On 7/23/12 7:53 AM, J Peterson wrote:
Thank you so much for that, Justin.
Now I could expand the bilayer.
I've another query. My protein has a small N-terminal portion embedded in
the membrane, I would like to insert only this part into the membrane during
'packing the lipid around the protein' step in your tutorial. Initially I
was trying to do simulation only with this TM region and then attaching the
rest of the protein with this TM region and simulate the whole system. But
was time-taking.
Can you please guide me to pack the lipid bilayer only around a 33-residues
long peptide in my protein and rest with water?
Position your protein manually using editconf -center such that it is placed
appropriately relative to the membrane and follow the same procedure in the
tutorial.
-Justin
--
========================================
Justin A. Lemkul, Ph.D.
Research Scientist
Department of Biochemistry
Virginia Tech
Blacksburg, VA
jalemkul[at]vt.edu | (540) 231-9080
http://www.bevanlab.biochem.vt.edu/Pages/Personal/justin
========================================
--
gmx-users mailing list gmx-users@gromacs.org
http://lists.gromacs.org/mailman/listinfo/gmx-users
* Only plain text messages are allowed!
* Please search the archive at
http://www.gromacs.org/Support/Mailing_Lists/Search before posting!
* Please don't post (un)subscribe requests to the list. Use the
www interface or send it to gmx-users-requ...@gromacs.org.
* Can't post? Read http://www.gromacs.org/Support/Mailing_Lists
