For saving a separate PDB file for each chain when you have many chains, the split and save command can do the job split #1 save [NAME].pdb model #1 The split command makes separate models for each chain and the [NAME] in the save command saves each using the model names which include the chain identifier. Tom
On Jul 25, 2022, at 6:38 PM, Elaine Meng via ChimeraX-users <chimerax-users@cgl.ucsf.edu> wrote:
Hi Daniel, One way to do that is to select only the chain of interest, then use the dialog (menu: File... Save) to save PDB file type with the option to save only selected atoms. Then repeat the process with each of the other chains that you want to save.
There are several ways to select, including the menu (Select... Chains...[depends on what chains are in your structure]) or a command (for example "select /A" to select chain A).
<https://rbvi.ucsf.edu/chimerax/docs/user/selection.html> <https://rbvi.ucsf.edu/chimerax/docs/user/menu.html#select> <https://rbvi.ucsf.edu/chimerax/docs/user/commands/select.html#new>
I hope this helps, Elaine ----- Elaine C. Meng, Ph.D. UCSF Chimera(X) team Department of Pharmaceutical Chemistry University of California, San Francisco
On Jul 25, 2022, at 6:21 PM, Daniel VillanuevaAvalos via ChimeraX-users <chimerax-users@cgl.ucsf.edu> wrote:
Thank you. I simply will not display hydrogen atoms in my animation. One thing that I am trying to do but cannot figure out how to do is to save all the chains as separate pdb files. I am looking into the command:save documentation but cannot find if it is possible.
Thank you, Daniel.
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