Number of pages7
JournalJournal of Molecular Modeling
Volume19
Issue number6
DOIs
StatePublished - Jun 2013

Fingerprint

Trifluoroethanol
field theory (physics)
Proteins
Molecules
proteins
Dipole moment
Distribution functions
Alcohols
Calibration
radial distribution
compatibility
molecules
dipole moments
alcohols
distribution functions
engineering

Keywords

  • Dipole
  • Force field
  • Permittivity
  • Simulation
  • Solvent
  • Trifluoroethanol

ASJC Scopus subject areas

  • Physical and Theoretical Chemistry
  • Computer Science Applications
  • Computational Theory and Mathematics
  • Catalysis
  • Organic Chemistry
  • Inorganic Chemistry

Cite this

Assessing the accuracy of the general AMBER force field for 2,2,2-trifluoroethanol as solvent. / Jia, Xiangyu; Zhang, John; Mei, Ye.

In: Journal of Molecular Modeling, Vol. 19, No. 6, 06.2013, p. 2355-2361.

Research output: Contribution to journalArticle

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