Studies of IscR reveal a unique mechanism for metal-dependent regulation of DNA binding specificity.
Publication Type:Journal Article
Source:Nat Struct Mol Biol, Volume 20, Issue 6, p.740-7 (2013)
Keywords:Crystallography, X-Ray, DNA, Bacterial, Escherichia coli, Escherichia coli Proteins, Metals, Models, Biological, Models, Molecular, Nucleic Acid Conformation, Protein Binding, Substrate Specificity, Transcription Factors
<p>IscR from Escherichia coli is an unusual metalloregulator in that both apo and iron sulfur (Fe-S)-IscR regulate transcription and exhibit different DNA binding specificities. Here, we report structural and biochemical studies of IscR suggesting that remodeling of the protein-DNA interface upon Fe-S ligation broadens the DNA binding specificity of IscR from binding the type 2 motif only to both type 1 and type 2 motifs. Analysis of an apo-IscR variant with relaxed target-site discrimination identified a key residue in wild-type apo-IscR that, we propose, makes unfavorable interactions with a type 1 motif. Upon Fe-S binding, these interactions are apparently removed, thereby allowing holo-IscR to bind both type 1 and type 2 motifs. These data suggest a unique mechanism of ligand-mediated DNA site recognition, whereby metallocluster ligation relocates a protein-specificity determinant to expand DNA target-site selection, allowing a broader transcriptomic response by holo-IscR.</p>