Protein identification: The origins of peptide mass fingerprinting

  • William J. Henzel
  • Colin Watanabe
  • John T. StultsEmail author
Focus: Proteomics Account And Perspective


Peptide mass fingerprinting (PMF) grew from a need for a faster, more efficient method to identify frequently observed proteins in electrophoresis gels. We describe the genesis of the idea in 1989, and show the first demonstration with fast atom bombardment mass spectrometry. Despite its promise, the method was seldom used until 1992, with the coming of significantly more sensitive commercial instrumentation based on MALDI-TOF-MS. We recount the evolution of the method and its dependence on a number of technical breakthroughs, both in mass spectrometry and in other areas. We show how it laid the foundation for high-throughput, high-sensitivity methods of protein analysis, now known as proteomics. We conclude with recommendations for further improvements, and speculation of the role of PMF in the future.


Protein Identification Peptide Mass Fast Atom Bombardment Peptide Mass Fingerprinting Protein Sequence Database 
These keywords were added by machine and not by the authors. This process is experimental and the keywords may be updated as the learning algorithm improves.


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Copyright information

© American Society for Mass Spectrometry 2003

Authors and Affiliations

  • William J. Henzel
    • 1
  • Colin Watanabe
    • 1
  • John T. Stults
    • 2
    Email author
  1. 1.Protein Chemistry Department and Bioinformatics DepartmentGenentech, Inc.South San FranciscoUSA
  2. 2.Analytical Sciences DepartmentBiospect, Inc.South San FranciscoUSA

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