Anirban Ghosh wrote:
Hi ALL,
I am facing a strange problem, while aligning a protein molecule in a
lipid bilayer. I am using the center coordinates of the lipid .gro file
(values in the last line of .gro) with -box option of editconf to
properly align the protein with the bilayer. Now the problem is that the
protein is in the middle of the bilayer, but it is parallel to the
bilayer. I need to rotate it by 90 degrees to make it perpendicular with
the bilayer (which is normal with any protein-lipid complex.). But I am
not able to do this with editconf or any other command. Please suggest
how to do this. Any suggestion is welcome. Thanks a lot.
So you're saying that editconf -rotate is not working? That's what it's
designed to do. If you think something is broken, at least provide the command
you're issuing so we can see if there's something wrong with it.
-Justin
Regards,
Anirban
------------------------------------------------------------------------
_______________________________________________
gmx-users mailing list [email protected]
http://lists.gromacs.org/mailman/listinfo/gmx-users
Please search the archive at http://www.gromacs.org/search before posting!
Please don't post (un)subscribe requests to the list. Use the
www interface or send it to [email protected].
Can't post? Read http://www.gromacs.org/mailing_lists/users.php
--
========================================
Justin A. Lemkul
Ph.D. Candidate
ICTAS Doctoral Scholar
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 [email protected]
http://lists.gromacs.org/mailman/listinfo/gmx-users
Please search the archive at http://www.gromacs.org/search before posting!
Please don't post (un)subscribe requests to the list. Use the
www interface or send it to [email protected].
Can't post? Read http://www.gromacs.org/mailing_lists/users.php
