Ionic Bonding simulation, role

In contrast, there will be many cases where continuum solvent models are less useful. These include situations where one of the goals of the simulation is to obtain a detailed picture of solvent structure, or where there is evidence that a particular structural feature of the solvent is playing a key role (for example, a specific water-macromolecule hydrogen bond). In these situations, however, explicit representation of some water combined with implicit solvation may suffice. Another example is when molecular dynamics simulations are used to study kinetic, or time-dependent phenomena. The absence of the frictional effects of solvent will lead to overestimation of rates. In addition, more subtle time-dependent effects arising from the solvent will be missing from continuum models. Continuum solvent models are in effect frilly adiabatic, in the sense that for any instantaneous macromolecular conformation, the solvent is taken to be completely relaxed. For electrostatic effects, this implies instantaneous dielectric and ionic double layer relaxation rates, and for the hydrophobic effect, instantaneous structural rearrangement. An exception would be dielectric models that involve a frequency-dependent dielectric. Nevertheless, continuum solvent models should be used with caution in studying the time dependence of macromolecular processes. 

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