Dear Elaine, thanx! I understand (more or less)... But what if the region I consider includes parts of more symmetry-related subunits? Do I have to make a pdb file including all atoms of the virus then make my selection and save the pdb with the coordinates contributed by adjacent subunits? If so, what would be the best and easiest way of doing so? best, Dieter ------------------------------------------------------------------------ Dieter Blaas, Max Perutz Laboratories Medical University of Vienna, Inst. Med. Biochem., Vienna Biocenter (VBC), Dr. Bohr Gasse 9/3, A-1030 Vienna, Austria, Tel: 0043 1 4277 61630, Mobile: 0043 699 1942 1659 e-mail: dieter.blaas@meduniwien.ac.at ------------------------------------------------------------------------ On 27.11.2023 18:37, Elaine Meng wrote:
Hi Dieter, The message says literally what you need to include in the name. You can't just give a single name because you are writing out multiple files. For example, if you give a name that includes "$number":
blahblah$number
you would get filenames that include the model number, something like:
blahblah0.1.pdb blahblah0.2.pdb
...and so on.
I hope this helps, Elaine ----- Elaine C. Meng, Ph.D. UCSF Chimera(X) team Department of Pharmaceutical Chemistry University of California, San Francisco
On Nov 27, 2023, at 9:26 AM, Dieter Blaas via Chimera-users <chimera-users@cgl.ucsf.edu> wrote:
Hi,
I selected several residues in an icosahedral viral capsid and want to save the corresponding pdb. However, whatever name I try to give this selection I receive the error "You must provide a file name that contains either $name or $number, which will be changed to the model name or model number (respectively) in the final saved file name". Can you please give me an example of a valid name! The viral subunits are 6sk5.pdb1 (#0.1), 6sk5.pdb1 (#0.2), and so on. I have no clue what I should call this selection for it being accepted.
Thanks a lot, Dieter