Authors
Sebastien Rigali, Maximilian Schlicht, Paul Hoskisson, Harald Nothaft, Matthias Merzbacher, Bernard Joris, Fritz Titgemeyer
Publication date
2004/1/1
Journal
Nucleic acids research
Volume
32
Issue
11
Pages
3418-3426
Publisher
Oxford University Press
Description
Transcription factors (TFs) of bacterial helix–turn–helix superfamilies exhibit different effector-binding domains (EBDs) fused to a DNA-binding domain with a common feature. In a previous study of the GntR superfamily, we demonstrated that classifying members into subfamilies according to the EBD heterogeneity highlighted unsuspected and accurate TF-binding site signatures. In this work, we present how such in silico analysis can provide prediction tools to discover new cis / trans relationships. The TF-binding site consensus of the HutC/GntR subfamily was used to (i) predict target sites within the Streptomyces coelicolor genome, (ii) discover a new HutC/GntR regulon and (iii) discover its specific TF. By scanning the S.coelicolor genome we identified a presumed new HutC regulon that comprises genes of the …
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Scholar articles
S Rigali, M Schlicht, P Hoskisson, H Nothaft… - Nucleic acids research, 2004