Protein Sequence Grouping by Peptide Word Motifs

I. Uchiyama ([1]
A. Ogiwara ([1]
T. Takagi ([1]
M. Kanehisa ([2]

[1] Human Genome Center, Institute of Medical Science, the University of Tokyo
4-6-1 Shirokanedai, Minato-ku, Tokyo 108 Japan
[2] Institute for Chemical Research, Kyoto University
Uji, Kyoto, 611 Japan


Methods for collecting related segments from the protein sequence database using strongly conserved peptide words as well as sequence homology was applied to the problem of reconstruction of PROSITE catalog [1] from the sequence database. In many case our results were well consistent with PROSITE although some additional relationships were also found.