Functional Word in a Protein. IV. Alphabet.

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  • Functional Word in a Protein(4)Alphabet
  • IV. Alphabet

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Abstract

A unique nucleotide sequence that consists of aligned second bases of colon triplets in the cDNA sequence of trypsin is designed to identify the active sites on the DEV model. Compared with the amino acid sequence that was exploited before, the assignment of functional system or active sites of trypsin is straightforward: the site B and its partners, site E, contain 84-D, 40-H, and 177-S. However, the difficulty is in less-specific nature of the site Es that require information on amino acid sequence. The results led by means of either amino acid sequence or nucleotide sequence due to the difference in the number of alphabets (twenty amino acidsversus four nucleotides) and the prediction efficiency is strengthened by using these two words. Further improvement of the prediction can be done by artificial five alphabets, A, T, G, C, and S. In this case, information of cDNA is not necessary.

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