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arxiv: 0804.3576 · v1 · submitted 2008-04-22 · ❄️ cond-mat.stat-mech · cond-mat.soft· q-bio.BM

Geometry of the energy landscape and folding transition in a simple model of a protein

classification ❄️ cond-mat.stat-mech cond-mat.softq-bio.BM
keywords energylandscapefoldingsequencestransitionbehaviorgeometryglobal
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A geometric analysis of the global properties of the energy landscape of a minimalistic model of a polypeptide is presented, which is based on the relation between dynamical trajectories and geodesics of a suitable manifold, whose metric is completely determined by the potential energy. We consider different sequences, some with a definite protein-like behavior, a unique native state and a folding transition, and the others undergoing a hydrophobic collapse with no tendency to a unique native state. The global geometry of the energy landscape appears to contain relevant information on the behavior of the various sequences: in particular, the fluctuations of the curvature of the energy landscape, measured by means of numerical simulations, clearly mark the folding transition and allow to distinguish the protein-like sequences from the others.

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