Dear ChimeraX users! I am working on the protein-ligand binding visualizations using surface representation for the protein. In this case (please see enclosed example) I used mlp palette moccasin:sienna:sandybrown range -55,55 to make this expression of the protein in the Mountain style :-) Two questions: 1) how can I introduce more "dark" gradients into the cavities (similar to the vulcan) ? 2) is it possible to switch the coloring pattern from such a "realistic" view to the animated "cartoon" style ? 3) Any additional advice for the surface visualisations ? Many thanks in advance! Enrico
On Jan 25, 2022, at 7:13 AM, Enrico Martinez via ChimeraX-users <chimerax-users@cgl.ucsf.edu> wrote:
Dear ChimeraX users! I am working on the protein-ligand binding visualizations using surface representation for the protein. In this case (please see enclosed example) I used mlp palette moccasin:sienna:sandybrown range -55,55 to make this expression of the protein in the Mountain style :-) Two questions: 1) how can I introduce more "dark" gradients into the cavities (similar to the vulcan) ?
I don't know what lighting you're using. Could try different lighting, e.g. lighting soft lighting gentle lighting full If you're already using full lighting, then you can try adjusting the depth-cueing parameters and/or the direction(s) of the light. These are all options in the lighting command, see <https://rbvi.ucsf.edu/chimerax/docs/user/commands/lighting.html>
2) is it possible to switch the coloring pattern from such a "realistic" view to the animated "cartoon" style ?
I have no idea what you mean. Coloring is a different thing than the style. Of course, you can change both coloring and style but I don't understand what you want. Sorry, Elaine
3) Any additional advice for the surface visualisations ? Many thanks in advance! Enrico <surface_rep_chimerax.png>
Many thanks Elaine! Indeed, these options for lighting appear to be very useful! Cheers, Enrico вт, 25 янв. 2022 г. в 18:17, Elaine Meng <meng@cgl.ucsf.edu>:
On Jan 25, 2022, at 7:13 AM, Enrico Martinez via ChimeraX-users <chimerax-users@cgl.ucsf.edu> wrote:
Dear ChimeraX users! I am working on the protein-ligand binding visualizations using surface representation for the protein. In this case (please see enclosed example) I used mlp palette moccasin:sienna:sandybrown range -55,55 to make this expression of the protein in the Mountain style :-) Two questions: 1) how can I introduce more "dark" gradients into the cavities (similar to the vulcan) ?
I don't know what lighting you're using. Could try different lighting, e.g.
lighting soft lighting gentle lighting full
If you're already using full lighting, then you can try adjusting the depth-cueing parameters and/or the direction(s) of the light. These are all options in the lighting command, see <https://rbvi.ucsf.edu/chimerax/docs/user/commands/lighting.html>
2) is it possible to switch the coloring pattern from such a "realistic" view to the animated "cartoon" style ?
I have no idea what you mean. Coloring is a different thing than the style. Of course, you can change both coloring and style but I don't understand what you want. Sorry, Elaine
3) Any additional advice for the surface visualisations ? Many thanks in advance! Enrico <surface_rep_chimerax.png>
participants (2)
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Elaine Meng -
Enrico Martinez