[gmx-users] Hbonds between Adenine and Thymine

[Hovakim Grabski]

Dear Gromacs users,
I set a  simulation of 26 base pairs  of  DNA with Ethidium Bromide for 5 ns.
After a while Thymine rotated for about 70 degrees and then returned to its initial position.
I wanted to find out hbonds between Adenine and Thymine but with make_ndx things don't work so well.
How can I select Adenine from one strand and Thymine from the other strand and then run g_hbond ?
Thanks in Advance
Best regards,
Hovakim Grabski