Data/hora: 12/06/2024 02:22:44

Provedor de dados: | 74
País: | Brazil
Título: | Investigation of the three-dimensional lattice HP protein folding model using a genetic algorithm
Autores: | Custódio,Fábio L.; Barbosa,Hélio J. C.; Dardenne,Laurent E.
Data: | 2004-01-01
Ano: | 2004
Palavras-chave: | HP model; Genetic algorithms; Protein folding.
Resumo: | An approach to the hydrophobic-polar (HP) protein folding model was developed using a genetic algorithm (GA) to find the optimal structures on a 3D cubic lattice. A modification was introduced to the scoring system of the original model to improve the model's capacity to generate more natural-like structures. The modification was based on the assumption that it may be preferable for a hydrophobic monomer to have a polar neighbor than to be in direct contact with the polar solvent. The compactness and the segregation criteria were used to compare structures created by the original HP model and by the modified one. An islands' algorithm, a new selection scheme and multiple-points crossover were used to improve the performance of the algorithm. Ten sequences, seven with length 27 and three with length 64 were analyzed. Our results suggest that the modified model has a greater tendency to form globular structures. This might be preferable, since the original HP model does not take into account the positioning of long polar segments. The algorithm was implemented in the form of a program with a graphical user interface that might have a didactical potential in the study of GA and on the understanding of hydrophobic core formation.
Tipo: | Info:eu-repo/semantics/article
Idioma: | Inglês
Identificador: | http://www.scielo.br/scielo.php?script=sci_arttext&pid=S1415-47572004000400023
Editor: | Sociedade Brasileira de Genética
Relação: | 10.1590/S1415-47572004000400023
Formato: | text/html
Fonte: | Genetics and Molecular Biology  v.27 n.4 2004
Fonte: | info:eu-repo/semantics/openAccess