Hey Satinder,
transparency can only be set for objects, not for selections. Thus, you
have to create different objects corresponding to your helices. Like so:
create helix1, i. 23:30 # wherever your first helix is
create helix2and3, i. 40:45 or i. 70:83 # the other two helices
show cartoon, helix1 or helix2and3
set cartoon_transparency, 0.5, helix2and3
set cartoon_transparency, 0, helix1
Since no transparency is the default, you might not have to bother with
helix1 at all.
Hope that helps.
Andreas
Satinder Singh wrote:
Hello,
I am showing three helices in my figure, and I would like to make 2 of them
semi-transparent while leaving the third one opaque. I haven't been able to
figure out how to do that. Could someone tell me if this is even possible in
PyMol and, if so, what the command(s) are. Thanks.
Satinder
