Protein Structure Prediction by Evolutionary Multi-objective Optimization: Search Space Reduction by Using Rotamers

Authors:
J. C. Calvo;J. Ortega;M. Anguita;J. M. Urquiza;J. P. Florido
Affiliations:
Department of Computer Architecture and Technology CITIC-UGR, University of Granada,;Department of Computer Architecture and Technology CITIC-UGR, University of Granada,;Department of Computer Architecture and Technology CITIC-UGR, University of Granada,;Department of Computer Architecture and Technology CITIC-UGR, University of Granada,;Department of Computer Architecture and Technology CITIC-UGR, University of Granada,
Venue:
IWANN '09 Proceedings of the 10th International Work-Conference on Artificial Neural Networks: Part I: Bio-Inspired Systems: Computational and Ambient Intelligence
Year:
2009

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Abstract

The protein structure prediction (PSP) problem is considered an open problem as there is no recognized "best" procedure to find solutions. Moreover, this problem presents a vast search space and the analysis of each protein conformation requires significant amount of computing time. We propose a reduction of the search space by using the dependent rotamer library. Also this work introduces new heuristics to improve the multi-objective optimization approach to this problem.