Abstract
We examine a prominent and widely-studied model of the protein folding problem, the two-dimensional (2D) HP model, by means of a filter-and-fan (F&F) solution approach. Our method is designed to generate compound moves that explore the solution space in a dynamic and adaptive fashion. Computational results for standard sets of benchmark problems show that the F&F algorithm is highly competitive with the current leading algorithms, requiring only a single solution trial to obtain best known solutions to all problems tested, in contrast to a hundred or more trials required in the typical case to evaluate the performance of the best of the alternative methods.
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