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”: <http://www.rbvi.ucsf.edu/chimera/docs/UsersGuide/savemodel.html#pdb> You could also use the alias from my previous reply <http://plato.cgl.ucsf.edu/pipermail/chimera-users/2015-June/011153.html> …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 ----- 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@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,