I have extracted nuclear proteins but when I run it on native PAGE and stained with SYBR green, 2 bands of DNA appear while those bands were absent when stained with protein dye. I think there is DNA contamination. I have extracted nuclear proteins by using SIGMA nuclear protein extraction kit. Now I want to treat extracted nuclear proteins with DNAse. Please tell me a protocol for this purpose.
May be you can try sonication of nuclear protein so DNA get fragmentation and will run out of gel.
If fragmentation occurs, then fragments will be of small size, and my probe size is also 20bp, it can create problem
Just add DNAse, perhaps a few units/ml. Make sure the buffer system is compatible. DNAse will function in just about anything as long as there are no metal chelators, like EDTA. Commercially available and protocols provided by manufacturers.
I have a similar problem. We want extract protein from N.E formaldehyde cross-linked! Do you can help me?
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