Figure 8
Gene regulation by VvPecS. A. Predicted curvature of iSM DNA calculated based on the dinucleotide wedge model using https://www.lfd.uci.edu/~gohlke/dnacurve/. The distance between centers of palindromes predicts binding of VvPecS (magenta) to opposite faces of the duplex. Palindromic binding sites for PecS in magenta. Translational starts identified in blue and with an open arrow. B. Predicted global conformation of iNR DNA with VvPecS site in magenta and predicted NsrR sites in orange; the PecS and NsrR sites overlap by 4 bp. A site that resembles the E. coli NsrR consensus binding site (AANATGCATTT) overlaps the predicted V. vulnificus NsrR site in the nod promoter29.
