Computing Closures of Indirect Similarity Relationships among Structures in Proteins

Kenji Satou[1] (ken@csce.kyushu-u.ac.jp)
Emiko Furuichi[2] (emiko@grt.kyushu-u.ac.jp)
Shin'ichi Hashimoto[1] (gucci@csce.kyushu-u.ac.jp)
Yukiko Tsukamoto[3] (yukiko@grt.kyushu-u.ac.jp)
Satoru Kuhara[3] (kuhara@grt.kyushu-u.ac.jp)
Toshihisa Takagi[4] (takagi@ims.u-tokyo.ac.jp)
Kazuo Ushijima[1] (ushijima@csce.kyushu-u.ac.jp)

[1] Department of Computer Science and Communication Engineering, Kyushu University
Hakozaki, Higashi-ku, Fukuoka 812, Japan
[2] Fukuoka Women's Junior College, Gojo, Dazaifu, Fukuoka 818-01, Japan
[3] Graduate School of Genetic Resources Technology, Kyushu University
Hakozaki, Higashi-ku, Fukuoka 812, Japan
[4] Human Genome Center, Institute of Medical Science, The University of Tokyo
Shiroganedai, Minato-ku, Tokyo 108, Japan


abstract

We have developed a deductive database system PACADE for analyzing three dimensional and secondary structures of protein. A function newly introduced to PACADE is described here. It enables to compute a closure of indirect similarity relationships among structure of proteins.