Genetic-annealing algorithm for 3D off-lattice protein folding model

Authors:
Xiaolong Zhang;Xiaoli Lin;Chengpeng Wan;Tingting Li
Affiliations:
School of Computer Science and Technology, Wuhan University of Science and Technology, Wuhan, P.R. China;School of Computer Science and Technology, Wuhan University of Science and Technology, Wuhan, P.R. China;School of Computer Science and Technology, Wuhan University of Science and Technology, Wuhan, P.R. China;School of Computer Science and Technology, Wuhan University of Science and Technology, Wuhan, P.R. China
Venue:
PAKDD'07 Proceedings of the 2007 international conference on Emerging technologies in knowledge discovery and data mining
Year:
2007

Citing 1
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Abstract

This paper presents a model used to deal with three-dimensional off-lattice AB protein folding. The model is extended from genetic-annealing algorithm that is for the two-dimensional off-lattice AB protein model. The three-dimensional model also has only two types of residues, hydrophobic and hydrophilic. Based on a physical model, the problem is converted from a nonlinear constraint-satisfied problem to an unconstrained optimization problem. Also, in contrast to earlier studies using off-lattice AB models, our results demonstrate that the proposed methods are very promising for searching the ground states of protein folding in three dimensions.