[gmx-users] a question about pepetide chains interaction

[Wang Zhun]

Hi, all,

If I want to simulate the interaction between two peptides, based on previous mailling posts, I should generate two separate .gro structures and .top topologies for each pepetide and combine them for further MD simulation.
Now I wonder if I generate the structure with two pepetides in one file and name each with different identifier, can I carry MD simulation in a way of simulation of protein with multiple subunits in the FAQ?

Thanks!