Cannot get specific trypsin peptide

Cannot get specific trypsin peptide William  2018-11-08

Hi Brendan,
I have difficulty in getting Skyline to display the tryptic peptide of "VLPSWLTAQVATK" from the CYREN protein (Q9BWK5). Cannot sort out what setting is wrong.
Thanks, William

Brendan MacLean responded:  2018-11-08

Hi William,
It is the Peptide Settings - Filter tab : Exclude n-terminal AAs setting. You need to reduce this below 12 (i.e. 0-11 - from its current value of 25) in order to get Skyline to automatically include your peptide of interest when it filters the peptides in your protein.

Thanks for posting your file with this support request.