I don't know what you mean by "segments". You can hide any atoms that you want, as described in the previous message, which will also hide their bonds. You can also hide ribbon segments, e.g. hide /A:35 ribbons If you mean those cones drawn between atoms and ribbon, they are "tethers" which you can hide by (a) hiding the atoms, or (b) making the tethers transparent, e.g. for residue :35 in chain /A: cartoon tether /A:35 opacity 0 See "cartoon tether" help: <https://rbvi.ucsf.edu/chimerax/docs/user/commands/cartoon.html#tether <mhttps://rbvi.ucsf.edu/chimerax/docs/user/commands/cartoon.html#tether>> I hope this helps, Elaine
On Aug 28, 2024, at 8:38 AM, Alessio Nocentini via ChimeraX-users <chimerax-users@cgl.ucsf.edu> wrote:
Perfect. What about the segments circled red? I cannot click on them to unshow.
Thanks
A
Il giorno mer 28 ago 2024 alle ore 17:30 Elaine Meng <meng@cgl.ucsf.edu> ha scritto: Hi Alessio, You can hide any atoms that you want. Those backbone atoms are shown because you showed the atoms of the whole residue, and "cartoon suppress false" means to allow showing backbone atoms at the same time as cartoon. You can either just hide those atoms, or if you don't want to see any backbone atoms at the same time as ribbon, do not use "suppress false" with "cartoon". There is no reason to use that option unless you want to show some backbone atoms at the same time as cartoon.
Even with "suppress false", however, you can just hide any/all of the atoms. If you showed the whole residue :35 in chain A, for example, that will include backbone atoms N and C and O. You can hide them with command:
hide /A:35@N,C,O
Or, if you don't want to figure out the residue numbers, you can Ctrl-click on the atoms to select them (selecting shows green outline) and use menu Actions... Atoms/Bonds... Hide. <https://rbvi.ucsf.edu/chimerax/docs/user/selection.html> <https://rbvi.ucsf.edu/chimerax/docs/user/menu.html#actions>
See explanation of the cartoon "suppress" option (suppressBackboneDisplay): <https://rbvi.ucsf.edu/chimerax/docs/user/commands/cartoon.html>
I hope this helps, Elaine ----- Elaine C. Meng, Ph.D. UCSF Chimera(X) team Resource for Biocomputing, Visualization, and Informatics Department of Pharmaceutical Chemistry University of California, San Francisco
On Aug 28, 2024, at 12:22 AM, Alessio Nocentini via ChimeraX-users <chimerax-users@cgl.ucsf.edu> wrote:
Thanks a lot Elaine.
I propose you an example. Here is the figure. When typing "cartoon suppress false" I got these segments in red: how can I unshow them? How can I show the backbone for some residues only? In fact, I do not want to show backbones of residues such as those in green.
Thank you again
Best
Alessio
<Example.jpg>
-- Dr. Alessio Nocentini Ricercatore Legge 240/10 a tempo determinato - Tipo B UNIVERSITÀ DEGLI STUDI DI FIRENZE Dipartimento di Neuroscienze, Psicologia, Area del Farmaco e Salute del Bambino (NEUROFARBA) ECCELLENZA 2023-2027 Via Ugo Schiff 6, 50019 - Sesto Fiorentino (Firenze), Italy Phone: +39-055-4573685 _______________________________________________ ChimeraX-users mailing list -- chimerax-users@cgl.ucsf.edu To unsubscribe send an email to chimerax-users-leave@cgl.ucsf.edu Archives: https://mail.cgl.ucsf.edu/mailman/archives/list/chimerax-users@cgl.ucsf.edu/