SANT-domain-containing proteins interact preferentially with unmodified histone tails.

#Id: 2772

#Unit 13. Methods in Biology

DMS footprinting follows a similar principle, except that we use the DNA methylating agent DMS, instead of DNase, to attack the DNA–protein complex. 

#Id: 2773

#Unit 13. Methods in Biology

In DMS footprinting, Unmethylated (or hypermethylated) sites show up on electrophoresis and demonstrate where the protein is bound to the DNA. 

#Id: 2774

#Unit 13. Methods in Biology

Methylation interference assay Dimethyl sulphate (DMS) methylates purines on DNA strand. Methylate DNA prior to adding protein.Protein binding is prevented at methylated sites

#Id: 2775

#Unit 13. Methods in Biology

Methylation interference assay Dimethyl sulphate (DMS) methylates purines on DNA strand. Methylate DNA prior to adding protein. Protein binding is prevented at methylated sites. After treatment and removal of protein of interest, treat with piperidine or NaOH which cuts strand at modified bases.

#Id: 2776

#Unit 13. Methods in Biology

DNase and DMS, other reagents are commonly used to footprint protein–DNA complexes by breaking DNA except where it is protected by bound proteins. For example, organometallic complexes containing copper or iron act by generating hydroxyl radicals that attack and break DNA strands.

#Id: 2777

#Unit 13. Methods in Biology

UV radiation is used to cause DNA breakage. UV reacts quickly hence helps to catch momentary protein binding and can be used in vivo as it penetrates cell membranes easily. But gels from such assays are difficult to interpret.