Title :
Evaluation of Novel Protein Structure Comparison Algorithms Based on Objective Function Rankings
Author :
Hasegawa, Hitomi ; Holm, Liisa
Author_Institution :
Inst. of Biotechnol., Univ. of Helsinki, Helsinki, Finland
Abstract :
Protein structure comparison is a important and developing area in Bioinformatics. Understanding the protein structure is very useful, since protein structure suffers less evolutionary changes compared to the amino acid sequences. Thus, comparing protein structures provides additional evolution information. However, structure comparison is not straightforward and multiple algorithms for comparison have emerged recently. In this paper we evaluate the performance of algorithms based on contact maps and Calpha, and their respective objective function, which is a measure of biological and evolutionary importance. The contributions are a state-of-the-art review of protein structure comparison algorithms that have not been compared with other servers. Further, we compare findings and evaluate them across others methods already proven effective.
Keywords :
bioinformatics; molecular configurations; proteomics; bioinformatics; contact map based comparison algorithms; evolution information; objective function based comparison algorithms; objective function rankings; protein structure comparison algorithms; Amino acids; Bioinformatics; Biotechnology; Drugs; Evolution (biology); History; Proposals; Protein engineering; Protein sequence; Shape;
Conference_Titel :
Biomedical Engineering and Informatics, 2009. BMEI '09. 2nd International Conference on
Conference_Location :
Tianjin
Print_ISBN :
978-1-4244-4132-7
Electronic_ISBN :
978-1-4244-4134-1
DOI :
10.1109/BMEI.2009.5304822