[Chimera-users] Saving multiple identical PDB in a single file with unique chain ID

[Elaine Meng]

That is exactly what the option does: it would make a combined single model with  A B C D, not AB AB.  The “duplicate” refers to the output single model, not your input models.  All I can say is that you must be doing something wrong, or you have not closed the input models (which are still AB AB) and they are causing confusion.

If you are trying to combining two models, you have to choose BOTH models in the Model Panel and then click “copy/combine” and then make sure BOTH models are also chosen in  the copy/combine dialog.  Choose “rename them uniquely” and maybe you should also choose “Close source models” (get rid of your two starting models) so that they will not confuse you.

Elaine


> On Apr 19, 2018, at 6:18 PM, Ahmad Abdelzaher <underoath006 at gmail.com> wrote:
> 
> Thanks a lot for trying to help. I did exactly just that, the option you described renames duplicate chains in the structure, however, in my structure, there are no duplicate chains. There's an A and a B chain. When I copy combine, I get another structure with A and B as well. I want the second structure to have C and D instead, i.e. a unique chain ID that is different from the original model's chain.  
> 
> On Thu, Apr 19, 2018 at 6:43 PM, Elaine Meng <meng at cgl.ucsf.edu> wrote:
> Hi Ahmad,
> See the previous reply:  the combined single model will not have any two chains with the same ID if you use the option I described, which is the default.  Make sure you are looking only at the final combined model, not the other starting models which may still be open.
> 
> Elaine
> 
> > On Apr 19, 2018, at 12:40 PM, Ahmad Abdelzaher <underoath006 at gmail.com> wrote:
> > 
> > Sorry for the confusion. By tubulin monomer I mean an alpha-beta dimer. A tubulin trimer would be three tubulins of six chains A-B-A-B-A-B, each two belonging to a tubulin monomer.
> > 
> > My question is, if the first monomer has chains A and B, I want the copy/combine model to have different chain ID letters from A and B, for example C and D, and so on for the third, and fourth, etc.  
> > 
> > How can I do that? 
> > 
> > Regards.