Hello, I hope you are doing well. Is there a command on chimera that will allow me to select for the atoms in aromatic rings? I found a workaround by defining the atoms involved in the aromatic rings and then making my selection. However, I would like to use a command (or perhaps combination of commands) from chimera to select the aromatic atoms. Regards, Shubham Sent from Mail<https://go.microsoft.com/fwlink/?LinkId=550986> for Windows
Hello, You can just use command: select aromatic ring ...same as using menu: Select... Chemistry... functional group... aromatic ring All of the terminal entries in the Select... Chemistry menu can be used as command-line specifiers, as discussed here: <https://www.rbvi.ucsf.edu/chimera/docs/UsersGuide/midas/atom_spec.html#builtin> I hope this helps, Elaine ----- Elaine C. Meng, Ph.D. UCSF Chimera(X) team Department of Pharmaceutical Chemistry University of California, San Francisco
On Apr 18, 2022, at 1:35 PM, Shubham Devesh Ramgoolam via Chimera-users <chimera-users@cgl.ucsf.edu> wrote:
Hello, I hope you are doing well. Is there a command on chimera that will allow me to select for the atoms in aromatic rings? I found a workaround by defining the atoms involved in the aromatic rings and then making my selection. However, I would like to use a command (or perhaps combination of commands) from chimera to select the aromatic atoms. Regards, Shubham
Thanks a lot Elaine! Shubham. Sent from Mail<https://go.microsoft.com/fwlink/?LinkId=550986> for Windows From: Elaine Meng<mailto:meng@cgl.ucsf.edu> Sent: Monday, April 18, 2022 16:55 To: Shubham Devesh Ramgoolam<mailto:sdramgoolam@uwaterloo.ca> Cc: chimera-users@cgl.ucsf.edu<mailto:chimera-users@cgl.ucsf.edu> Subject: Re: [Chimera-users] Command for selecting aromatic ring Hello, You can just use command: select aromatic ring ...same as using menu: Select... Chemistry... functional group... aromatic ring All of the terminal entries in the Select... Chemistry menu can be used as command-line specifiers, as discussed here: <https://www.rbvi.ucsf.edu/chimera/docs/UsersGuide/midas/atom_spec.html#builtin> I hope this helps, Elaine ----- Elaine C. Meng, Ph.D. UCSF Chimera(X) team Department of Pharmaceutical Chemistry University of California, San Francisco
On Apr 18, 2022, at 1:35 PM, Shubham Devesh Ramgoolam via Chimera-users <chimera-users@cgl.ucsf.edu> wrote:
Hello, I hope you are doing well. Is there a command on chimera that will allow me to select for the atoms in aromatic rings? I found a workaround by defining the atoms involved in the aromatic rings and then making my selection. However, I would like to use a command (or perhaps combination of commands) from chimera to select the aromatic atoms. Regards, Shubham
participants (2)
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Elaine Meng -
Shubham Devesh Ramgoolam