Figure 5. Domain architectures and analysis.

(A) Architectural networks of TRADD-N domains proteins from various metazoan lineages. Nodes represent domains and edges connecting them indicate their adjacency in the same polypeptide with the arrowhead pointing to the C-terminal domain . The thickness of the edge represents the frequency of co-occurrence of the connected nodes in different architectural contexts. (B) EAD-EAD search-retrieval network. The network was derived by using the results of various profile-profile (HHpred) searches using the individual nodes (EADs or Death-like domains) as queries. An edge was drawn between two nodes if they were recovered with p-values<0.0001 with the arrowhead pointing to the node recovered in the search. The edge thickness is scaled using the -log₁₀(p-value). The network shows that several EADs recover each other and also Death-like domains in searches. (C) Chi-squared statistics of the positional bias of the specified domains in their domain architectures. The left three columns show the frequency of domain in the said positions in unique architectures, and the rightmost column gives the probability of this occurring by chance. . (D) Boxplot comparing position-specific entropy of sequences from MSAs of various TRADD-N clades. The t-test was used to determine the significance of the difference in mean entropy between the clades under comparison (indicated by the red line above the clades). (E) Histogram of the distribution of polydomain scores (PDS) of TRADD-N proteins. Outliers with high PDS, mostly marine organisms, are marked in red. Organism abbreviations are as follows: Sacc. kow.: Saccoglossus kowalevskii; Exai. pal.: Exaiptasia pallida; Ling. ana.: Lingula anatina; Crass. gig.: Crassostrea gigas; Crass. vir.: Crassostrea virginica; Orbi. fav.: Orbicella faveolata; Acro. dig.: Acropora digitifera; Bran. bel.: Branchiostoma belcheri; Styl. pis.: Stylophora pistillata; Bran. flo.: Branchiostoma floridae; Amph. que.: Amphimedon queenslandica.