Hi Anindito, It might make more sense just to rerun H-bonds and specify calculating only the ones you think are important, i.e. by restricting the sets of atoms to include in the calculation. But I guess it depends on what you mean by "important." Of course, you can hide specific H-bond pseudobonds but it may be tedious it there are lots of them. Possible ways: (1) Ctrl-click to select the pseudobond, use command "hide sel" (2) use command "hide" with direct specification of the endpoint atoms, e.g. "hide /A:9@O /A:41@N pseudobonds" <https://rbvi.ucsf.edu/chimerax/docs/user/commands/show.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 Nov 26, 2024, at 2:18 PM, Sen, Anindito via ChimeraX-users <chimerax-users@cgl.ucsf.edu> wrote:

Dear ChimeraX group,

How do I remove certain 'H' bonds from an atomic model, leaving the important 'H' bonds

Regards

Stay safe & Regards

Anindito Sen. Ph.D