HI Elaine, I have docked the relevant atomic structure in the computed density map of C6 symmetry. I will now need to generate another 5 copies of the atomic structure to fit in the density envelope. And I was looking for the complete command. Let me know what will be the command. Stay safe & Regards Anindito Sen. Ph.D Microscopy and Imaging Center Texas A&M University 301 Old Main Dr College Station, TX 77843-2257 Office: ILSB Room 1133 <http://microscopy.tamu.edu/>Tel. 979-458-9881 fax: 979-847-8933 http://microscopy.tamu.edu<http://microscopy.tamu.edu/> From: Elaine Meng <meng@cgl.ucsf.edu> Reply-To: "chimera-users@cgl.ucsf.edu List" <chimera-users@cgl.ucsf.edu> Date: Friday, January 21, 2022 at 12:30 PM To: "Sen, Anindito" <andysen@tamu.edu> Cc: "chimera-users@cgl.ucsf.edu List" <chimera-users@cgl.ucsf.edu> Subject: Re: [Chimera-users] Making copies of an atomic structure and fit in the map Hi Anindito. We couldn't say what the "sym" command would be without knowing what information is in the structure file (PDB or mmCIF). If there is not symmetry information in the file then you have to specify it in the command instead, which ZjQcmQRYFpfptBannerStart This Message Is From an External Sender This message came from outside your organization. ZjQcmQRYFpfptBannerEnd Hi Anindito. We couldn't say what the "sym" command would be without knowing what information is in the structure file (PDB or mmCIF). If there is not symmetry information in the file then you have to specify it in the command instead, which can be difficult. However, maybe what you really want is "fitmap" with symmetrical fitting (instead of making copies with "sym" first). In that case your density map must have symmetry information. See "fitmap" help and video: <https://urldefense.com/v3/__https://www.rbvi.ucsf.edu/chimera/docs/UsersGuid... > <https://urldefense.com/v3/__https://www.cgl.ucsf.edu/chimera/videodoc/SymFit... > I hope this helps, Elaine ----- Elaine C. Meng, Ph.D. UCSF Chimera(X) team Department of Pharmaceutical Chemistry University of California, San Francisco
Begin forwarded message:
From: "Sen, Anindito" <andysen@tamu.edu>
Subject: Making copies of an atomic structure and fit in the map
Date: January 20, 2022 at 4:08:11 PM PST
To: Chimera-users <chimera-users-bounces@cgl.ucsf.edu>
Dear All,
What will be the correct complete command (sym) for making copies of an atomic structure and symmetrize them to dock in the relevant density map.
Stay safe & Regards
Anindito Sen. Ph.D
Microscopy and Imaging Center
Texas A&M University
301 Old Main Dr
College Station, TX 77843-2257
Office: ILSB Room 1133
Tel. 979-458-9881
fax: 979-847-8933