FIG. 1.

(A) Clustal W amino acid alignments of σ²⁸ homologs. The GenInfo Identifier numbers of the σ²⁸s used in the alignments are as follows: Yersinia pestis KIM (gi22126347), Salmonella enterica serovar Typhimurium LT2 (gi16765294), Yersinia enterocolitica (gi1706832), Proteus mirabilis (gi6959882), Escherichia coli K-12 (gi33347603), Ralstonia solanacearum (gi17549609), Pseudomonas syringae (gi28869183), Bordetella pertussis (gi33571813), Vibrio cholerae (gi15642066), Aquifex aeolicus (gi15606452), Bacillus subtilis (gi1350863), Chlamydia trachomatis (gi15604780), and Helicobacter pylori (gi15645646). Conserved amino acid regions as described by Lonetto et al. (24) are marked in black at the top of the alignments. The σ²⁸ domains from previous structural studies by Sorenson et al. (41) are noted below. (B) Clustal W amino acid alignments of FlgM homologs. The GenInfo Identifier numbers of the FlgM used in the alignments are as follows: Yersinia enterocolitica (gi6166171), Escherichia coli K-12 (gi1651526), Yersinia pestis KIM (gi22126396), Salmonella enterica serovar Typhimurium LT2 (gi16764528), Proteus mirabilis (gi1857441), Bordetella pertussis (gi33572120), Bacillus subtilis (gi729520), Vibrio cholerae (gi15642203), Pseudomonas syringae (gi28869129), Ralstonia solanacearum (gi17548561), Helicobacter pylori (gi18075990), and Aquifex aeolicus (gi15605866). The σ²⁸ binding domain in S. enterica serovar Typhimurium FlgM is highlighted at the bottom of the alignments. The shading scheme for amino acid homologies was determined using Blosum62 (7).