Marc F. Lensink
lensink at scmbb.ulb.ac.be
Wed Jun 20 17:24:48 CEST 2007
On Wed, Jun 20, 2007 at 07:27:42AM -0700, priyanka srivastava wrote:
> Dear All,
> I want to calculate tilt angle of a peptide inserted
> inside the lipid bilayer (i.e. angle between the
> helical axis and bilayer normal). From previous posts
> I got an idea that g_bundle wud solve my problem.
hm, g_helixaxis will do the trick:
(from the help)
"Output is given through -o in the following format:
time i dir(x) dir(y) dir(z) length rms cos(z) groupname
time - time (ps)
i - axis index (0..nh-1)
dir(xyz) - axis vector component
length - axis length
rms - rms of atom coordinates from helix axis
cos(z) - the cosine of the angle with the z-axis
groupname - name of index group defining the helix"
in time this will appear on
http://www.scmbb.ulb.ac.be/Users/lensink/lipid, for now you'll have to
contact me off-list for the distribution.
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