In my work I am labeling enzymes with small organic molecules which are partially peptides. Since I am having problems identifying labeled enzyme peptides after trypsin digestion, I would like to use Summon to fish those modified peptides out.
What changes must I make to do this?
I guess that I have to enter aminoacid masses of our modification into condition file, but is there anything else that has to be changed?
I also have to say that peptide part of our molecule will get fragmented in MS/MS, but part of the molecule that actually binds to the target enzyme will remind bound (it binds to cysteine) and will not fragment sicne it is not bound to target enzyme with peptide bond.
thank you in advance!
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Hello,
In my work I am labeling enzymes with small organic molecules which are partially peptides. Since I am having problems identifying labeled enzyme peptides after trypsin digestion, I would like to use Summon to fish those modified peptides out.
What changes must I make to do this?
I guess that I have to enter aminoacid masses of our modification into condition file, but is there anything else that has to be changed?
I also have to say that peptide part of our molecule will get fragmented in MS/MS, but part of the molecule that actually binds to the target enzyme will remind bound (it binds to cysteine) and will not fragment sicne it is not bound to target enzyme with peptide bond.
thank you in advance!