科研之友
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摘要
Protein folding problem is a classical non-deterministic polynomial (NP) hard problem in bioinformatics. The energy landscape paving (ELP) method is a class of heuristic global optimization algorithm. This paper applies the ELP method to simulate protein folding conformations for the hydrophobic-polar (HP) model on the face-centered-cube (FCC) lattice. By putting forward a new update mechanism of the histogram function in ELP and incorporating the generation of initial conformation based on the greedy strategy and the neighborhood search strategy based on pull-moves into ELP, an improved energy landscape paving (ELP+) method is put forward for the protein folding problem on the FCC lattice model. We test the method on nine benchmark sequences. The lowest energies by ELP+ are as good as or better than those of other methods in the literature for all instances. Computational results show that ELP+ is an effective method for protein folding problem on FCC lattice model.
- 出版日期2014-7
- 单位南京信息工程大学
