Hi Jeff,
The sphere size is controlled by the vdw property, to change it:
alter *, vdw=1.0 # this will set the sphere size to be equal for all atom i.e.
hydrogens atom would be same size as carbon
you also need to use the "rebuild" command to implement the changes
At this point, you can control the sphere sizes consistently using:
set sphere_scale, 1.5 # or what ever size you need
Cheers,
Ali
Ali Kusay | BPharm (Hons) | PhD Candidate & Pharmacist
The University of Sydney School of Pharmacy | Faculty of Medicine and Health
424, Brain and Mind Centre | The University of Sydney | NSW 2050
On 26/2/21, 2:15 am, "Jeff Saxon" <jmsstarli...@gmail.com> wrote:
Dear Pymol Users,
Working on the visualisation of protein-ligand interactions, notably
focusing on the visualisation of sphres atoms covered protein surface,
I noticed on the resulted PNG that some sphere objects (located on the
backing plane) looks VERY small compared to the rest. For example as
it could be seen while major spheres represent like spheres, some of
them look like dots, while in the pml session everything looks
correctly. How could I fix using some pymol settings ?
Thank you in advance!
J
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