Very frequently, when I run my Co-IP samples, the prey protein band will bleed into adjacent lanes. Conversely, the input for these proteins retains good lane discipline and the bands are clearly separated.
Moreover, the protein I pull down does not experience this issue, and the heavy/light chain bands also resolve quite nicely into separate lanes. As a corollary, the pulled-down protein has a similar MW to the prey proteins (e.g., within ~15kD): if there was a problem with the gel, then the IgG should look funny too, and most definitely the pulled-down protein.
Thanks for any help you can provide.
Edited by chelsea77, 28 August 2013 - 08:14 AM.