Covalent bonding to DNA, what is the best way i.e. which kind of functional groups should I have in a molecule that I need to attach it covalently to both single and double stranded DNA ?
Dear Asim, There are a number of natural products and drugs that alkylate the DNA: acrydines, mustards, cisplatin and its derivatives.. there are a number of reviews on those, but perhaps you can start in this webpage. http://chemoth.com/types/alkylating
Now that I'm reading again your question, I think I might have misunderstood you. If you are looking for a good way to modify oligonucleotides, you can buy thiol-modified oligos and then react them with maleimidos. Otherwise, perhaps your best chance is using click chemistry with alkyne-modified bases. See Qu, D.; Zhou, L.; Wang, W.; Wang, Z.; Wang, G.; Chi, W.; Zhang, B. Anal. Biochem. 2013, 434, 128–135, Salic, A.; Mitchison, T. J. Proc. Natl. Acad. Sci. USA 2008, 105, 2415–242.
Thanks a lot Sean & M. Eugenio Vazquez, my target is to bind a dye to the DNA to find a replacement to the staining steps that are used in electrophoresis! in other words I want to label the DNA in any sample to make visible in the gel of the electrophoresis
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