Evolutionary Analysis of DDAH Proteins

For bioinformatic analyses of DDAH proteins, DDAH sequences were searched for and analyzed using the UniPort database. RESC5 homologs were searched for using NCBI protein Blast. RESC5 homologs were only found in kinetoplastids. Hence a FASTA file containing 22 RESC5 were downloaded from a variety of kinetoplasidae. No DDAH homologs were identified in the eukaryotic phyla Annelida, Chidaria, Echinodermata, Mollusca, Porifera, Ctenophora, Rotifera and Nematodes. FASTA files from chordates, eubacteria, and arthropods were combined, then this combined FASTA file and the FASTA file for kinetoplastidae were fed into Clustal Omega to perform sequence alignments. Alignment files were obtained from Clustal Omega then aligned sequences were analyzed in Jalview 2.112.4. Jalview was used to calculate evolutionary distances between the aligned sequences using Neighbor Joining and BLOSUM62. This tree was saved as a Newick file then fed into PhyloT to generate a phylogenetic tree. iTol was used to visualize and annotate the phylogenetic tree [48 (link)].