[AMBER] How to calculate the tilt angle of TM helix

From: Maria Bzówka <m.bzowka.tunnelinggroup.pl>
Date: Fri, 9 Aug 2019 10:17:53 +0200

Dear All,

During the simulation I can see quite a lot of changes in the position of
my TM helix immersed in the lipid bilayer, so I would like to calculate the
tilt angle between the transmembrane helix principal axis and the vector
along the Z-axis. However, I'm not so sure how to do that...
As a principal axis of TM helix I mean the C-alpha atoms from the helix
(which is 30 residues) and I suppose that I should somehow use the vector
command from cpptraj?

Do you have any suggestions?

Thank you in advance

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Received on Fri Aug 09 2019 - 01:30:02 PDT
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