Justin A. Lemkul wrote:
Natalie Stephenson wrote:
Hi,
I've been having a problem with the pull simulation. After the
simulation is complete, I use trjconv to separate the pull file into
seperate .gro's and load this into VMD. When I view it in VMD as the
'video' continues parts of amino acids within the protein structure
seem to jump a long way from the rest of that amino acid leaving a
long bond between the two, which seems to remain there for the rest of
the 'video'. Can anyone tell me why this might be happening? And if
there is a way of solving this problem?
I tried to have a look through the archive for this problem but I have
no idea what to even search.
I would be immensely grateful for any light you could shed on this
problem.
Sounds like FAQ #11.
http://www.gromacs.org/Documentation/FAQs
-Justin
Thanks in advance.
Natalie
--
========================================
Justin A. Lemkul
Ph.D. Candidate
ICTAS Doctoral Scholar
MILES-IGERT Trainee
Department of Biochemistry
Virginia Tech
Blacksburg, VA
jalemkul[at]vt.edu | (540) 231-9080
http://www.bevanlab.biochem.vt.edu/Pages/Personal/justin
========================================
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