Protein Folding in the Generalized Hydrophobic-Polar Model on the Triangular Lattice

Abstract

We consider the problem of determining the three-dimensional folding of a protein given its one-dimensional amino sequence. The model we use is based on the Hydrophobic-Polar (HP) model [2] on cubic lattices in which the goal is to find the fold with the maximum number of contacts between non-covalently linked hydrophobic amino acids.