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Originally published In Press as doi:10.1074/mcp.M300132-MCP200 on February 12, 2004.
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Molecular & Cellular Proteomics 3:501-509, 2004.
© 2004 by The American Society for Biochemistry and Molecular Biology, Inc.

Research

The Human Erythrocyte Proteome

Analysis by Ion Trap Mass Spectrometry*

David G. Kakhniashvili{ddagger},§,¶, Lee A. Bulla, Jr.{ddagger},¶,|| and Steven R. Goodman{ddagger},§,¶,||,**,{ddagger}{ddagger}

From the {ddagger} Institute of Biomedical Sciences and Technology, § Sickle Cell Disease Research Center, Department of Molecular and Cell Biology, and || Center for Biotechnology and Bioinformatics, University of Texas at Dallas, Richardson, TX 75083-0688; and ** Department of Cell Biology, University of Texas Southwestern Medical Center, Dallas, TX 75390

This report describes an analysis of the red blood cell proteome by ion trap tandem mass spectrometry in line with liquid chromatography. Mature red blood cells lack all internal cell structures and consist of cytoplasm within a plasma membrane envelope. To maximize outcome, total red blood cell protein was divided into two fractions of membrane-associated proteins and cytoplasmic proteins. Both fractions were divided into subfractions, and proteins were identified in each fraction separately through tryptic digestion. Membrane protein digests were collected from externally exposed proteins, internally exposed proteins, "spectrin extract" mainly consisting of membrane skeleton proteins, and membrane proteins minus spectrin extract. Cytoplasmic proteins were divided into 21 fractions based on molecular mass by size exclusion chromatography. The tryptic peptides were separated by reverse-phase high-performance liquid chromatography and identified by ion trap tandem mass spectrometry. A total of 181 unique protein sequences were identified: 91 in the membrane fractions and 91 in the cytoplasmic fractions. Glyceraldehyde-3-phosphate dehydrogenase was identified with high sequence coverage in both membrane and cytoplasmic fractions. Identified proteins include membrane skeletal proteins, metabolic enzymes, transporters and channel proteins, adhesion proteins, hemoglobins, cellular defense proteins, proteins of the ubiquitin-proteasome system, G-proteins of the Ras family, kinases, chaperone proteins, proteases, translation initiation factors, and others. In addition to the known proteins, there were 43 proteins whose identification was not determined.

{ddagger}{ddagger} To whom correspondence should be addressed. Department of Molecular and Cell Biology, Room 3.610, University of Texas at Dallas, 2601 N. Floyd Road, Richardson, TX 75083-0688. Tel.: 972-883-4872; Fax: 972-883-4871; E-mail: sgoodmn{at}utdallas.edu


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