Any recommendations on learning how to do this? As well as the limitations to your approach? I've been interested in engineering site-specific DNA binding proteins for over a decade now, but the tools I've looked at are specific for protein to small-molecule or protein to protein interfaces.
It turns out the dissertation is not quite published yet, but this paper [1] will be a part of it. Sam and I were in the same lab and his work has evolved to focus even more on AI-guided protein design. Perhaps the quote from the abstract that made the connection for me to this post:
> We applied the protein G B1 domain (GB1) models to design a sequence that binds to immunoglobulin G with substantially higher affinity than wild-type GB1.
If you’re up for reading a dissertation I have one in mind I can dig up. I will check back here in 12 hours or so or you can contact me from my profile.
Any recommendations on learning how to do this? As well as the limitations to your approach? I've been interested in engineering site-specific DNA binding proteins for over a decade now, but the tools I've looked at are specific for protein to small-molecule or protein to protein interfaces.