Novel use of a genetic algorithm for protein structure prediction: searching template and sequence alignment space.
A novel genetic algorithm was applied to all CASP5 targets. The algorithm simultaneously searches template and alignment space. Results show that the current implementation of the method is perhaps most useful in recognizing and refining remote homology targets. This new method is briefly described and results are analyzed. Strengths and weaknesses of the current implementation of the algorithm are discussed.
Contreras-Moreira
Bruno
B
Biomolecular Modelling Laboratory, Cancer Research UK London Research Institute, Lincoln's Inn Fields Laboratories, London, United Kingdom.
Fitzjohn
Paul W
PW
Offman
Marc
M
Smith
Graham R
GR
Bates
Paul A
PA
D000465:Algorithms; D000595:Amino Acid Sequence; D001426:Bacterial Proteins / Q000737:chemistry / Q000235:genetics; D001665:Binding Sites / Q000235:genetics; D019295:Computational Biology / Q000379:methods; D006801:Humans; D008958:Models, Molecular; D008969:Molecular Sequence Data; D017434:Protein Structure, Tertiary; D011506:Proteins / Q000737:chemistry* / Q000235:genetics; D017386:Sequence Homology, Amino Acid
D001426:Bacterial Proteins; D011506:Proteins