Monte Carlo Determination of the Free Energy and Internal
Energy of Hydration for the Ala Dipeptide at 25oC
Abstract:
The differences in free energy and internal energy of hydration of the
Ala dipeptide in the
C7, aR,
C5, and PII conformations were computed
with the Monte Carlo method in the (T,V,N) ensemble at 25o.
The free-energy differences were obtained by determining the
relative probabilities of the conformations that lie on a line that connects
two conformations in the
(y,f) space.
The determinantion of one free-energy difference required three to five
separate Monte Carlo runs using non-Boltzmann sampling.
The results indicate that both the aR
and PII conformations are preferentially stabilized
by hydration.
The major contributing factor for the stability of
internal energy of hydration for these conformations can be traced
to the hydration of the carbonyl group.