FIG 3.

DNA palindromes are crucial to DNA binding. (A) DNase I footprinting assay of SavR with the mutated short palindrome. (B) DNase I footprinting assay of SavRS with the mutated long palindrome. (C) DNase I footprinting assay of SavRS with the mutated short palindrome. (D) DNase I footprinting assay of SavRS with the mutated long and short palindromes. The signal peaks were detected by short tandem repeat sequencing. The red boxes denote the regions protected from DNase I digestion by SavR (A) and SavRS (B, C, and D) compared with the sequencing results without protein. The relative dispositions of sequences are illustrated in the lower panel. The locations of the long and short palindromes are marked by inverted arrows. The substitution mutation sites are marked by stars.