Hello: I dragged a partial thread pdb to dock a volume map with UCSF-Chemira, but when I saved the pdb, and open the new pdb and the mrc file, they are still uncouple. Please point out the mistakes in my method, thank you very much. fig 1. Yellow chain is the partial thread pdb, pink one is native pdb, grey one is the volume data. fig 2. After dragging, docked pdb and volume data Fig 3. options of 'save pdb' After these actions, pdb and mrc are still uncouple when I reopen them in another Chemira.
See the "Save relative to" near the bottom of the PDB Save dialog. In your image it is saving relative to #0, a pdb file. You need to change the model in that line to the map model. You can check in the Model Panel (menu: Favorites... Model Panel) to see which models are which numbers. 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 11, 2020, at 9:01 PM, 李雄俊 <lixiongjun228@qq.com> wrote:
Hello: I dragged a partial thread pdb to dock a volume map with UCSF-Chemira, but when I saved the pdb, and open the new pdb and the mrc file, they are still uncouple. Please point out the mistakes in my method, thank you very much. <30FDE806@C4B4D716.A81FBA5E.jpg> fig 1. Yellow chain is the partial thread pdb, pink one is native pdb, grey one is the volume data.
<3100E200@AE407D4E.A81FBA5E.jpg> fig 2. After dragging, docked pdb and volume data
<2CFDE501@53897A73.A81FBA5E.jpg> Fig 3. options of 'save pdb'
After these actions, pdb and mrc are still uncouple when I reopen them in another Chemira.
Thank you, it works well. ---Original--- From: "Elaine Meng"<meng@cgl.ucsf.edu> Date: Tue, May 12, 2020 22:46 PM To: "李雄俊"<lixiongjun228@qq.com>; Cc: "chimera-users"<chimera-users@cgl.ucsf.edu>; Subject: Re: [Chimera-users] How to save a dragged pdb See the "Save relative to" near the bottom of the PDB Save dialog. In your image it is saving relative to #0, a pdb file. You need to change the model in that line to the map model. You can check in the Model Panel (menu: Favorites... Model Panel) to see which models are which numbers. 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 11, 2020, at 9:01 PM, 李雄俊 <lixiongjun228@qq.com> wrote: > > Hello: > I dragged a partial thread pdb to dock a volume map with UCSF-Chemira, but when I saved the pdb, and open the new pdb and the mrc file, they are still uncouple. Please point out the mistakes in my method, thank you very much. > <30FDE806@C4B4D716.A81FBA5E.jpg> > fig 1. Yellow chain is the partial thread pdb, pink one is native pdb, grey one is the volume data. > > <3100E200@AE407D4E.A81FBA5E.jpg> > fig 2. After dragging, docked pdb and volume data > > > <2CFDE501@53897A73.A81FBA5E.jpg> > Fig 3. options of 'save pdb' > > After these actions, pdb and mrc are still uncouple when I reopen them in another Chemira.
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李雄俊