and I wonder why Methionine oxidation (*15.995* Da) is replaced by M [147], is that an internal code to represent that modification or something got messed up?
On Tuesday, July 7, 2020 at 12:27:41 PM UTC-4 RS wrote: > Hello All, > > I'm trying to create a spectral library from Proteome Discoverer (PD > )result files to re-import into PD as PD accepts* sptxt* format > libraries. > > My workflow was as follows: > > ProteomeDiscoverer 2.3 *msf * format search result files were converted > to a * blib* file. The filtered *blib* file was converted to *sp2 *format. > The* sp2* format file was finally converted to *sptxt *format library by > SpectraST. > > While importing the sptxt format file (without adding any decoy) I've > seen the amino acid modifications used like Methionine oxidation and > Cysteine carbamidomethylation were not recognized by PD > > However if I ADD DECOY to the library, followed by its import to PD , the > modifications show up in PD (see attached pics) > > This is how the header info. of one such modified amino acid peptide > appears in the decoy-free library: > > Name: M[147]ATALPPR/2 > LibID: 329 > MW: 873.4731 > PrecursorMZ: 436.7366 > Status: Normal > FullName: X.M[147]ATALPPR.X/2 (CID) > Comment: AvePrecursorMz=437.0325 BinaryFileOffset=10637539 > FracUnassigned=0.90,4/5;0.89,17/20;0.66,1314/1631 > Fullname=X.M[147]ATALPPR.X/2 Prob=1.0000 ScanNum=2539.2539 Spec=Raw > NumPeaks: 1631 > > Can somebody let me know how to incorporate these modifications so that > they can be imported by ProteomeDiscoverer > Image links: > > Decoy library <https://i.imgur.com/Yiz6QLt.png> > > > NO-Decoy library <https://i.imgur.com/1lLKlwt.png> > > > Thanks > > > -- You received this message because you are subscribed to the Google Groups "spctools-discuss" group. To unsubscribe from this group and stop receiving emails from it, send an email to [email protected]. To view this discussion on the web visit https://groups.google.com/d/msgid/spctools-discuss/913df290-7bbc-4ffe-a6a4-c5eedf6ece6en%40googlegroups.com.
