Yates John R, Cociorva Daniel, Liao Lujian, Zabrouskov Vlad
Department of Cell Biology, The Scripps Research Institute, 10550 North Torrey Pines Road, La Jolla, California 92037, USA.
Anal Chem. 2006 Jan 15;78(2):493-500. doi: 10.1021/ac0514624.
Proteomic analysis of digested complex protein mixtures has become a useful strategy to identify proteins involved in biological processes. We have evaluated the use of a new mass spectrometer that combines a linear ion trap and an Orbitrap to create a hybrid tandem mass spectrometer. A digested submandibular/sublingual saliva sample was used for the analysis. We find the instrument is capable of mass resolution in excess of 40,000 and mass measurement accuracies of less than 2 ppm for the analysis of complex peptide mixtures. Such high mass accuracy allowed the elimination of virtually any false positive peptide identifications, suggesting that peptides that do not match the specificity of the protease used in the digestion of the sample should not automatically be considered as false positives. Tandem mass spectra from the linear ion trap and from the Orbitrap have very similar ion abundance ratios. We conclude this instrument will be well suited for shotgun proteomic types of analyses.
对消化后的复杂蛋白质混合物进行蛋白质组学分析已成为鉴定参与生物过程的蛋白质的一种有用策略。我们评估了一种新型质谱仪的使用，该质谱仪结合了线性离子阱和轨道阱，以创建一种混合串联质谱仪。使用消化后的下颌下/舌下唾液样本进行分析。我们发现该仪器能够对复杂肽混合物进行分析，质量分辨率超过40000，质量测量精度小于2 ppm。如此高的质量精度几乎消除了任何假阳性肽鉴定结果，这表明与样品消化过程中使用的蛋白酶特异性不匹配的肽不应自动被视为假阳性。线性离子阱和轨道阱的串联质谱图具有非常相似的离子丰度比。我们得出结论，该仪器将非常适合鸟枪法蛋白质组学类型的分析。
