Hi

I am trying to write an alias and am curious if I can do the following using command line (in order to include them in the alias):

1. Separate chains that belong to the same model – can I change the model # on a single chain from an existing model? For example, I built a DNA duplex, selected one chain (sel :.A) and tried to change the model # (combine sel model 8 close true) but the new model also includes chain B.
2. Change residue number of a residue in a chain. I combined a small molecule to a DNA chain between residues 18 and 19, but after combining, the molecule’s residue number remains 1. I would like to change it to 19 or 18.
3. Following point #2, I also want to assign the new molecule the same chain ID – A. In the pdb file, the chain ID is blank for the newly inserted molecule.

Thank you for your help. I also want to mention that the Chimera user discussion portal has been very helpful otherwise!

Best,

-- 

Divita Mathur

Postdoctoral Research Fellow

Center for Bio/Molecular Science and Engineering

Naval Research Laboratory

Washington DC 20375

(202) 767-0687 (Office)

divita.mathur.ctr.in@nrl.navy.mil