[gmx-users] gangle command

[Justin Lemkul]

On 6/3/18 8:50 AM, delara aghaie wrote:
>   Dear Gromacs users
> I want to calculate the angle between P-N vector in the head group of DPPC molecules with the z-axis (bilayer normal) using gangle command.I know that for the z axis I should use (-g2 z) but do not know how to define a vector for P-N. Your help would be greatly appreciated.

What have you tried? What did you get? Can you get a sensible result 
with defining an index group with the P and N atoms of a single lipid? 
What about multiple?

-Justin

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Justin A. Lemkul, Ph.D.
Assistant Professor
Virginia Tech Department of Biochemistry

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