Figure 5

3D structure of the hexameric model. A) 3D hexamer structure binds to a 44 bp DNA and builds with a spacing of 3 bp between each dimers. B) Schematic representation of the DNA intergenic region between sll1621 and slr1738 genes protected by Slr1738 hexamer binding. The transcription start site, containing the promoter sequence and both -10 and -35 boxes, are reported for each gene. Dotted lines mark the boundaries of DNA fragment in the model. Black bold frame indicates the 27 bp region protected by the Slr1738 hexamer in the case of a 0-3-6 model, grey bold frame indicates the 33 bp region protected in the case 0-6-12. Green lines represent the approximate DNA recovering region by sigma factor protein that is necessary for RNA polymerase recruitment.