Enhanced Characterization of Singly Protonated Phosphopeptide Ions by Femtosecond Laser-induced Ionization/Dissociation Tandem Mass Spectrometry (fs-LID-MS/MS)

Journal of the American Society for Mass Spectrometry

Volumn 21, Issue 12, 2010, Pages 2031-2040

  Smith, Scott A ^a   Kalcic, Christine L ^a   Safran, Kyle A ^a   Stemmer, Paul M ^b   Dantus, Marcos ^a   Reid, Gavin E ^a,c  

^a MICHIGAN STATE UNIVERSITY   (United States)

^b WAYNE STATE UNIVERSITY   (United States)

^c Michigan State University   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

CELLULAR FUNCTION; COLLISION-INDUCED DISSOCIATION; ELECTRON-TRANSFER DISSOCIATION; FEMTO-SECOND LASER; ION ACTIVATION; PHOSPHATE GROUP; PHOSPHOPEPTIDE ANALYSIS; PHOSPHOPEPTIDE ION; PHOSPHOPEPTIDES; PHOSPHORYLATION SITES; POST-TRANSLATIONAL MODIFICATIONS; PROTONATED; SEQUENCE IDENTIFICATION; SITE-SPECIFIC; STRUCTURAL INFORMATION; TANDEM MASS SPECTROMETRY;

ACTIVATION ANALYSIS; DISSOCIATION; MASS SPECTROMETRY; PHOSPHORYLATION; PROTONATION; PULSED LASER APPLICATIONS; ULTRASHORT PULSES;

IONS;

PHOSPHATE; PHOSPHOPEPTIDE;

AMINO ACID SEQUENCE; ARTICLE; COLLISIONALLY ACTIVATED DISSOCIATION; DISSOCIATION; ELECTRON TRANSFER DISSOCIATION; FEMTOSECOND LASER INDUCED DISSOCIATION; PROTEIN PHOSPHORYLATION; PROTEOMICS; PROTON TRANSPORT; TANDEM MASS SPECTROMETRY;

AMINO ACID SEQUENCE; LASERS; MOLECULAR SEQUENCE DATA; PHOSPHOPEPTIDES; PROTEOMICS; SEQUENCE ANALYSIS, PROTEIN; SPECTROMETRY, MASS, ELECTROSPRAY IONIZATION; TANDEM MASS SPECTROMETRY;

EID: 78649529321     PISSN: 10440305     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.jasms.2010.08.016     Document Type: Article

References (41)

