34 Agilent 1100 Series LC/MSD Trap System Quick Start Guide
Optional steps
Deconvolute and search protein spectra
You can search databases such as MASCOT to identify proteins and peptide
mixtures resulting from the digestion of proteins. To search MASCOT you must
export deconvoluted profile spectra.
Deconvolution is the calculation of protein or peptide molecular weights from ions
that exist in multiple charge states.
Read and follow the steps in the user information listed below to learn how to
deconvolute mass spectra, export the spectra to a MASCOT Generic File (MGF)
and search MASCOT to identify the protein or protein digest from its spectra.
• Familiarization Guide—Chapter 4, “Deconvolute and search protein spectra”
• Online Help for the tasks listed for the roadmap below and descriptions of the
fields found on the windows and dialog boxes needed for these tasks.
1 Extract
spectra for
deconvolution
Start
Here!
Deconvolute
and search
protein
spectra
2 Deconvolute
spectra
4 Search
MASCOT
database
3 Export spectra
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