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The EMBO Journal (1998) 17, 4511–4526, doi:10.1093/emboj/17.15.4511 Figure 8 Protein domains and conformational changes in the activation of RepA, a DNA replication initiator Rafael Giraldo, José M. Andreu and Ramón Díaz-Orejas

Figure 8 Hydroxyl-radical footprinting of the complexes formed by RepA–WT (or its fragments) and the single iteron oligonucleotide. (A) Protection experiment performed with the indicated (headers on the gel tracks) RepA proteins (510-6 M) or Distamycin-A (25 M) on the ds-1DR oligonucleotide (510-7 M), labelled at the bottom strand. The DNA sequence (A+G) is shown on the left, with the iteron (arrow) and the DnaA box (open rectangle) indicated. The three sequence patches (I–III) protected by the RepA proteins are drawn to the right of the gel. (B) Densitometric PhosphorImager tracing of the gel tracks shown in (A). The sequence of the enlightened region is written over the plot for the free DNA. Drawing codes for the iteron and the protected sequences are as in (A). The numbers written over the plots for protein (or drug)–DNA complexes reflect the calculated protection fractions for each sequence patch.

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