HI Alok,

   In order to see the DNA as well as DNA binding protein you can perform EMSA (Electrophoretic Mobility Shift Assay).

Hope it may help.

Thank you

Hi Alok,

it depends, how large is you DNA fragment? Are you trying to detect protein binding specific for alkylated products or, say, Tx factors? 

What do you mean by DNA adduct?

dmitry sir, yes i want to detect DNA binding protein specific for alkylating agent so this can  cause genotoxicity. 

Hi Alok,

depending on what your reactants are (purified proteins, cell extracts on the one hand, and oligos, plasmids, PCR fragments, genomic DNA of treated cells on the other hand), you can use several techniques like EMSA, pulldown assay, cell fractionation (i.e. chromatin fraction) + western blot or mass spec, dot blot, southwestern blot, etc.

Hope this helps.

Ph.