Hi Yeping -
I’m unable to reproduce the behavior you’re seeing—using your commands in Open
Source PyMOL 1.7.2.0, I get the whole capsid displayed properly as a cartoon.
What version of PyMOL are you using?
You could also try using the `all_states` setting instead:
fetch 3j2v, type=pdb1, async=0
set all_states, 1
orient
as cartoon
Cheers,
Jared
--
Jared Sampson
Xiangpeng Kong Lab
NYU Langone Medical Center
http://kong.med.nyu.edu/
On Sep 2, 2014, at 6:20 AM, sunyeping
<sunyep...@aliyun.com<mailto:sunyep...@aliyun.com>> wrote:
Dear all
I want to display structures which contains numerous chains such as viruses in
pymol. I find these sturctures can be displayed normally as line
representation. However, when I show them as cartoon, usually only one chain
can be displayed, and usually it is cartoon loop rather than the normal
cartoon. It there any way to display the whole structute as cartoon?
For example, I display the HBV capsid in pymol by the follow commands:
fetch 3j2v, type=pdb1, async=0
split_states 3j2v
delete 3j2v
orient
The whole virus capsid appeared as line representation. Then I type:
Hide everything
show cartoon
Only one chain shown as cartoon loop in pymol
Thanks in advance.
Yeping Sun
Institute of Microbiology, Chinese Academy of Sciences
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