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Nucleic Acids Research, 2001, Vol. 29, No. 1 278-280
© 2001 Oxford University Press

DBTBS: a database of Bacillus subtilis promoters and transcription factors

Takahiro Ishii, Ken-ichi Yoshida1, Goro Terai2,3, Yasutaro Fujita1 and Kenta Nakai3,*

PharmaDesign, Tokyo 104-0032, Japan, 1Department of Biotechnology, Faculty of Engineering, Fukuyama University, Fukuyama 729-0292, Japan, 2INTEC Web and Genome Informatics Corp., Tokyo 136-8637, Japan and 3Human Genome Center, Institute of Medical Science, University of Tokyo, 4-6-1 Shirokane-dai, Minato-ku, Tokyo 108-8639, Japan

With the completion of the determination of its entire genome sequence, one of the next major targets of Bacillus subtilis genomics is to clarify the whole gene regulatory network. To this end, the results of systematic experiments should be compared with the rich source of individual experimental results accumulated so far. Thus, we constructed a database of the upstream regulatory information of B.subtilis (DBTBS). The current version was constructed by surveying 291 references and contains information on 90 binding factors and 403 promoters. For each promoter, all of its known cis-elements are listed according to their positions, while these cis-elements are aligned to illustrate their consensus sequence for each transcription factor. All probable transcription factors coded in the genome were classified with the Pfam motifs. Using this database, we compared the character of B.subtilis promoters with that of Escherichia coli promoters. Our database is accessible at http://elmo.ims.u-tokyo.ac.jp/dbtbs/.

* To whom correspondence should be addressed. Tel: +81 3 5449 5619; Fax: +81 3 5449 5434; Email: knakai{at}ims.u-tokyo.ac.jp


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