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Exercise MSMS6


MS/MS search of some Electron Transfer Dissociation data


User access to any Mascot server, including the Matrix Science public web site


Data from BSA analysed on an Orbitrap using ETD. Cysteine residues reduced and alkylated with iodoacetic acid (+58). Can use precursor tolerance of 2 ppm and fragment tolerance of 0.1 Da. Trypsin with 1 missed cleavage.


Right-click this link: MSMS6.mgf, and choose Save target as or Save link as


  1. Did the peak detection ever fail to pick the 12C peak?
  2. What do you get if you search as CID?


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