Hi Jimmy It worked now!
Thanks! Em segunda-feira, 24 de agosto de 2015 03:33:25 UTC-3, Jimmy Eng escreveu: > > You have 6 parameter values for your "variable_mod04" entry and 7 > parameter values for your "variable_mod05" entry. One of them is wrong. > > variable_mod04 = 6.03181 K 0 3 -1 0 > variable_mod05 = 6.03181 n 0 3 0 2 0 > > As you mentioned the heavy lysines are identified correctly, you might > also just try: > > variable_mod04 = 6.03181 nK 0 3 -1 0 > > The 'n' already implies n-terminal modification so you don't have to set > the distance constraint at the peptide n-terminus as you meant to do in > your "variable_mod05" entry. > > On Sun, Aug 23, 2015 at 7:32 PM, azelanis <[email protected] <javascript:>> > wrote: > >> Hi all >> >> I am having issues regarding the analysis of Light (+ 28 Da) and Heavy (+ >> 34 Da) di-methylation labeling using Comet through TPP v.4.8. >> I tried to use the same approach of X!Tandem searches (ie. setting the >> light di-methyl as a static modification for both N-termini and K and the >> mass difference between the light and heavy dimethyl as a variable >> modification for both K and [). >> However, I noticed that in the pep.xml file only the light di-methyl is >> present (at all N-termini), whereas Comet succesfully recognized the light >> and heavy labels at K. >> >> Is there anything wrong with the parameters below? >> >> As variable modifications I'm using: >> >> variable_mod04 = 6.03181 K 0 3 -1 0 >> variable_mod05 = 6.03181 n 0 3 0 2 0 >> >> As static mods.: >> >> add_Nterm_peptide = 28.031300 >> add_K_lysine = 28.031300 >> >> >> Any help would be very welcome! >> >> >> >> Cheers. >> >> >> -- >> 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] <javascript:>. >> To post to this group, send email to [email protected] >> <javascript:>. >> Visit this group at http://groups.google.com/group/spctools-discuss. >> For more options, visit https://groups.google.com/d/optout. >> > > -- 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 post to this group, send email to [email protected]. Visit this group at http://groups.google.com/group/spctools-discuss. For more options, visit https://groups.google.com/d/optout.
