Journal of the American Chemical Society, Vol.117, No.20, 5445-5452, 1995
The Molten Helix - Effects of Solvation on the Alpha-Helical to 3(10)-Helical Transition
Free energy surfaces, or potentials of mean force, for the alpha- to 3(10)-helical conformational transition in polypeptides have been calculated in several solvents of different dielectric. The alpha- to 3(10)-helical transition has been suggested as potentially important in various biological processes, including protein folding, formation of voltage-gated ion channels, kinetics of substrate binding in proteins, and signal transduction mechanisms. This study investigates the thermodynamics of the alpha- to 3(10)-helical transition of a model peptide, the capped decamer of alpha-methylalanine, in order to assess the plausibility of this transition in the mechanisms of such biological processes. The free energy surfaces indicate that in each environment studied the alpha-helical conformation is the more stable of the two for the decapeptide, The thermodynamic data suggest that the alpha-helix is energetically stabilized and the 3(10)-helix is entropically favored.
Keywords:MOLECULAR-DYNAMICS SIMULATIONS;ALPHA;ALPHA-DIALKYL AMINO-ACIDS;MONTE-CARLO SIMULATIONS;ALANINE-BASED PEPTIDES;AMINOISOBUTYRIC-ACID;PARALLEL PACKING;S-PEPTIDE;PROTEINS;WATER;PREFERENCES