Identification of Latent Periodicity in Amino Acid Sequences of Protein Families

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V. P. Turutina¹, A. A. Laskin², N. A. Kudryashov², K. G. Skryabin¹, and E. V. Korotkov^1,2*

¹Bioengineering Center, Russian Academy of Sciences, pr. 60-letiya Oktyabrya 7/1, 117312 Moscow, Russia; fax: (7-495) 135-0571; E-mail: katrin22@mtu-net.ru

²Moscow Physical Engineering Institute (Technical University), Kashirskoe Shosse 31, 115409 Moscow, Russia

^* To whom correspondence should be addressed.

Received February 24, 2005; Revision received May 16, 2005

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For detection of the latent periodicity of the protein families responsible for various biological functions, methods of information decomposition, cyclic profile alignment, and the method of noise decomposition have been used. The latent periodicity, being specific to a particular family, is recognized in 94 of 110 analyzed protein families. Family specific periodicity was found for more than 70% of amino acid sequences in each of these families. Based on such sequences the characteristic profile of the latent periodicity has been deduced for each family. Possible relationship between the recognized latent periodicity, evolution of proteins, and their structural organization is discussed.

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KEY WORDS: latent periodicity, alignment, information decomposition

DOI: 10.1134/S0006297906010032

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