Initially I used to purify my protein in Hepes pH 8.0. For certain reasons, now I am purifying my protein with buffer sodium acetate pH 5.0 as final buffer. I observed several bands in SDS PAGE analysis in the end of gel filtration. I figured they could be artifacts of overheating and ran same samples with time of heating as a variable. Interestingly, as I believed, I did not have any unintended bands when sample was not heated but they started appearing as a function of heating time. Another interesting factor is that same protein with buffer as Hepes 8.0, which was heated for 5 mins, did not have any such artifact bands. Please see the attached picture.
I wonder if protein in sodium acetate pH 5.0 can have such detrimental effects when used with sample loading buffer (which is made with b-mercapto ethonol along with usual components). I welcome any inputs explaining/suggesting solution to my problem. Thanks in advance. (I Hope asking questions during weekend is not a bad idea.)
Note: This is a his-tagged protein and Water bath temp was 99 C, if it helps. Those bands cannot be complexing with my protein as band for non-heated sample looks same as heated sample. Sorry for poor quality picture. My lab camera is broke!
Edited by anaivan, 14 December 2012 - 10:04 PM.