离子化辅助电子转移解离可提高电子转移解离在复杂混合物中鉴定肽段的能力。
Activated-ion electron transfer dissociation improves the ability of electron transfer dissociation to identify peptides in a complex mixture.
机构信息
Department of Chemistry, University of Wisconsin, Madison, Wisconsin 53706, United States.
出版信息
Anal Chem. 2010 Dec 15;82(24):10068-74. doi: 10.1021/ac1020358. Epub 2010 Nov 9.
Abstract
Using a modified electron transfer dissociation (ETD)-enabled quadrupole linear ion trap (QLT) mass spectrometer, we demonstrate the utility of IR activation concomitant with ETD ion-ion reactions (activated-ion ETD, AI-ETD). Analyzing 12 strong cation exchanged (SCX) fractions of a LysC digest of human cell protein extract using ETD, collision-activated dissociation (CAD), and AI-ETD, we find that AI-ETD generates 13 405 peptide spectral matches (PSMs) at a 1% false-discovery rate (1% FDR), surpassing both ETD (7 968) and CAD (10 904). We also analyze 12 SCX fractions of a tryptic digest of human cell protein extract and find that ETD produces 6 234 PSMs, AI-ETD 9 130 PSMs, and CAD 15 209 PSMs. Compared to ETD with supplemental collisional activation (ETcaD), AI-ETD generates ∼80% more PSMs for the whole cell lysate digested with trypsin and ∼50% more PSMs for the whole cell lysate digested with LysC.
摘要
利用改进的电子转移解离（ETD）功能的四极线性离子阱（QLT）质谱仪，我们展示了 IR 激活伴随 ETD 离子-离子反应（活化离子 ETD，AI-ETD）的实用性。通过 ETD、碰撞激活解离（CAD）和 AI-ETD 分析人细胞蛋白提取物 LysC 消化物的 12 个强阳离子交换（SCX）级分，我们发现 AI-ETD 在 1%假发现率（1% FDR）下生成 13405 个肽谱匹配（PSM），超过 ETD（7968）和 CAD（10904）。我们还分析了人细胞蛋白提取物胰蛋白酶消化物的 12 个 SCX 级分，发现 ETD 产生 6234 个 PSM，AI-ETD 产生 9130 个 PSM，CAD 产生 15209 个 PSM。与带有补充碰撞激活（ETcaD）的 ETD 相比，AI-ETD 对胰蛋白酶消化的整个细胞裂解物产生的 PSM 增加了约 80%，对 LysC 消化的整个细胞裂解物产生的 PSM 增加了约 50%。
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本文引用的文献
1
Principles of collisional activation in analytical mass spectrometry.分析质谱中碰撞激活的原理。
J Am Soc Mass Spectrom. 1992 Sep;3(6):599-614. doi: 10.1016/1044-0305(92)85001-Z.
2
Phosphoproteomics for the masses.面向大众的磷酸化蛋白质组学。
ACS Chem Biol. 2010 Jan 15;5(1):105-19. doi: 10.1021/cb900277e.
3
Analysis of tandem mass spectra by FTMS for improved large-scale proteomics with superior protein quantification.利用傅里叶变换质谱分析串联质谱，提高大规模蛋白质组学的蛋白质定量分析水平。
Anal Chem. 2010 Jan 1;82(1):316-22. doi: 10.1021/ac902005s.
4
Infrared photoactivation reduces peptide folding and hydrogen-atom migration following ETD tandem mass spectrometry.红外光活化可减少电子转移解离串联质谱分析后的肽折叠和氢原子迁移。
Angew Chem Int Ed Engl. 2009;48(45):8526-8. doi: 10.1002/anie.200903557.
5
Infrared multiphoton dissociation of peptide cations in a dual pressure linear ion trap mass spectrometer.在双压线性离子阱质谱仪中肽阳离子的红外多光子解离
Anal Chem. 2009 Oct 1;81(19):8109-18. doi: 10.1021/ac901313m.
6
Optimized Orbitrap HCD for quantitative analysis of phosphopeptides.用于磷酸肽定量分析的优化轨道阱高能碰撞解离技术
J Am Soc Mass Spectrom. 2009 Aug;20(8):1425-34. doi: 10.1016/j.jasms.2009.03.019. Epub 2009 Mar 28.
7
Mapping the distribution of ion positions as a function of quadrupole ion trap mass spectrometer operating parameters to optimize infrared multiphoton dissociation.绘制离子位置分布与四极杆离子阱质谱仪操作参数的函数关系图，以优化红外多光子解离。
J Phys Chem A. 2009 Apr 16;113(15):3447-54. doi: 10.1021/jp808955w.
8
Human embryonic stem cell phosphoproteome revealed by electron transfer dissociation tandem mass spectrometry.通过电子转移解离串联质谱法揭示的人类胚胎干细胞磷酸化蛋白质组
Proc Natl Acad Sci U S A. 2009 Jan 27;106(4):995-1000. doi: 10.1073/pnas.0811964106. Epub 2009 Jan 14.
9
Electron capture and transfer dissociation: Peptide structure analysis at different ion internal energy levels.电子捕获与转移解离：不同离子内能水平下的肽结构分析。
J Am Soc Mass Spectrom. 2009 Apr;20(4):567-75. doi: 10.1016/j.jasms.2008.11.016. Epub 2008 Nov 27.
10
Comparison of MS(2)-only, MSA, and MS(2)/MS(3) methodologies for phosphopeptide identification.仅采用MS(2)、多反应监测（MSA）以及MS(2)/MS(3)方法进行磷酸化肽段鉴定的比较。
J Proteome Res. 2009 Feb;8(2):887-99. doi: 10.1021/pr800535h.
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