Thanks for ur reply and sorry for late reply from my side .. I would like to tell you what I want to do as there is some modification in the protocol that is mentioned in the paper .. Here are the steps which I want to follow ..
1) First of all I have found a library of loop fragments of different sizes (till 25 residues) , I want to use this library for my protein to model the loop .. The reason is that my study involves longer loop insertion in my protein .
2)How can I use rosetta in this ??
Also, if I use older version though the newer one is present ,which one will be better in your opinion considering result accuracy and easy way of doing it (compared to using a older version) ??
Pls do comment ..