[gmx-users] gmx mdmat calculation of heavy atoms of two side chains

[Мижээ Батсайхан]

Dear gmx users,

I would like to know about the hydrophobic interaction between heavy atoms
of side chains in different chains of peptides. How can I use mdmat tool
for this calculation? I  separately indexed all heavy atoms but mdmat use
only one index group in the calculation. I re-integrated all separate
groups into a group. Calculation result came out only two side chain
distance image.
If you have any suggestion please help me?


Best regards,
Mijee