Functional Determinants of Transcription Factors in Escherichia coli:
Protein Families and Binding Sites

Supplementary Material

Reprint of the manuscript as a PDF

M. Madan Babu and Sarah. A. Teichmann

MRC Laboratory of Molecular Biology, Hills Road, Cambridge - CB2 2QH, United Kingdom
Phone: +44-(0)1223-402041 :: Fax: +44-(0)1223-213556

DNA-binding transcription factors (TFs) are an important class of molecule, which regulate the expression of genes in the vicinity of their binding. DNA-binding transcription factors can be activators, repressors, or both. Thus a fundamental question about transcription factors is what determines whether a protein acts as an activator or repressor? Previous research into this question has highlighted that a protein's regulatory function is determined by one or more of the following factors: protein-protein contacts, position of the DNA binding domain (DBD) on the primary sequence, altered DNA structure and the position of the DNA binding site. Though there are many factors applicable to specific transcription factors, in this work we demonstrate that, in general, in the prokaryote Escherichia coli a transcription factor's protein family is not indicative of its regulatory function, but the position of its binding site is.

Key to figure legend 1

The domain architecture of the 69 proteins which were considered in the analysis is available here along with the key to figure 1 in the text.

Binding site data with other details for the 71 TFs used in the analysis

Clicking on this link will take you to the list of 71 TFs with binding site and relevant data in MySQL format

Relevant references

This page was last updated on 27th June 2002





Since 27th Jun 2002