I am looking forward to explore / validate the role of a drug in breast cancer treatment particularly in the absence of mismatch repair proteins via in-silico analysis. Picking random DNA could not serve the purpose. Is there anyone who can suggest about the selection of DNA sequence / structure... the DNA needed shouldn't be more then 12 to 14 nucleotides and should be specific to that particular protein.

I am trying to dock the drug with DNA (with or without MMR proteins).