[Chimera-users] Visualising AutoLigand affinity points

George Tzotzos gtzotzos at me.com
Thu Feb 9 11:25:21 PST 2012

Hi Elaine,

The command ~bond does the trick. I get what I want. Many thanks as always


On Feb 9, 2012, at 6:23 PM, Elaine Meng wrote:

> Hi George,
> A picture alone isn't that useful.  Would need the actual file to be sure, but you might try using command "~bond" to remove all bonds, and then showing as "ball" (actually ball & stick but without bonds there will just be balls).  Or if those are not the right size either: when showing either balls or spheres, you can adjust size to any value using the "vdwdefine" command.
> <http://www.cgl.ucsf.edu/chimera/docs/UsersGuide/midas/vdwdefine.html>
> Best,
> Elaine
> -----
> Elaine C. Meng, Ph.D.                       
> UCSF Computer Graphics Lab (Chimera team) and Babbitt Lab
> Department of Pharmaceutical Chemistry
> University of California, San Francisco
> On Feb 9, 2012, at 6:05 AM, George Tzotzos wrote:
>> Hi,
>> I'm attaching a jpg image of ligand affinity map fill points generated by AutoLigand. My question is whether there's a way to depict these fill points as "disconnected" spheres.
>> Actions/spheres generates something like I'd like to see but the size of the spheres is too large.
>> Regards
>> George

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