Abstract
In PNAS, Afek et al. (1) show that the specific (or “consensus”) base-pair sequences of a regulatory DNA target are not solely responsible for controlling the binding affinities of several eukaryotic transcription factors (TFs) for their DNA target sites. Rather, so-called “nonconsensus” sequences that flank the specific target, particularly flanking sequences that contain certain base-pair repeat symmetries, also seem to play a major role in regulating binding preferences and these effects significantly modulate the measured binding affinities of the TFs tested. Such symmetries also appear to alter the nonspecific binding of TFs to duplex DNA in the absence of specific binding sequences. Why is this important?
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