Hello Ruby, I believe this problem is only with the ProteinProphet viewer not the modelling. Someone else had reported this problem also but it has not been fixed in this release. The problem is in the coloring off the motif only. You should still see the motif in the peptides you identify.
-David Sent from my Android Device ----- Reply message ----- From: "Ruby" <[email protected]> To: "spctools-discuss" <[email protected]> Subject: [spctools-discuss] GLYC not working in 4.5.2? Date: Wed, Feb 29, 2012 6:51 am I have been using the GLYC command in TPP 4.4.0 for more than a year with no problem. I recently upgraded to TPP 4.5.2 and can't seem to get the GLYC command to work for ProteinProphet. I have the "N- glycosylation data (color NXS/T)" option checked in petunia when doing ProteinProphet processing, and in the ProteinProphet header the "NxS/ T" box is checked. However, I do NOT see any pink highlighted N[115] in the peptides like I used to see nor does it calculate the # of glycopeptides at the bottom of the page - though most of my peptides do contain this modification. I am selecting the option to use the "Use N-glyc motif information" when I do the peptideprophet. Is there something else I"m supposed to be doing to get this to work in the new update of TPP? Thanks Ruby -- You received this message because you are subscribed to the Google Groups "spctools-discuss" group. To post to this group, send email to [email protected]. To unsubscribe from this group, send email to [email protected]. For more options, visit this group at http://groups.google.com/group/spctools-discuss?hl=en. -- You received this message because you are subscribed to the Google Groups "spctools-discuss" group. To post to this group, send email to [email protected]. To unsubscribe from this group, send email to [email protected]. For more options, visit this group at http://groups.google.com/group/spctools-discuss?hl=en.
