PredictRegulon: a web server for the prediction of the regulatory protein binding sites and operons in prokaryote genomes

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/.