A Method of Multiple Protein Sequence Alignment Using a Hybrid Approach

Multiple protein sequence alignment is an extension of pairwise alignment to incorporate more than two sequences at a time. Multiple protein sequence alignment methods try to align all of the sequences in a given query set. Multiple protein sequence alignments are often used in identifying conserved sequence regions across a group of sequences hypothesized to be evolutionarily related. Many approaches are available to align multiple protein sequences. The most accurate and fastest method is MUSCLE. In this paper, a new method has been proposed for multiple protein sequence alignment, which combines progressive, iterative and probabilistic approaches. This method performs pairwise alignment, constructs guide tree and then uses progressive approach to do profile-profile alignment. The iterative approach is used for refining the aligned sequences to improve the results. It will be expected that this method will produce better results than existing methods.