1. Cohen P. The Regulation of Protein Function by Multisite Phosphorylation-a 25 Year Update. Trends Biochem. Sci. 2000, 25:596-601.
2. Bode A.M., Dong Z. Post-Translational Modification of p53 in Tumorigenesis. Nat. Rev. Cancer 2004, 4:793-805.
3. Mazanetz M.P., Fischer P.M. Untangling τ Hyperphosphorylation in Drug Design for Neurodegenerative Diseases. Nat. Rev. Drug Discov. 2007, 6:464-479.
4. Gong C.-X., Liu F., Grundke-Iqbal I., Iqbal K. Dysregulation of Protein Phosphorylation/Dephosphorylation in Alzheimer's Disease: A Therapeutic Target. J. Biomed. Biotechnol. 2006, 2006:1-11.
5. Paradela A., Albar J.P. Advances in the Analysis of Protein Phosphorylation. J. Prot. Res. 2008, 7:1809-1818.
6. Boersema P.J., Mohammed S., Heck A.J.R. Phosphopeptide Fragmentation and Analysis by Mass Spectrometry. J. Mass Spectrom. 2009, 44:861-878.
7. Palumbo A.M., Smith S.A., Kalcic C.L., Dantus M., Stemmer P.M., Reid G.E. Tandem Mass Spectrometry Strategies for Phosphoproteome Analysis. Mass Spectrom. Rev. 2010, in Press.
8. Dunn J.D., Reid G.E., Bruening M.L. Enrichment of Phosphopeptides Prior to Analysis by Mass Spectrometry. Mass Spectrom. Rev. 2010, 29:29-54.
9. Olsen J.V., Blagoev B., Gnad F., Macek B., Kumar C., Mortensen P., Mann M. Global, In Vivo and Site-Specific Phosphorylation Dynamics in Signaling Networks. Cell 2006, 127:635-648.
10. Beausoleil S.A., Villén J., Gerber S.A., Rush J., Gygi S.P. A Probability-Based Approach for High-Throughput Protein Phosphorylation Analysis and Site Localization. Nat. Biotechnol. 2006, 24:1285-1292.
11. Palumbo A.M., Tepe J.J., Reid G.E. Mechanistic Insights into the Multistage Gas-Phase Fragmentation Behavior of Phosphoserine- and Phosphothreonine-containing Peptides. J. Protein Res. 2008, 7:771-779.
12. 3. Anal. Chem. 2008, 80:9735-9747.
13. Sweet S.M.M., Creese A.J., Cooper H.J. Strategy for the Identification of Sites of Phosphorylation in Proteins: Neutral Loss Triggered Electron Capture Dissociation. Anal. Chem. 2006, 78:7563-7569.
14. Aguiar M., Haas W., Beausoleil S.A., Rush J., Gygi S.P. Gas-Phase Rearrangements Do Not Affect Site Localization Reliability in Phosphoproteomics Data Sets. J. Proteome Res. 2010, 9:3103-3107.
15. Mischerikow N., Altelaar A.F.M., Navarro J.D., Mohammed S., Heck A. Comparative Assessment of Site Assignments in CID and ETD Spectra of Phosphopeptides Discloses Limited Relocation of Phosphate Groups. Mol. Cell. Proteom. 2010, in press. 10.1074/mcp.M900619-MCP200.
16. Sweet S.M.M., Bailey C.M., Cunningham D.L., Heath J.K., Cooper H.J. Large Scale Localization of Protein Phosphorylation by Use of Electron Capture Dissociation Mass Spectrometry. Mol. Cell. Proteom. 2009, 8:904-912.
17. Syka J.E.P., Coon J.J., Schroeder M.J., Shabanowitz J., Hunt D.F. Peptide and Protein Sequence Analysis by Electron Transfer Dissociation Mass Spectrometry. Proc. Natl. Acad. Sci. U.S.A. 2004, 101:9528-9533.
18. Molina H., Horn D.M., Tang N., Mathivanan S., Pandey A. Global Proteomic Profiling of Phosphopeptides Using Electron Transfer Dissociation Tandem Mass Spectrometry. Proc. Natl. Acad. Sci. U.S.A. 2007, 104:2199-2204.
19. Swaney D.L., Wenger C.D., Thomson J.A., Coon J.J. Human Embryonic Stem Cell Phosphoproteome Revealed by Electron Transfer Dissociation Tandem Mass Spectrometry. Proc. Natl. Acad. Sci. U.S.A. 2009, 106:995-1000.
20. Chalkley R.J., Medzihradszky K.F., Lynn A.J., Baker P.R., Burlingame A.L. Statistical Analysis of Peptide Electron Transfer Dissociation Fragmentation Mass Spectrometry. Anal. Chem. 2010, 82:579-584.
21. McLuckey S.A., Huang T.Y. Ion/Ion Reactions: New Chemistry for Analytical MS. Anal. Chem. 2009, 81:8669-8676.
