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Nucleic Acids Research, 2000, Vol. 28, No. 8 1838-1847
© 2000 Oxford University Press

The repertoire of DNA-binding transcriptional regulators in Escherichia coli K-12

Ernesto Pérez-Rueda and Julio Collado-Vides*

Programa de Biología Molecular Computacional, Centro de Investigación sobre Fijación de Nitrógeno, Universidad Nacional Autónoma de México, Cuernavaca, Morelos, AP 565-A 62110, Mexico

Using a combination of several approaches we estimated and characterized a total of 314 regulatory DNA-binding proteins in Escherichia coli, which might represent its minimal set of transcription factors. The collection is comprised of 35% activators, 43% repressors and 22% dual regulators. Within many regulatory protein families, the members are homogeneous in their regulatory roles, physiology of regulated genes, regulatory function, length and genome position, showing that these families have evolved homogeneously in prokaryotes, particularly in E.coli. This work describes a full characterization of the repertoire of regulatory interactions in a whole living cell. This repertoire should contribute to the interpretation of global gene expression profiles in both prokaryotes and eukaryotes.

* To whom correspondence should be addressed. Tel: +52 7 313 2063; Fax: +52 7 317 5581; Email: collado@cifn.unam.mx


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