Put your protein file in TMDET and it will align the protein for you
perpendicular to Z axis and also the protein will be at origin in that case
then you can use geom_center script provided in VMD to put the lipid in the
origin and move it towards the protein. Hope it helps
On Tue, Oct 27, 2009 at
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 p
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 i
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