I built trees (for 4 organisms: mouse, human, drosophila and C-elegans) for different enzymes family, compared them to the conventional tree, and try to explain them.
how would you explain these result:
for the Oxidoreductases family - most of the tree are quite similar to the conventional tree.
for the Transferases family - in many trees the human is very close to the mouse
for the Hydrolases family - in many trees drosophila split from the others (instead of C-elegans), and in some the human split from the others.