Conformational stability of the dimethylphosphate anion in
water: Liquid state free energy simulations
Abstract:
The relative free energies of hydration of dimethylphosphate
anion in gauche-gauche, gauche-trans, and trans-trans
conformations of phosphodiester torsion angles, computed with
Monte Carlo method in the (T,V,N) ensemble at 25oC,
are reported.
The free energy differences are determined by the probability
ration method using both umbrella sampling with harmonic
weighting functions and adaptive umbrella sampling technique. The
results indicate a stability trend of gg > gt > tt for the
phosphodiester torsions in aqueous solutions. The magnitude of
conformational differences indicates the extended gt and tt
conformations to be thermally accessible to some extent at
ambient temperatures. Conclusions of the present study are in
agreement with the IR and Raman inferences and 13P NMR
investigations. Methodologically, the performance of the free
energy simulations through probability ratio method along with
the adaptive umbrella sampling technique is tested in a
three-legged thermocycle and found to converge in a satisfactory
manner.