Carbamidomethylation has a modification mass of 57.021464. To apply it to each peptide's n-termini if that's your intent:
add_Nterm_peptide = 57.021464 This modification is commonly applied to cysteine residues: add_C_cysteine = 57.021464 For methionine oxidation as a variable modification, use the "variable_mod*" parameters: variable_mod01 = 15.9949 M 0 3 -1 0 0 0.0 For deamidation: variable_mod02 = 0.984016 NQ 0 3 -1 0 0 0.0 A description of each of the parameters, particularly the crazy list of settings for the variable_mod parameters, can be found here: http://comet-ms.sourceforge.net/parameters/parameters_201901/ Good luck. On Mon, Sep 14, 2020 at 1:25 PM Francesco Demetrio Lofaro < [email protected]> wrote: > > Hello, > > i need to set these modification in Comet parameters: 1) fixed > modification: Carbamydomethyl (N-term); 2) variable modifications: > Oxidation (M); Deamidated (NQ). > Thank you for your help, > Francesco > > -- > 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/cc7e64d8-ada5-4c09-a5af-9e9e82a21776n%40googlegroups.com > <https://groups.google.com/d/msgid/spctools-discuss/cc7e64d8-ada5-4c09-a5af-9e9e82a21776n%40googlegroups.com?utm_medium=email&utm_source=footer> > . > -- 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/CAJqD6EOKhJKL1h1tHrt0j7ZVwH5veSec-Sd7inDj4d6KL%3DqZwA%40mail.gmail.com.
