Re: [PyMOL] manual superposition with pymol

[Thomas H. <tho...@sc...>]

Hi Suzanne,

looks like you only deprotected the CA atoms. If you have this as a named selection, try "A > modify > complete > molecules" and deprotect again. Or type:

PyMOL> deprotect bymol (sele)

Instead of working with one object and protecting/deprotecting of subsets of atoms, I suggest to extract the selection that you want to move to its own object. That's usually easier to handle.

Cheers,
  Thomas

On 04 Apr 2014, at 13:38, Lapolla, Suzanne M (HSC) <suz...@ou...> wrote:

> I am using pymol 1.3 and having trouble with doing manual superposition with my structures. I am able to download my structures, select the portion I want to move manually and, after deprotecting it using the action menu move it using the shift-mouse editing command. When I do this with my selection shown in cartoon mode, things look great, but then when i switch to show my selected residues as  sticks,  the sticks become huge --they  get bigger  and/or  smaller as I move the structure.  Ideas on what I may be doing wrong? Hope this makes sense. Thanks, Suzanne

-- 
Thomas Holder
PyMOL Developer
Schrödinger, Inc.