Figure 1
From: Identification and characterization of PhoP regulon members in Yersinia pestis biovar Microtus
Alignment of PhoP regulatory motifs in Y. pestis. (a) Homologues of the PhoP box, identified from the 19 PhoP binding sites determined by DNase I footprinting, were aligned and the conserved positions were highlighted. 'F' and 'R' in the brackets indicated the coding and noncoding stand, respectively. '1', '2' and '3' represented the numbers of PhoP-binding sites in a specific PhoP-dependent promoter (see Additional file 6 for details). (b) A sequence-Logo representation of the aligned direct repeat of the short consensus sequence (TGTTTAW). (c) Position count matrix describing the sequence logo. In the matrix, each row represents a position and each column a nucleotide. (d) An 18 bp PhoP box sequence (TGTTTAWN4TGTTTAW) of Y. pestis was generated by the sequence logo. The known corresponding ones for E. coli and S. typhimurium were shown as well.