[gmx-users] how to put protein in the box?

[Seonah Kim]

Dear All,

I am using Trpcage with water model.
When I run VMD, I want to put protein in the octahedron box. But my protein is 
jumping a lot sometimes it is in the box but sometimes is out of the box.

I tried to use -center option when I use trjconv, like trjconv -f aaa.trr -o 
aaa.xtc -center, it doesn't work.

Would you tell me the right way to solve this problem?

Thank you.

Seonah Kim