iRMSD calculation - HADDOCK 2.4 web server

Hi all,

I have a question about how the iRMSD is calculated for runs performed using the HADDOCK 2.4 web server.

All information I have found online suggests that something like a crystal structure is used as a reference for iRMSD calculation. My question is, what is the reference structure used during a server run and when no crystal structure is available? Also, can I find the reference structure in the tar file of my run?



The top ranked model is used as reference in all cases.