[modeller_usage] Help with transfer_xyz method

Hello, I have a sequence and a structure aligned in a file in RIP format. Now I want to just copy the coordinates of our structure to our sequence without any changes. I am using transfer-xyz.py but it doesn't copy the coordinates as they are in the structure before or after the loops. Is there a way to transfer the coordinates from structure to sequence as they are? Regards, Ali Algarrous