PredictRegulon: a web server for the prediction of the regulatory protein binding sites and operons in prokaryote genomes
1 Computational & Functional Genomics Group and 2 Molecular Oncology Laboratory, Centre for DNA Fingerprinting and Diagnostics, EMBnet India Node, Hyderabad 500076, India
* To whom correspondence should be addressed. Tel: +9140 27171454; Fax: +9140 27155610; Email: akash{at}cdfd.org.in
Received February 15, 2004; Revised and Accepted March 4, 2004
An interactive web server is developed for predicting the potential binding sites and its target operons for a given regulatory protein in prokaryotic genomes. The program allows users to submit known or experimentally determined binding sites of a regulatory protein as ungapped multiple sequence alignments. It analyses the upstream regions of all genes in a user-selected prokaryote genome and returns the potential binding sites along with the downstream co-regulated genes (operons). The known binding sites of a regulatory protein can also be used to identify its orthologue binding sites in phylogeneticaly related genomes where the trans-acting regulator protein and cognate cis-acting DNA sequences could be conserved. PredictRegulon can be freely accessed from a link on our world wide web server: http://www.cdfd.org.in/predictregulon/.
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