I am performing in-gel digestion for MS analysis. We use 5% Formic acid to elute the peptides into the solution. I wanted to know the mechanism of this process.
Very well explained. But if you are saying proteins have hydrophobic interactions with acrylamide, then at the destaining step when we use acetonitrile to remove CBB, protein should also elute out. But its not the case. So what is happening at that time?