Application of amino acid occurrence for discriminating different folding types of globular proteins

Background: Predicting the three-dimensional structure of a protein from its amino acid sequence is a long-standing goal in computational/molecular biology. The discrimination of different structural classes and folding types are intermediate steps in protein structure prediction. Results: In this work, we have proposed a method based on linear discriminant analysis (LDA) for discriminating 30 different folding types of globular proteins using amino acid occurrence. Our method was tested with a non-redundant set of 1612 proteins and it discriminated them with the accuracy of 38%, which is comparable to or better than other methods in the literature. A web server has been developed for discriminating the folding type of a query protein from its amino acid sequence and it is available at http://granular.com/PROLDA/. Conclusion: Amino acid occurrence has been successfully used to discriminate different folding types of globular proteins. The discrimination accuracy obtained with amino ac...

• Type: Journal
• Year: 2007
• Where: BMCBI
• Authors: Y.-h. Taguchi, M. Michael Gromiha
• Keywords: Amino Acid, Amino Acid Sequence, BMCBI 2007, Protein