Journal
JOURNAL OF PHYSICAL CHEMISTRY A
Volume 113, Issue 26, Pages 7461-7473Publisher
AMER CHEMICAL SOC
DOI: 10.1021/jp900407w
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Funding
- NIH [GM059796]
- Baylor Intramural research
- ICES Visiting Fellowship from the University of Texas
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The unfolding process of a helical heteropeptide is Studied by computer simulation in explicit solvent. A combination of a functional optimization to determine the reaction coordinate and short time trajectories between milestones is used to study the kinetics of the unfolding. One hundred unfolding trajectories along three different unfolding pathways are Computed between all nearby milestones, providing adequate statistics to compute the overall first passage time. The radius of gyration is smaller for intermediate configurations compared to the initial and final states, suggesting that the kinetics (but not the thermodynamics) is sensitive to pressure. The transitions are dominated by local bond rotations (the psi dihedral angle) that are assisted by significant nonmonotonic fluctuations of nearby torsions. The most effective unfolding pathway is via the N-terminal.
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