Local Gene Regulation Details a Recognition Code within the Lacl Transcriptional Factor Family.
In: PLoS Computational Biology, Jg. 6 (2010-11-01), Heft 11, S. 1-10
Online
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Zugriff:
The specific binding of regulatory proteins to DNA sequences exhibits no clear patterns of association between amino acids (AAs) and nucleotides (NTs). This complexity of protein-DNA interactions raises the question of whether a simple set of wide-coverage recognition rules can ever be identified. Here, we analyzed this issue using the extensive LacI family of transcriptional factors (TFs). We searched for recognition patterns by introducing a new approach to phylogenetic footprinting, based on the pervasive presence of local regulation in prokaryotic transcriptional networks. We identified a set of specificity correlations -determined by two AAs of the TFs and two NTs in the binding sites- that is conserved throughout a dominant subgroup within the family regardless of the evolutionary distance, and that act as a relatively consistent recognition code. The proposed rules are confirmed with data of previous experimental studies and by events of convergent evolution in the phylogenetic tree. The presence of a code emphasizes the stable structural context of the LacI family, while defining a precise blueprint to reprogram TF specificity with many practical applications. [ABSTRACT FROM AUTHOR]
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Local Gene Regulation Details a Recognition Code within the Lacl Transcriptional Factor Family.
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Autor/in / Beteiligte Person: | Camas, Francisco M. ; Alm, Eric J. ; Poyatos, Juan F. |
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Zeitschrift: | PLoS Computational Biology, Jg. 6 (2010-11-01), Heft 11, S. 1-10 |
Veröffentlichung: | 2010 |
Medientyp: | academicJournal |
ISSN: | 1553-734X (print) |
DOI: | 10.1371/journal.pcbi.1000989 |
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