[Chimera-users] How to generate submodels in a mol2 file in Chimera?

[Elaine Meng]

Hi Yeung,
You can save as many models/submodels as you want into one mol2 file.   
Choose File.... Save Mol2.  In that dialog there is an option to "Save  
multiple models in":
   a single file [individual @MOLECULE sections]
   multiple files [appending model number]
   a single file [combined @MOLECULE section]

If you choose "individual @MOLECULE sections", that means that when  
you read the file back into Chimera, all the models/submodels that you  
have now will be submodels in that newly opened model.  If you choose  
"combined @MOLECULE sections" that means when you read the file back  
into Chimera, all the models you have now will be one giant model.  It  
sounds like you want "individual".
<http://www.cgl.ucsf.edu/chimera/docs/UsersGuide/savemodel.html#mol2>

Best,
Elaine
-----
Elaine C. Meng, Ph.D.                          meng at cgl.ucsf.edu
UCSF Computer Graphics Lab (Chimera team) and Babbitt Lab
Department of Pharmaceutical Chemistry
University of California, San Francisco
                      http://www.cgl.ucsf.edu/home/meng/index.html



On Dec 1, 2008, at 4:34 AM, CHIU,YEUNG wrote:

> Dear friends,
>
> Hello! I'm wondering how many models and submodels in all can
> Chimera save into one single mol2 file? Right now I can have
> models only 0-9 into one single mol2 file. I think I'm going to
> use submodels, but how can I generate them? For instance, if I
> have a brunch of pdb files which contain one molecule each, I'd
> like to combine them into one mol2 file, which has a submodel
> corresponding to each molecule. (If this statement of the problem
> is not clear enough, please let me know).
>
> Thank you for your help and sorry to bother the others. Best
> wishes.
>
> Sincerely yours
> CHIU,YEUNG
>