2D Representation of the Distance Matrix Computed from the Variable and Conserved Domains in a Group of Similar HKs

<p>The upper triangle shows the variable domains, the lower one the conserved domains. Amino acid sequence distances are calculated by the PROTDIST program using the Dayhoff PAM matrix. The sequence from each species is the best match (<i>E</i>-value < 1<i>E</i>-10) in that genome to the query E. coli gene. Abbreviations for organisms: Ec, Escherichia coli K12; Ps, Pseudomonas syringae pv. syringae B728a; Rm, Ralstonia metallidurans; Rs, Ralstonia solanacearum; Li, Listeria innocua; Tm, Thermotoga maritime; Ml, Mycobacterium leprae; Mt, Mycobacterium tuberculosis CDC1551; No, <i>Nostoc</i> sp. PCC 7120; Ef, Enterococcus faecalis; Bs, Bacillus subtilis; Ne, Nitrosomonas europaea; Sy, <i>Synechococcus</i> sp. PCC 7942; At, Agrobacterium tumefaciens. The PROTDIST program is included in the PHYLIP software package version 3.5 (<a href="http://www.plosbiology.org/article/info:doi/10.1371/journal.pbio.0020081#pbio-0020081-Felsenstein1" target="_blank">Felsenstein 1989</a>).