Hi Yeping,

The technique will differ depending on the structure you have. Can you send me a copy and I can try to put something together for you? If it's a homodimer, usually we can just disable one unit and show the open channel.

Also, see http://hollow.sourceforge.net/channel.html and http://www.pymolwiki.org/index.php/Biochemistry_student_intro#Movie_of_Epidermal_Growth_Factor.

Cheers,

-- Jason


On Fri, Jun 28, 2013 at 2:14 AM, <sunyeping@aliyun.com> wrote:
 

 

Dear pymol users,

I want to make a cross-section on a ion tunnel protein to cut it in half and observe the intenal characters of the tunnel. According to materials on web, I runed the following commands:

hide all
show surface
set ray_trace_mode, 0
set two_sided_lighting, off
set ray_interior_color, grey50
 
But I didn't see any obvious change on the structure except that the protein became dim. Could you help me with that?
Tnanks in advance!
 
Yeping Sun

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Jason Vertrees, PhD
Director of Core Modeling Products
Schrödinger, Inc.

(e) Jason.Vertrees@schrodinger.com
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