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EUROGP
2005
Springer

Evolving L-Systems to Capture Protein Structure Native Conformations

9 years 2 months ago
Evolving L-Systems to Capture Protein Structure Native Conformations
Abstract. A protein is a linear chain of amino acids that folds into a unique functional structure, called its native state. In this state, proteins show repeated substructures like alpha helices and beta sheets. This suggests that native structures may be captured by the formalism known as Lindenmayer systems (L-systems). In this paper an evolutionary approach is used as the inference procedure for folded structures on simple lattice models. The algorithm searches the space of Lsystems which are then executed to obtain the phenotype, thus our approach is close to Grammatical Evolution. The problem is to find a set of rewriting rules that represents a target native structure on the lattice model. The proposed approach has produced promising results for short sequences. Thus the foundations are set for a novel encoding based on L-systems for evolutionary approaches to both the Protein Structure Prediction and Inverse Folding Problems.
Gabi Escuela, Gabriela Ochoa, Natalio Krasnogor
Added 27 Jun 2010
Updated 27 Jun 2010
Type Conference
Year 2005
Where EUROGP
Authors Gabi Escuela, Gabriela Ochoa, Natalio Krasnogor
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