Functional Proteomics pp 379-413

Part of the Methods In Molecular Biology™ book series (MIMB, volume 484)

Protein Multiple Sequence Alignment

  • Chuong B. Do
  • Kazutaka Katoh

Protein sequence alignment is the task of identifying evolutionarily or structurally related positions in a collection of amino acid sequences. Although the protein alignment problem has been studied for several decades, many recent studies have demonstrated considerable progress in improving the accuracy or scalability of multiple and pairwise alignment tools, or in expanding the scope of tasks handled by an alignment program. In this chapter, we review state-of-the-art protein sequence alignment and provide practical advice for users of alignment tools.

Key Words

Multiple sequence alignment review proteins software 

Copyright information

© Humana Press, a part of Springer Science+Business Media, LLC 2009

Authors and Affiliations

  • Chuong B. Do
    • 1
  • Kazutaka Katoh
    • 1
  1. 1.Computer Science DepartmentStanford UniversityStanfordUSA

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