Well, this question is probably directed straight to Warren unless
someone's found it in the code or I've missed an obvious button.
Main question:
I wrote out a GRASP potential map and read it in to PyMOL with no
complaints. How do I then go about applying it to a surface (i.e.
coloring the surface with it)? Activating the color ramp gadget you
mentioned?
Subsidiary questions/comments:
I really like the roving feature...very nice! I was getting a lot of
intra-residue dashed lines showing up. I was wondering if there
was a minimum distance threshold for calculation of polar interaction
or a different mechanism for filtering out polar interactions within
a residue itself.
Aah, I think I just figured it, at least why it's happening...I often
create new objects which are duplicates of a given chain and once
these are created, whether displayed or not, the polar interaction
dashes show up presumably being calculated between the original
molecule and the duplicate object underlying it. Perhaps those
interactions could somehow be hidden when one or the other object is
hidden, leaving the "primary" polar interactions only? Meanwhile,
something to look out for when roving detail is on if your Arg's and
others look a little cobwebbed with dashes. Also in flipping roving
on and off sometimes I can't get the polar interaction dashes to come
back even though all other representations (sticks, nb_spheres) seem
to.
Another comment on roving, when roving detail mode is turned off it
didn't restore the chain colorings and features I had displayed
before I went a-rovin'. I guess one might want it to remain in the
roving display and perhaps it's not trivial to have a "restore
pre-roving features without moving the display back to a stored scene
which does come very close to the desired functionality. Excellent!
Anyway, it's awesome. I hope to try building with it sometime soon,
data depending...
Thanks,
Seth
--
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
Seth F. Harris, PhD
Agard Laboratory
University of California, San Francisco
Mission Bay Genentech Hall
600 16th St. Suite S416
San Francisco, CA 94143-2240
415.502.2930
