Hi Abir Chakraborty,

11kDa and 17kDa is similar 25bp and 50bp in agarose gel. You need high concentrate resolving gel to separate clearly. Resolving gel can increase to 12,5% or 15%.

Thanks, Asakura.

I would use a gradient gel, it helps to keep the bands at the bottom end of the gel nice and sharp. Maybe 4-15% or 4-20%. 

Yes, increase gel concentration or use a gradient gel as suggested. You can also run tricine SDS-PAGE that works better for small proteins. 

If the above do not work I would recommend casting a longer length gel in combination with a gradient. 

Dear All,

Thanks a lot for all these valuable comments, Much appreciated the kind advice.

use longer length casting gel and better to use tricine buffer for lower molecular weight bands as well as loading should be appropriate according to the protein estimation...to get better resolution...