Focus: Proteomics Account And Perspective

Journal of the American Society for Mass Spectrometry

, Volume 14, Issue 9, pp 931-942

First online:

Protein identification: The origins of peptide mass fingerprinting

  • William J. HenzelAffiliated withProtein Chemistry Department and Bioinformatics Department, Genentech, Inc.
  • , Colin WatanabeAffiliated withProtein Chemistry Department and Bioinformatics Department, Genentech, Inc.
  • , John T. StultsAffiliated withAnalytical Sciences Department, Biospect, Inc. Email author 

Abstract

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.