problem in showing disulfide bonds
Hi, I am unable to show disulfide bonds in my final structure. It has at least five disulfide bonds. Please tell me how can I do that???and how can I save the image as a post script file....I tried it by save as .ps file but then the save file was not there in the designated folder though other formats (eg jpeg) were easily saved....
Hi Pardeep, Chimera does not automatically create bonds -- it shows whatever bonds are in the input , such as described in CONECT or SSBOND lines in the PDB file. However, you can add bonds that are not in your input file already using the command "bond" or the "Adjust Bonds" tab in the Build Structure tool (under Tools... Structure Editing in the menu): <http://www.cgl.ucsf.edu/chimera/docs/UsersGuide/midas/bond.html> <http://www.cgl.ucsf.edu/chimera/docs/ContributedSoftware/editing/editing.html> I just tried saving an image as a PS file and did not have any problems. Maybe the application you are using to show images does not show PS and does not list that format in its open dialog? That is my only idea. However, if you continue to have problems you could use "Help... Report a Bug" in the Chimera window and include all information needed to reproduce the problem, and your email if you wish a response. Best, Elaine ---------- Elaine C. Meng, Ph.D. UCSF Computer Graphics Lab (Chimera team) and Babbitt Lab Department of Pharmaceutical Chemistry University of California, San Francisco On Dec 2, 2010, at 6:43 PM, Pardeep kumar wrote:
Hi, I am unable to show disulfide bonds in my final structure. It has at least five disulfide bonds. Please tell me how can I do that???and how can I save the image as a post script file....I tried it by save as .ps file but then the save file was not there in the designated folder though other formats (eg jpeg) were easily saved....
Thanks a lot for the advice....it worked ________________________________________ From: Elaine Meng [meng@cgl.ucsf.edu] Sent: Monday, December 06, 2010 4:00 PM To: Pardeep kumar; Mahlawat, Pardeep Cc: chimera-users@cgl.ucsf.edu Subject: Re: [Chimera-users] problem in showing disulfide bonds Hi Pardeep, Chimera does not automatically create bonds -- it shows whatever bonds are in the input , such as described in CONECT or SSBOND lines in the PDB file. However, you can add bonds that are not in your input file already using the command "bond" or the "Adjust Bonds" tab in the Build Structure tool (under Tools... Structure Editing in the menu): <http://www.cgl.ucsf.edu/chimera/docs/UsersGuide/midas/bond.html> <http://www.cgl.ucsf.edu/chimera/docs/ContributedSoftware/editing/editing.html> I just tried saving an image as a PS file and did not have any problems. Maybe the application you are using to show images does not show PS and does not list that format in its open dialog? That is my only idea. However, if you continue to have problems you could use "Help... Report a Bug" in the Chimera window and include all information needed to reproduce the problem, and your email if you wish a response. Best, Elaine ---------- Elaine C. Meng, Ph.D. UCSF Computer Graphics Lab (Chimera team) and Babbitt Lab Department of Pharmaceutical Chemistry University of California, San Francisco On Dec 2, 2010, at 6:43 PM, Pardeep kumar wrote: Hi, I am unable to show disulfide bonds in my final structure. It has at least five disulfide bonds. Please tell me how can I do that???and how can I save the image as a post script file....I tried it by save as .ps file but then the save file was not there in the designated folder though other formats (eg jpeg) were easily saved....
participants (3)
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Elaine Meng -
Mahlawat, Pardeep -
Pardeep kumar