protein-protein docking

I'm doing protein-protein docking, in which the C-terminus of one of my protein chains (PDB: 2ew4) was amidated, and when I submitted it to Rosetta and ran docking_protocol.static.linuxgccrelease, I found that the amide was automatically disassembled, how can I make it so that it doesn't happen?

2ew4_ 1.pdb is the structure before docking, 2ew4_ 2.pdb is the structure after docking