Online microwave D-cleavage LC-ESI-MS/MS of intact proteins: Site-specific cleavages at aspartic acid residues and disulfide bonds

Journal of Proteome Research

Volumn 7, Issue 3, 2008, Pages 1012-1026

  Hauser, Nicolas J ^a   Basile, Franco ^a  

^a UNIVERSITY OF WYOMING   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

ASPARTIC ACID; DITHIOTHREITOL; DISULFIDE; PROTEIN;

ARTICLE; BACTERIAL CELL; CELL LYSATE; DATA BASE; DISULFIDE BOND; ELECTROSPRAY MASS SPECTROMETRY; ESCHERICHIA COLI; FLOW RATE; INSTRUMENTATION; LIQUID CHROMATOGRAPHY; MASS SPECTROMETRY; MATRIX ASSISTED LASER DESORPTION IONIZATION TIME OF FLIGHT MASS SPECTROMETRY; MICROWAVE RADIATION; NONHUMAN; PRIORITY JOURNAL; PROTEIN ANALYSIS; REDUCTION; REVERSED PHASE LIQUID CHROMATOGRAPHY; STANDARD; AMINO ACID SEQUENCE; CHEMISTRY; HYDROLYSIS; METHODOLOGY; MOLECULAR GENETICS; TANDEM MASS SPECTROMETRY;

BACTERIA (MICROORGANISMS); BOVINAE; ESCHERICHIA COLI;

AMINO ACID SEQUENCE; ASPARTIC ACID; DISULFIDES; HYDROLYSIS; MICROWAVES; MOLECULAR SEQUENCE DATA; PROTEINS; SPECTROMETRY, MASS, ELECTROSPRAY IONIZATION; SPECTROMETRY, MASS, MATRIX-ASSISTED LASER DESORPTION-IONIZATION; TANDEM MASS SPECTROMETRY;

EID: 44449120453     PISSN: 15353893     EISSN: None     Source Type: Journal    
DOI: 10.1021/pr700596e     Document Type: Article

References (50)

