Origin and Evolution of Protein Fold Designs Inferred from Phylogenomic Analysis of CATH Domain Structures in Proteomes
Figure 4
Phylogenomic trees of CATH T (A) and H (B) domain structures.
Optimal (P<0.01) most-parsimonious T (392,769 steps; CI = 0.0251, RI = 0.7488; g1 = −0.169) and H (658,425 steps; CI = 0.0149, RI = 0.7444; g1 = −0.144) trees were reconstructed from a protein domain census in 492 completely sequenced genomes. The phylogenies reconstructed from a genomic census of 1,152 Ts and 2,221 Hs in 492 proteomes, where all 492 characters were parsimoniously informative. Terminal leaves are not labeled because they would not be legible. The Venn diagram shows the diversity of Ts and Hs in the three superkingdoms, Archaea, Bacteria and Eukarya.