I am interested in modeling modified amino acids in Rosetta. Although I could use the Refnew et. al. method to include these as noncanonical amino acids, it seems like a lot of extra effort for what and I am looking to do which I expect can be accomplished much more simply. I would like to conjugated various chemical functionalities to Lys side chains. Nothing changes about the residue except the group added to the nitrogen. I was hoping to add this using a patch file, similar to that used to generate acetyl Lys. Additionally, I would like to add the same groups to Asn and Gln which is why I would prefer something like the patch file route rather than a full NCAA.
Thank you for your assistance.