I have a quick question:
i have submitted 5 antibody sequences to Rosie and for each of them got ten lowest-energy structures. I have the solved structure of a protein X. I read the paper of Snugdock, got excited by the idea of using snugdock with ensembledock together and now want to perform a docking of my protein X using the models i got from Rosie.
I searched a while for usage examples of snugdock..but couldn't fine anything. In past i used rosettadock..but it was not about antibodies..and now since the antibody structures are missing, i really think that incorporating information of ensemble models can give a more robust docking solution.
Question: did anyone use snugdock+ensembledock or even apart??
Thanks so much!!!