Hello, I am a Masters student in India currently using chimera for my thesis. I am facing a problem. I have attached a state file of my docked complex. There some residues 251, 245, 243 formed H bonds with the ligand through the O atom. I am not able to display the residue clearly. O atom is looking like a dot. I want to show the residue clearly making bonds with the ligand without hiding the ribbon like the residue 247. Those residues are clearly visible only if I hide ribbons for that residue. Kindly help me to show the residue properly without hiding their ribbon. Regards Nirban
Hello Nirban, By default, showing ribbon prevents showing backbone atoms. To allow showing backbone atoms at the same time as the ribbon, just use command "ribbackbone". <https://www.rbvi.ucsf.edu/chimera/docs/UsersGuide/midas/ribbackbone.html> You can still show/hide the atoms as you wish (display and ~display), so you can display only the backbone atoms you want and hide the others. I hope this helps, Elaine ----- Elaine C. Meng, Ph.D. UCSF Chimera(X) team Department of Pharmaceutical Chemistry University of California, San Francisco
On May 28, 2021, at 10:41 AM, Nirban Dey <nirbandey95@gmail.com> wrote:
Hello, I am a Masters student in India currently using chimera for my thesis. I am facing a problem. I have attached a state file of my docked complex. There some residues 251, 245, 243 formed H bonds with the ligand through the O atom. I am not able to display the residue clearly. O atom is looking like a dot. I want to show the residue clearly making bonds with the ligand without hiding the ribbon like the residue 247. Those residues are clearly visible only if I hide ribbons for that residue. Kindly help me to show the residue properly without hiding their ribbon. Regards Nirban <final.pyc>
Dear Elaine, Thanks a lot. It worked. Regards Nirban On Fri, 28 May 2021 at 23:45, Elaine Meng <meng@cgl.ucsf.edu> wrote:
Hello Nirban, By default, showing ribbon prevents showing backbone atoms.
To allow showing backbone atoms at the same time as the ribbon, just use command "ribbackbone". <https://www.rbvi.ucsf.edu/chimera/docs/UsersGuide/midas/ribbackbone.html>
You can still show/hide the atoms as you wish (display and ~display), so you can display only the backbone atoms you want and hide the others.
I hope this helps, Elaine ----- Elaine C. Meng, Ph.D. UCSF Chimera(X) team Department of Pharmaceutical Chemistry University of California, San Francisco
On May 28, 2021, at 10:41 AM, Nirban Dey <nirbandey95@gmail.com> wrote:
Hello, I am a Masters student in India currently using chimera for my thesis. I am facing a problem. I have attached a state file of my docked complex. There some residues 251, 245, 243 formed H bonds with the ligand through the O atom. I am not able to display the residue clearly. O atom is looking like a dot. I want to show the residue clearly making bonds with the ligand without hiding the ribbon like the residue 247. Those residues are clearly visible only if I hide ribbons for that residue. Kindly help me to show the residue properly without hiding their ribbon. Regards Nirban <final.pyc>
participants (2)
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Elaine Meng -
Nirban Dey