Pharmaceutical Sciences Faculty Publications

Analysis of Murine Natural Killer Cell microsomal proteins using two-dimensional liquid chromatography coupled to tandem electrospray ionization mass spectrometry.

Document Type

Article

Publication Date

7-1-2004

Journal Title

Journal of Proteome Research

ISSN

1535-3893

Volume

3

Issue

4

First Page

862

Last Page

870

DOI

10.1021/pr049927e

PubMed ID

15359742

Abstract

This study describes the application of a single tube sample preparation technique coupled with multidimensional fractionation for the analysis of a complex membrane protein sample from murine natural killer (NK) cells. A solution-based method that facilitates the solubilization and tryptic digestion of integral membrane proteins is conjoined with strong cation exchange (SCX) liquid chromatography (LC) fractionation followed by microcapillary reversed-phase (microRP) LC tandem mass spectrometric analysis of each SCXLC fraction in second dimension. Sonication in buffered methanol solution was employed to solubilize, and tryptically digest murine NK cell microsomal proteins, allowing for the large-scale identification of integral membrane proteins, including the mapping of the membrane-spanning peptides. Bioinformatic analysis of the acquired tandem mass spectra versus the murine genome database resulted in 11,967 matching tryptic peptide sequences, corresponding to 5782 unique peptide identifications. These peptides resulted in identification of 2563 proteins of which 876 (34%) are classified as membrane proteins.

Keywords

Amino acid sequence, chromatography, liquid, killer cells, natural, membrane proteins, microsomes, peptides, proteome, proteomics, spectrometry, mass, electrospray ionization

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