We outline a general strategy for determining the effective coarse-grained interactions between the amino acids of a protein from the experimentally derived nativestate structures. The method is, in principle, free from any adjustable or empirically determined parameters, and it is tested on simple
A consistent empirical potential for water–protein interactions
✍ Scribed by Jan Hermans; Herman J. C. Berendsen; Wilfred F. Van Gunsteren; Johan P. M. Postma
- Publisher
- Wiley (John Wiley & Sons)
- Year
- 1984
- Tongue
- English
- Weight
- 275 KB
- Volume
- 23
- Category
- Article
- ISSN
- 0006-3525
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✦ Synopsis
Abstract
A simple point‐charge potential, developed earlier for the calculation of intermolecular forces in molecular‐dynamics simulations of liquid water, has been extended to include interactions between water molecules and polar groups of proteins. A complete potential for use in the simulation of protein dynamics in water is reported.
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