I’ve attached a Python script that if you run it (simply by opening it) will show worms with a radius of 0.05 for residues with no “mavConservation” attribute and half the conservation plus one for residues with such an attribute.  It should be pretty easy to modify for your needs.  Keep in mind that if you are using AL2CO conservation measures, the conservation value could be negative.

—Eric

Eric Pettersen
UCSF Computer Graphics Lab