Hi, I searched did a search in omssa with one of the variable mods as "pyro-glu from n-term Q" In one of the scan, I got a good scoring peptide that was annotated as: n[111]QEYDESGPSIVHR
For the same scan, the xtandem pep.xml file shows Q[111]EYDESGPSIVHR When I view this scan for the xtandem and omssa in the comet spectrum viewer, I noticed that the b-ion series have different m/z values with N-term:+111.03 (Omssa) Q(1):+111.03 (xtandem). I am just wondering if the 2 search engines meant the same peptide with same modification, but somehow encoded them different in the pep.xml? The pepxml says <modification info mod_nterm_mass="111.03258" modified peptide="n[111]QEYDESGPSIVHR"> which seems to be wrong? Is it possible to fix this? Thanks, Lik Wee -- 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.
