Three-dimensional protein structure prediction based on memetic algorithms

The Co-Evolution of Memetic Algorithms for Protein Structure Prediction

This paper describes a co-evolutionary learning-optimisation approach to Protein Structure Prediction which uses a Memetic Algorithm as its underlying search method. Instance-specific knowledge can be learned, stored and applied by the system in the form of a population of rules. These rules determine the neighbourhoods used by the local search process, which is applied to each member of the co...

Prediction of Protein Three-Dimensional Structure

Novel Memetic Algorithm for Protein Structure Prediction

A novel Memetic Algorithm (MA) is proposed for investigating the complex ab initio protein structure prediction problem. The proposed MA has a new fitness function incorporating domain knowledge in the form of two new measures (H-compliance and P-compliance) to indicate hydrophobic and hydrophilic nature of a residue. It also includes two novel techniques for dynamically preserving best fit sch...

Protein-binding site prediction based on three-dimensional protein modeling.

Structural information of a protein can guide one to understand the function of the protein, and ligand binding is one of the major biochemical functions of proteins. We have applied a two-stage template-based ligand binding site prediction method to CASP8 targets and achieved high quality results with accuracy/coverage = 70/80 (LEE). First, templates are used for protein structure modeling and...

Protein Three Dimensional Structure Prediction on Object Oriented Database

We de ned the protein inverse folding problem with an object oriented database and an empirical hydrophobic penalty function, which was derived from the number of residues around each residue in a protein three dimensional structure. Under the database management system, we compiled the known structures of proteins and the evaluation function into one functional database. In order to compare ou...