I have a problem on sequencing a purified protein. MW of the protein is
about 10kd and has thrombin inhibiting activity. While sequencing the protein,
unusual amino acid peak appeared in first cycle and then no peak appeared there
-after. I used TFA method to deblock the protein. After deblocking, same
unknown peak was detected in first cycle and then many of peaks were detected.
The protein was blotted to PVDF membrane and sequenced by automated sequencer.
Is there a good method to deblock N-terminus without fragmentation?
Please Help!
