[gmx-users] Strange behaviour of bonds

[Shima Arasteh]

Hi all,

I simulated a protein in water. When I get its 20 ns trajectory and load it in VMD, I see some bonds stretch suddenly and moves far strangely! Is this problem because of the wrong structure of the protein? Or I may put some restrains on system and solve this problem?
Anybody may suggest me in this about?


Thank you.

 
Sincerely,
Shima
-------------- next part --------------
An HTML attachment was scrubbed...
URL: <http://maillist.sys.kth.se/pipermail/gromacs.org_gmx-users/attachments/20120617/99103a46/attachment.html>