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Novel use of a genetic algorithm for protein structure prediction: Searching template and sequence alignment space

A novel genetic algorithm was applied to all CASP5 targets. The algorithm simultaneously searches template and alignment space. Results show that the current implementation of the method is perhaps most useful in recognizing and refining remote homology targets. This new method is briefly described and results are analyzed. Strengths and weaknesses of the current implementation of the algorithm are discussed. Proteins 2003;53:424–429. © 2003 Wiley‐Liss, Inc.