Re: [PyMOL] how to use side chain helper only on some residues, but not on other residues in the same session

[Jason V. <jas...@sc...>]

Hi Maia,

Just turn on the setting for one of the proteins instead of globally.
If you type the following,
  set cartoon_side_chain_helper, on
it will turn it on for all objects.  So, try this instead
  set cartoon_side_chain_helper, on, protein1

Here's an example:

# fetch two proteins, 1cll and 1ggz
fetch 1cll 1ggz, async=0
align 1cll, 1ggz
# turn on helper for just 1cll
set cartoon_side_chain_helper, on, 1cll
# show all as cartoon
as cartoon
# show sticks for residues 40--60
# notice only side chain helper for 1cll
show sticks, i. 40-60

Cheers,

-- Jason

On Tue, May 11, 2010 at 10:49 AM, chern <ch...@ua...> wrote:
> Hi,
> I want to use a command to show some main chain atoms (that make hydrogen
> bonds with my ligand),  but not all of them. When I use side chain helper,
> it hides all main chain atoms for different objects, no matter where I put
> the command, between the objects in the script etc.Is there a way to have
> one object with main-chain atoms, and another object-without them.
>
> Maia
>



-- 
Jason Vertrees, PhD
PyMOL Product Manager
Schrodinger, LLC

(e) Jas...@sc...
(o) +1 (603) 374-7120