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pFindStudio / pGlyco2

pGlyco is a software tool dedicated for the analysis of intact glycopeptides/glycoproteins using mass spectrometry.
http://pfind.ict.ac.cn/software/pGlyco/
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Antenna fucose certainty #19

Open abondt opened 5 years ago

abondt commented 5 years ago

I am studying a glycoprotein with antenna fucose. However, the strongest indicative fragment ion (m/z 512.1974 [M+H]+)* is not annotated in the software. Is this not implemented? If not, could you, please? That would make my life much easier. If it is implemented, do you have suggestions why it would not be annotated?

*512.197381198891

jalew188 commented 5 years ago

@abondt You can configure it in glabel.conf in the installation folder: ######################### H = shape:o,color:green,marker:145.0495347452,163.0600994315,366.1394719645 N = shape:s,color:blue,marker:138.0552587690,168.0655191604,186.0760838467,204.0866485330 A = shape:D,color:purple,marker:274.0921278414,292.1026925277,657.2348884922 G = shape:D,color:cyan,marker:290.08704246349997,308.0976071497999,673.2298031143 F = shape:^,color:red,marker:147.0651848094,350.1445573424

Append ",512.1974" to the end of the line "F = ....." (F means fucose).

Hope this helps.

abondt commented 5 years ago

That could help already. However, since you also try to annotate an actual structure as much as possible I think it is worth to include this deeper inside the software.