Effective Search of the Energy Landscape for Protein Folding

Eugene Santos Jr.¹, Keum Joo Kim¹, and Eunice E. Santos²

¹University of Connecticut,
Storrs, CT 06269
{eugene,keumjoo}@engr.uconn.edu,

²Virginia Polytechnic Institute and State University,
Blacksburg,VA 24061
santos@cs.vt.edu

Abstract. We propose a new algorithmic approach for global optimization in protein folding. We use the information found in various local minima to direct the search for the global minimum. In this way, we explore the energy landscape efficiently by considering only the space of local minima instead of the whole feasible space of conformations.

LNCS 2723, p. 642 f.

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