Figure 2

Identification of three 2TMS homologous repeat sequences in the 6TMS CDF antiporters. (A) Alignment of CDF TMSs 1-2 of Aod (Actinomyces odontolyticus, gi# 154507747) with CDF TMSs 3-4 of Ssa (Staphylococcus saprophyticus, gi# 73662044). (B) Alignment of CDF TMSs 3-4 of Ilo (Idiomarina loihiensis, gi# 56460742) with CDF TMSs 5-6 of Bsp (Bacillus sp. B14905, gi# 126652939). The IC program was used to identify internal segments exhibiting the greatest statistical similarity [29]. The GAP program [32] was used to generate the alignment with default settings and 500 random shuffles). Numbers at the beginning and end of each line indicate residue numbers in the proteins. |, identity; :, close similarity; ., more distant similarity as defined by the GAP program. This convention of presentation is also used in Figures 3 and 4. In all three figures, positions of the TMSs were predicated using the TMHMM program.