Absence of reptation in the high-temperature folding of the trpzip2 Β -hairpin peptide

Abstract

We have carried out extensive all atom explicit solvent simulations of the high-temperature folding and unfolding of the trpzip2 Β -hairpin peptide and examined the resulting trajectories for evidence of folding via a reptation mechanism. Over 300 microcanonical simulations of 10 ns each were initiated from a Boltzmann ensemble of conformations at 425 K. Though we observed numerous folding and unfolding events, no evidence of reptation was found. The diffusional dynamics of the peptide are orders of magnitude faster than any observed reptation-like motion. Our data suggest that the dominant mechanisms for Β -hairpin folding under these conditions are hydrophobic collapse and turn formation, and that rearrangements occur via significant expansion of the polypeptide chain. © 2006 American Institute of Physics.