The classification of a protein from its primary sequence using functional and structural-specific PSSMs in Quantitative Measurement

摘要

In principle, the amino acid sequence of a protein contains structural, functional, and evolutionary characteristics [1]. Investigation of these characteristics using computational methods provides a powerful resource. However, these methods have limitations in their ability to annotate the characteristics of proteins accurately [2]. In an attempt to overcome this drawback, we have developed a unified computational pipeline, called the Gestalt Domain Detection Algorithm Basic Local Alignment Tool (GDDA-BLAST), for measuring the structural, functional and evolutionary characteristics of a protein [3]. The performance of GDDA-BLAST is better than those of other method such as SAM and psi-BLAST in homology detection.