Hello! I have two questions regarding my task on protein-DNA binding. I am currently using HADDOCK to perform docking between proteins and DNA.
- My protein is a novel protein, and I am unsure about the binding sites. Will randomly specifying a few residues affect the final result?
- For the protein-DNA docking results, within what score range does it indicate a relatively strong binding affinity? Would a score below -100 be considered strong?
I look forward to your response. Thank you very much!