Reduced cladograms representing the phylogenetic relationships of folds belonging to individual protein classes. Branches with BS values <50% were collapsed into multifurcations (triangles with areas proportional to the number of folds unified by the polytomy). Trees were retained after heuristic searches with TBR branch swapping and 10 replicates of random addition sequence. Their lengths ranged from 786 steps (CI = 0.814, RI = 0.709; g1 = -2.215; PTP test, P = 0.001) for small proteins to 2375 steps (CI = 0.270, RI = 0.761; g1 = -0.528; PTP, P = 0.001) for the α/β protein class. Cladograms depicting trees with alternative reconstructions were congruent with the 50% majority-rule consensus.
