Agarose gel electrophoresis is a method of gel electrophoresis used in biochemistry, molecular biology, and clinical chemistry to separate a mixed population of DNA or proteins in a matrix of agarose. The proteins may be separated by charge and or size (IEF agarose, essentially size independent), and the DNA and RNA fragments by length. Biomolecules are separated by applying an electric field to move the negatively charged molecules through an agarose matrix, and the bio-molecules are separated by size in the agarose gel matrix.
It can be done it is based upon the use of an ionic detergent, SDS, to neutralize cationic sites of weakly bound proteins thereby resulting in their dissociation off the helix. Proteins tightly or covalently bound to DNA that are not dissociable by SDS, result in the precipitation of the DNA fragment by the addition of KCl; however, free nucleic acid does not precipitate. This method can be used as a general assay in the purification of as yet unidentified protein or other activities that bind DNA covalently.
Agarose gels do not have a uniform pore size, but are optimal for electrophoresis of proteins that are larger than 200 kd. Agarose gel electrophoresis can also be used for the separation of DNA fragments ranging from 50 base pair to several megabases (millions of bases), the largest of which require specialized apparatus. The distance between DNA bands of different lengths is influenced by the percent agarose in the gel, with higher percentages requiring longer run times, sometimes days.
You can use agarose gel but SDS page would be more reliable that SDS
Protein separation from DNA using SDS page SDS page.
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| Protein in SDS |
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| SDS page elctrophoresis |
