Figure 4. Multiple sequence alignment of selected portions of the RflaF_05439 NlpC/P60 repeats from R. flavefaciens strain FD-1 with those of the homologous protein in strain 17 and selected members of the NlpC/P60 superfamily.

Multiple sequence alignments were constructed using ClustalW. The numbers within the alignment represent corresponding stretches of non-conserved residues that are not shown. Highly conserved residues in the NlpC/P60 superfamily are highlighted as follows: red – catalytic (including Tyr which is responsible for oxyanion hole formation), gray - hydrophobic, green - small, cyan - polar. Symbols: asterisks - full conservation; colons - strongly similar; periods - weakly similar. The sequences are denoted by their gene name preceded by the species abbreviation: Rf, R. flavefaciens; Bs, Bacillus subtilis; Ec, Escherichia coli. AvPCP represents endopeptidase from Anabaena variabilis denoted by its PDB code (2HBW). Secondary structural elements (enumerated β strands and α helixes) are indicated.