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Identification of Latent Periodicity in Domains of Alkaline Proteases

Xiaofeng Ji1, Jun Sheng1, Fang Wang1, Suzhen Zhang2, Jianhua Hao1, Haiying Wang1, and Mi Sun1*

1Yellow Sea Fisheries Research Institute, Chinese Academy of Fishery Sciences, Qingdao 266071, Shandong, China; fax: +86(532)8583-3525; E-mail: sunmi@ysfri.ac.cn

2Department of Physics, Dezhou University, Dezhou 253023, Shandong, China

* To whom correspondence should be addressed.

Received March 4, 2010; Revision received June 29, 2010
Internal repeats in protein sequences have wide-ranging implications for the structure and function of proteins. A keen analysis of the repeats in protein sequences may help us to better understand the structural organization of proteins and their evolutionary relations. In this paper, a mathematical method for searching for latent periodicity in protein sequences is developed. Using this method, we identified simple sequence repeats in the alkaline proteases and found that the sequences could show the same periodicity as their tertiary structures. This result may help us to reduce difficulties in the study of the relationship between sequences and their structures.
KEY WORDS: latent periodicity, alkaline protease, correlation, primary sequence

DOI: 10.1134/S0006297911090082