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Understanding Transcription Factors and Gene Regulatory Networks in E. coli

This research focuses on the functional determinants and evolution of transcription factors in E. coli. We investigate the diverse roles of transcription factors, classified as activators, repressors, or dual regulators, and their interactions with RNA polymerase. Using structural domain assignments from SUPERFAMILY and data from RegulonDB, we explore how protein families and binding sites influence gene regulation. Our work aims to provide insights into the gene regulatory network evolution through duplication and other mechanisms.

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Understanding Transcription Factors and Gene Regulatory Networks in E. coli

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  1. Abbreviations DBD: DNA Binding Domain; TF: Transcription Factor; A: Activator; R: Repressor; D: Dual Regulator; U: Unknown regulatory function; RNAP: RNA Polymerase Acknowledgements We would like to thank Dr. Julian Gough for providing us the SCOP structural domain assignments from SUPERFAMILY, Dr. Collado-Vides and Dr. Salgado Heladia for providing us information from RegulonDB. M. Madan Babu is an LMB Cambridge fellow and is supported by the Cambridge Overseas Trust, Cambridge Commonwealth Trust and Trinity External Research Studentship. http://www.mrc-lmb.cam.ac.uk/genomes/madanm/ec_tf

  2. Publications M. Madan Babu* and Sarah. A. Teichmann (2003).Functional Determinants of Transcription Factors in E. coli: Protein Families and Binding Sites, Trends in Genetics, 19:75-79. M. Madan Babu* and Sarah. A. Teichmann (2003).Evolution of Transcription Factors and the Gene Regulatory Network in E. coli, Nucleic Acids Research, 31:1234-2344. Sarah. A. Teichmann* and M. Madan Babu*.Evolution of Gene Regulatory Network by Duplication, manuscript in preparation.

  3. Evolution of Transcription Factors and the Gene Regulatory Network inE. coli M. Madan Babu and Sarah A. Teichmann madanm@mrc-lmb.cam.ac.uk :: sat@mrc-lmb.cam.ac.uk MRC Laboratory of Molecular Biology Hills Road, Cambridge CB2 2QH, UK

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