[Chimera-users] ViewDock

Elaine Meng meng at cgl.ucsf.edu
Sat Jun 27 08:16:54 PDT 2015

Dear Leila,
The error message is for when you are saving multiple files.  I assume you want to save a single file with your receptor and ligand, so you need to change to “Save multiple models in” to “a single file”:

You could also use the alias from my previous reply

…for example, if you had already entered that “alias” command, which creates the new command “savecplx”, you could then enter

savecplx 3

If you were using the PDB save dialog to save multiple models to multiple files, you would actually have to include “$name” or “$number” in the specified name, not some other things.  For example, NOT $target.pdb but $name.pdb.

I hope this helps,
Elaine C. Meng, Ph.D.                       
UCSF Computer Graphics Lab (Chimera team) and Babbitt Lab
Department of Pharmaceutical Chemistry
University of California, San Francisco

On Jun 27, 2015, at 5:02 AM, leila karami <karami.leila1 at gmail.com> wrote:

> Dear all
> Now, I want to save 1 pdb file containing target + one of poses of ligand for example, number 3.
> For this aim, what to do?
> I did following steps, but I did not succeed:
> file ---> save pdb ... 
> In save models section, I selected both of target.pdb (#0) and (#1.3)
> In file name section, I wrote complex.pdb and then save.
> I encountered with error (see the below link):
> https://www.dropbox.com/s/bdkq1x1db96amhi/chimera%20error.png?dl=0
> I tested other names such as $target.pdb and $1.3.pdb.
> Unfortunately, I encountered with the same error.
> Best regards,

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