3zq7

The Structure of DNA-binding domain of response regulator from Escherichia coli K-12

spinqualitylabelsall models 3zq7, resolution 2.52Å Show:Asymmetric Unit Biological Assembly Drag the structure with the mouse to rotate   Export Animated Image   Print3D Structural highlights 3zq7 is a 1 chain structure with sequence from Escherichia coli K-12. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance. Method: X-ray diffraction, Resolution 2.52Å Resources: FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT Function KDPE_ECOLI Member of the two-component regulatory system KdpD/KdpE involved in the regulation of the kdp operon. Publication Abstract from PubMed Expression of KdpFABC, a K(+) pump that restores osmotic balance, is controlled by binding of the response regulator KdpE to a specific DNA sequence (kdpFABC(BS)) via the winged helix-turn-helix type DNA binding domain (KdpE(DBD)). Exploration of E. coli KdpE(DBD) and kdpFABC(BS) interaction resulted in the identification of two conserved, AT-rich 6 bp direct repeats that form half-sites. Despite binding to these half-sites, KdpE(DBD) was incapable of promoting gene expression in vivo. Structure-function studies guided by our 2.5 A X-ray structure of KdpE(DBD) revealed the importance of residues R193 and R200 in the alpha-8 DNA recognition helix and T215 in the wing region for DNA binding. Mutation of these residues renders KdpE incapable of inducing expression of the kdpFABC operon. Detailed biophysical analysis of interactions using analytical ultracentrifugation revealed a 2ratio1 stoichiometry of protein to DNA with dissociation constants of 200+/-100 and 350+/-100 nM at half-sites. Inactivation of one half-site does not influence binding at the other, indicating that KdpE(DBD) binds independently to the half-sites with approximately equal affinity and no discernable cooperativity. To our knowledge, these data are the first to describe in quantitative terms the binding at half-sites under equilibrium conditions for a member of the ubiquitous OmpR/PhoB family of proteins. Structure-function studies of DNA binding domain of response regulator KdpE reveals equal affinity interactions at DNA half-sites.,Narayanan A, Paul LN, Tomar S, Patil DN, Kumar P, Yernool DA PLoS One. 2012;7(1):e30102. Epub 2012 Jan 23. PMID:22291906 From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.

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