predict peptide from the first amino

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predict peptide from the first amino spklongz  2020-11-09
 

Hi,

I want to predict peptide starting from the first amino acid (N-term) of a protein. How to set parameters of Skyline?

I varied Skyline parameters, while it failed to do that.

 
 
Nick Shulman responded:  2020-11-09
I think the setting you need to change is "Exclude N-terminal AAs".
That setting can be found at:
Settings > Peptide Settings > Filter

The default value for that setting is "25". You should change that to "0" if you want Skyline to give you all of the peptides starting from the beginning of the protein sequence.
-- Nick