AITEC Contract Research Projects in FY1995 : Software

(21) Development of Protein Structure Prediction System: Secondary Structure Prediction of Membrane Proteins

Dr. Shigeki Mitaku, Tokyo University of Agriculture and Technology

SOSUI: Secondary Structure Prediction System of Membrane Proteins

by

Mitaku Laboratory
Department of Biotechnology
Tokyo University of Agriculture and Technology



[Features of the Software]

The SOSUI system (ver. 1.0 / 10, Mar., 1996) is a useful tool for secondary structure prediction of membrane proteins from a protein sequence. The basic idea of prediction in this system is based on the physicochemical properties of amino acid sequences such as hydrophobicity and charges. The system deals with three types of prediction: discrimination of membrane proteins from soluble one, prediction of existence of transmembrane helices and determination of transmembrane helical regions. The accuracy of this system, discrimination of membrane proteins, existence of transmembrane helices and transmembrane helical regions, are about 99%, 96% and 85% respectively.

[Required Environment]

A Unix workstation with HTTP Daemon and WWW browser in an Internet environment.

[File Configuration]

The expanded directory has the following directories and files:

README.j
README.e
copyright
sample.seq: Sample sequences
doc/: Document of SOSUI system
man/: User manual for the SOSUI system
html/: Interface programs for SOSUI (HTML format)
gif/: Interface programs for SOSUI (GIF format)
src/: SOSUI main programs
script/: SOSUI executive script

[FTP]

www-admin@icot.or.jp