FAQ: How much Protein Deglycosylation Mix II should I use to remove the carbohydrates under native (non-denaturing) conditions?

When the protein is not reduced or denatured, the Protein Deglycosylation Mix II may have a more difficult time reaching the cleavage site of the carbohydrate (because of the secondary and tertiary protein structure). Under reducing conditions, we recommended using 5 μL of Deglycosylation Mix per 100 μg of protein.  Under native conditions it is recommended to use extra Deglycosylation Mix and extended incubation times. Some complex proteins may only result in partial deglycosylated under native conditions, even after long incubations. The exact amount of Deglycosylation Mix required may be specific to each protein’s level of complexity and must be determined empirically.