Deciphering the protein-DNA code of bacterial winged helix-turn-helix transcription factors.

ABSTRACT:

Background

Sequence-specific binding by transcription factors (TFs) plays a significant role in the selection and regulation of target genes. At the protein:DNA interface, amino acid side-chains construct a diverse physicochemical network of specific and non-specific interactions, and seemingly subtle changes in amino acid identity at certain positions may dramatically impact TF:DNA binding. Variation of these specificity-determining residues (SDRs) is a major mechanism of functional divergence between TFs with strong structural or sequence homology.

Methods

In this study, we employed a combination of high-throughput specificity profiling by SELEX and Spec-seq, structural modeling, and evolutionary analysis to probe the binding preferences of winged helix-turn-helix TFs belo

SUBMITTER: Joyce AP 

PROVIDER: S-EPMC10662834 | biostudies-literature | 2018 Mar

REPOSITORIES: biostudies-literature