Did you know...
This script reads an alignment object and colors the protein objects in the alignment by the sequence conservation found in the alignment.
# get some kinases
fetch 1opk 3dtc 3p86 2eva 3efw, async=0
# turn on the sequence viewer
# align them into the "algn" object
for x in cmd.get_names(): cmd.align(x, "3efw and c. A", object="algn")
color_by_conservation aln=algn, as_putty=1
A Random PyMOL-generated Cover. See Covers