22. Jackson S.N., Wang H.Y.J., Yergey A., Woods A.S. Phosphate Stabilization of Intermolecular Interactions. J. Proteome Res. 2006, 5:122-126.
23. Swaney D.L., McAlister G.C., Wirtala M., Schwartz J.C., Syka J.E.P., Coon J.J. Supplemental Activation Method for High-Efficiency Electron-Transfer Dissociation of Doubly Protonated Peptide Precursors. Anal. Chem. 2007, 79:477-485.
24. Brodbelt J.S., Wilson J.J. Infrared Multiphoton Dissociation in Quadrupole Ion Traps. Mass Spectrom. Rev. 2009, 28:390-424.
25. Reilly J.P. Ultraviolet Photofragmentation of Biomolecular Ions. Mass Spectrom. Rev. 2009, 28:425-447.
26. Ly T., Julian R.R. Ultraviolet Photodissociation: Developments Towards Applications for Mass-Spectrometry-Based Proteomics. Angew. Chem. Int. Ed. 2009, 48:7130-7137.
27. Shin Y.S., Moon J.H., Kim M.S. Observation of Phosphorylation Site-Specific Dissociation of Singly Protonated Phosphopeptides. J. Am. Soc. Mass Spectrom. 2010, 21:53-59.
28. Kim T.-Y., Reilly J.P. Time-Resolved Observation of Product Ions Generated by 157 nm Photodissociation of Singly Protonated Phosphopeptides. J. Am. Soc. Mass Spectrom. 2009, 20:2334-2341.
29. Kalcic C.L., Gunaratne T., Jones A.D., Dantus M., Reid G.E. Femtosecond Laser-induced Ionization/Dissociation of Protonated Peptides. J. Am. Chem. Soc. 2009, 131:940-942.
30. Zewail A.H. Femtochemistry: Atomic-Scale Dynamics of the Chemical Bond Using Ultrafast Laser. Angew. Chem. Int. Ed. 2000, 39:2586-2631.
31. Budnik B.A., Tsybin Y.O., Hakansson P., Zubarev R.A. Ionization Energies of Multiply Protonated Polypeptides Obtained by Tandem Ionization in Fourier Transform Mass Spectrometers. J. Mass Spectrom. 2002, 37:1141-1144.
32. Cook S.L., Collin O.L., Jackson G.P. Metastable Atom-Activated Dissociation Mass Spectrometry: Leucine/Isoleucine Differentiation and Ring Cleavage of Proline Residues. J. Mass Spectrom. 2009, 44:1211-1223.
33. Berkout V.D., Doroshenko V.M. Fragmentation of Phosphorylated and Singly Charged Peptide Ions Via Interaction with Metastable Atoms. Int. J. Mass Spectrom. 2008, 278:150-157.
34. Coello Y., Lozovoy V.V., Gunaratne T.C., Xu B., Borukhovich I., Tseng C.-h., Weinacht T., Dantus M. Interference Without an Interferometer: A Different Approach to Measuring, Compressing, and Shaping Ultrashort Laser Pulses. J. Opt. Soc. Am. B 2008, 25:A140-A150.
35. Medzihradszky K.F., Burlingame A.L. The Advantages and Versatility of a High-Energy Collision-Induced Dissociation-Based Strategy for the Sequence and Structural Determination of Proteins. Methods 1994, 6:284-303.
36. Laskin J., Bailey T.H., Futrell J.H. Shattering of Peptide Ions on Self-Assembled Monolayer Surfaces. J. Am. Chem. Soc. 2003, 125:1625-1632.
37. Cui W.D., Thompson M.S., Reilly J.P. Pathways of Peptide Ion Fragmentation Induced by Vacuum Ultraviolet Light. J. Am. Soc. Mass Spectrom. 2005, 16:1384-1398.
38. Fung Y.M.E., Adams C.M., Zubarev R.A. Electron Ionization Dissociation of Singly and Multiply Charged Peptides. J. Am. Chem. Soc. 2009, 131:9977-9985.
39. Cooper H.J., Hudgins R.R., Hakansson K., Marshall A.G. Characterization of Amino Acid Side Chain Losses in Electron Capture Dissociation. J. Am. Soc. Mass Spectrom. 2002, 13:241-249.
40. Good D.M., Wenger C.D., McAlister G.C., Bai D.L., Hunt D.F., Coon J.J. Post-Acquisition ETD Spectral Processing for Increased Peptide Identifications. J. Am .Soc. Mass Spectrom. 2009, 8:1435-1440.
41. Kjeldsen F., Silivram O.A., Zubarev R.A. Zwitterionic States in Gas-Phase Polypeptide Ions Revealed by 157-nm Ultra-Violet Photodissociation. Chem. Eur. J. 2006, 12:7920-7928.