From sequence to dynamics: the effects of transcription factor and polymerase concentration changes on activated and repressed promoters
Por:
Perez, AG, Angarica, VE, Collado-Vides J., Vasconcelos, ATR
Publicada:
22 sep 2009
Categoría:
Molecular Biology
Resumen:
Background: The fine tuning of two features of the bacterial regulatory machinery have been known to contribute to the diversity of gene expression within the same regulon: the sequence of Transcription Factor (TF) binding sites, and their location with respect to promoters. While variations of binding sequences modulate the strength of the interaction between the TF and its binding sites, the distance between binding sites and promoters alter the interaction between the TF and the RNA polymerase (RNAP). Results: In this paper we estimated the dissociation constants (K(d)) of several E. coli TFs in their interaction with variants of their binding sequences from the scores resulting from aligning them to Positional Weight Matrices. A correlation coefficient of 0.78 was obtained when pooling together sites for different TFs. The theoretically estimated K(d) values were then used, together with the dissociation constants of the RNAP-promoter interaction to analyze activated and repressed
Filiaciones:
Collado-Vides J.:
Univ Nacl Autonoma Mexico, Programa Genom Computac, Ctr Ciencias Genom, Cuernavaca 62210, Morelos, Mexico
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