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Temperature dependence of protein dynamics simulated with three different water models

By Dennis C. Glass, Marimuthu Krishnan, David R. Nutt and Jeremy C. Smith

Abstract

The effect of variation of the water model on the temperature dependence of protein and hydration water dynamics is examined by performing molecular dynamics simulations of myoglobin with the TIP3P, TIP4P, and TIP5P water models and the CHARMM protein force field at temperatures between 20 and 300 K. The atomic mean-square displacements, solvent reorientational relaxation times, pair angular correlations between surface water molecules, and time-averaged structures of the protein are all found to be similar, and the protein dynamical transition is described almost indistinguishably for the three water potentials. The results provide evidence that for some purposes changing the water model in protein simulations without a loss of accuracy may be possible

Publisher: American Chemical Society
Year: 2010
OAI identifier: oai:centaur.reading.ac.uk:18176

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