Fig. 4

Protein similarity networks. Source data are provided as a Source Data file. a DpdA/Tgt protein network, each node is a group of proteins identical at 90%, and each edge presents an alignment score >15. The TGTs of archaea, bacteria, and eukaryotes are shown in dark green, green, and light green, respectively. Bacterial DpdA are shown in light red. The phage DpdA are separated depending on the gene content of phages: in red, DpdA in genomes encoding the G⁺ pathway; in orange, the preQ₀ pathway; in yellow, the genomes with only dpdA; in dark blue, DpdA2 with G⁺ pathway; and in light blue, DpdA2 with a preQ₀ pathway. The arrow shows clusters of nodes specific to a clade of a bacterial host (1 is Mycobacterium and 2 is γ-Proteobacteria). b QueC protein network, with a threshold alignment score of 44. In light red, the QueC from bacteria; in dark red, the QueC from phages that encode a DpdA; in orange, the QueC from phages that are not encoding a DpdA; and in yellow, the QueC from phage encoding only a QueC. Gat-QueC from archaea is in dark blue and from phages is in light blue. c QueF protein network with an alignment score threshold of 10. In light red, the bacterial QueF; and in dark red, the protein identified as phage QueF. In light blue, the archaeal QueF-L; and in dark blue, the phage protein identified as QueF-L.