1. Fenn, J. B.; Mann, M.; Meng, C. K.; Wong, S. F.; Whitehouse, C. M. Electrospray ionization-principles and practice. Mass Spectrom. Rev. 1990, 9 (1), 37-70.
2. Smith, R. D.; Loo, J. A.; Edmonds, C. G.; Barinaga, C. J.; Udseth, H. R. New developments in biochemical mass spectrometry: electrospray ionization. Anal. Chem. 1990, 62 (9), 882-99.
3. Mann, M.; Fenn, J. B. Electrospray mass spectrometry: principles and methods. Mass Spectrom. 1992, 1, 1-35.
4. Karas, M.; Hillenkamp, F. Laser desorption ionization of proteins with molecular masses exceeding 10,000 daltons. Anal. Chem. 1988, 60 (20), 2299-301.
5. Karas, M.; Bahr, U.; Ingendoh, A.; Hillenkamp, F. Laser-desorption mass spectrometry of 100,000-250,000-Dalton proteins. Angew. Chem. 1989, 101 (6), 805-6.
6. Yates, J. R., III; Eng, J. K.; McCormack, A. L. Mining genomes: correlating tandem mass spectra of modified and unmodified peptides to sequences in nucleotide databases. Anal. Chem. 1995, 67 (18), 3202-10.
7. Mortz, E.; Vorm, O.; Mann, M.; Roepstorff, P. Identification of proteins in polyacrylamide gels by mass spectrometric peptide mapping combined with database search. Biol. Mass Spectrom. 1994, 23 (5), 249-61.
8. Goodlett, D. R.; Bruce, J. E.; Anderson, G. A.; Rist, B.; Pasa-Tolic, L.; Fiehn, O.; Smith, R. D.; Aebersold, R. Protein Identification with a Single Accurate Mass of a Cysteine-Containing Peptide and Constrained Database Searching. Anal. Chem. 2000, 72 (6), 1112-1118.
9. Aebersold, R.; Mann, M. Mass spectrometry-based proteomics. Nature 2003, 422 (6928), 198-207.
10. Yates, J. R., III; Speicher, S.; Griffin, P. R.; Hunkapiller, T. Peptide mass maps: a highly informative approach to protein identification. Anal. Biochem. 1993, 214 (2), 397-408.
11. Wolters, D. A.; Washburn, M. P.; Yates, J. R., III. An automated multidimensional protein identification technology for shotgun proteomics. Anal. Chem. 2001, 73 (23), 5683-90.
12. Caprioli, R. M.; Moore, W. T.; DaGue, B.; Martin, M. Microbore high-performance liquid chromatography-mass spectrometry for the analysis of proteolytic digests by continuous-flow fast-atom bombardment mass spectrometry. J. Chromatogr. 1988, 443, 355-62.
13. Yates, J. R., III. Mass spectrometry and the age of the proteome. J.Mass Spectrom. 1998, 33 (1), 1-19.
14. Ducret, A.; Van Oostveen, I.; Eng, J. K.; Yates, J. R., III; Aebersold, R. High throughput protein characterization by automated reverse-phase chromatography/electrospray tandem mass spectrometry. Protein Sci. 1998, 7 (3), 706-719.
15. Burns, J. A.; Butler, J. C; Moran, J.; Whitesides, G. M. Selective reduction of disulfides by tris(2-carboxyethyl)phosphine. J. Org. Chem. 1991, 56 (8), 2648-50.
16. Gray, W. R. Disulfide structures of highly bridged peptides: A new strategy for analysis. Protein Sci. 1993, 2 (10), 1732-48.
17. Getz, E. B.; Xiao, M.; Chakrabarty, T.; Cooke, R.; SeMn, P. R. A Comparison between the Sulfhydryl Reductants Tris(2-carboxy-ethyl)phosphine and Dithiothreitol for Use in Protein Biochemistry. Anal. Biochem. 1999, 273 (1), 73-80.
18. Cline, D. J.; Redding, S. E.; Brohawn, S. G.; Psathas, J. N.; Schneider, J. P.; Thorpe, C. New Water-Soluble Phosphines as Reductants of Peptide and Protein Disulfide Bonds: Reactivity and Membrane Permeability. Biochemistry 2004, 43 (48), 15195-15203.
19. Emmanuel, F.; Turpin, E.; Alfsen, A.; Frenoy, J. P. Separation of ricin A- and B-chains after dithiothreitol reduction. Anal. Biochem. 1988, 173 (1), 134-41.
20. Huang, J.; Whitman, S. Acidic dithiothreitol reduction on disulfide bonds using cation-exchange chromatography. J. Liquid Chro-matogr. Related Technol. 2006, 29 (17), 2513-2520.
21. Thevis, M.; Loo, R. R. O.; Loo, J. A. In-gel derivatization of proteins for cysteine-specific cleavages and their analysis by mass spectrometry. J. Proteome Res. 2003, 2 (2), 163-172.
22. Kato, M.; Sakai-Kato, K.; Jin, H.; Kubota, K.; Miyano, H.; Toyo'oka, T.; Dulay, M. T.; Zare, R. N. Integration of on-line protein digestion, peptide separation, and protein identification using pepsin-coated photopolymerized sol-gel columns and capillary electrophoresis/mass spectrometry. Anal. Chem. 2004, 76 (7), 1896-1902.
23. Amankwa, L. N.; Kuhr, W. G. Trypsin-modined-fused-silica capillary microreactor for peptide mapping by capillary zone electrophoresis. Anal. Chem. 1992, 64 (14), 1610-13.
24. Zhao, C; Jiang, H.; Smith, D. R.; Bruckenstein, S.; Wood, T. D. Integration of an on-line protein digestion microreactor to a nanoelectrospray emitter for peptide mapping. Anal. Biochem. 2006, 359 (2), 167-175.
25. Kato, M.; Sakai-Kato, K.; Matsumoto, N.; Toyo'oka, T. A protein-encapsulation technique by the sol-gel method for the preparation of monolithic columns for capillary electrochromatography. Anal. Chem. 2002, 74 (8), 1915-1921.
26. Sakai-Kato, K.; Kato, M.; Toyo'oka, T. On-line trypsin-encapsulated enzyme reactor by the sol-gel method integrated into capillary electrophoresis. Ana. Chem. 2002, 74 (13), 2943-2949.
27. Schultz, J.; Allison, H.; Grice, M. Specificity of the cleavage of proteins by dilute acid. I. Release of aspartic acid from insulin, ribonuclease, and glucagon. Biochemistry 1962, 1, 694-8.
28. Inglis, A. S. Cleavage at aspartic acid. Methods Enzymol. 1983, 91 (Enzyme Struct., Pt. I), 324-32.
29. Xie, M.; Vander Velde, D.; Morton, M.; Borchardt, R. T.; Schowen, R. L. pH-Induced Change in the Rate-Determining Step for the Hydrolysis of the Asp/Asn-Derived Cyclic-Imide Intermediate in Protein Degradation. J. Am. Chem. Soc. 1996, 118 (37), 8955-8956.
30. Li, A.; Sowder, R. C, II; Henderson, L. E.; Moore, S. P.; Garfinkel, D. J.; Fisher, R. J. Chemical cleavage at aspartyl residues for protein identification. Anal. Chem. 2001, 73 (22), 5395-5402.
31. Zubarev, R. A.; Chivanov, V. D.; Hakansson, P.; Sundqvist, B. U. Peptide sequencing by partial acid hydrolysis and high resolution plasma desorption mass spectrometry. Rapid Commun. Mass Spectrom. 1994, 8 (11), 906-12.
32. Vorm, O.; Roepstorff, P. Peptide sequence information derived by partial acid hydrolysis and matrix-assisted laser desorption/ionization mass spectrometry. Biol. Mass Spectrom. 1994, 23 (12), 734-40.
33. Tsugita, A.; Takamoto, K.; Kamo, M.; Iwadate, H. C-terminal sequencing of protein. A novel partial acid hydrolysis and analysis by mass spectrometry. Eur. J. Biochem. 1992, 206 (3), 691-6.
34. Basile, F.; Hauser, N. J. In Development of a Rapid Non-Enzymatic Cell Digestion Procedure for Proteomic Based Microbial Identification: Site-Specific Digestion at Aspartyl Residue by Microwave Heating-Mild Acid Hydrolysis, International Symoposium on the Interface Between Analytical Chemistry and Microbiology, Pacific Northwest National Labortory, 2003;Pacific Northwest National Labortory, 2003.
35. Hauser, N. J.; Basile, F. In Development of a Rapid Non-Enzymatic Cell Digestion Procedure for Proteomics Based Microorganism Identification: Site-Specific Digestion at Aspartyl Residue by Microwave Heating - Mild Acid Hydrolysis; 52nd ASMS Meeting, Nashville, TN, 2004; Nashville, TN, 2004.
36. Zhong, H.; Marcus, S. L.; Li, L. Microwave-assisted acid hydrolysis of proteins combined with liquid chromatography MALDI MS/MS for protein identification. J. Am. Soc. Mass Spectrom. 2005, 16 (4), 471-481.
37. Bose, A. K.; Ing, Y. H.; Lavlinskaia, N.; Sareen, C; Pramanik, B. N.; Bartner, P. L; Liu, Y.-H.; Heimark, L. Microwave enhanced Akabori reaction for peptide analysis. J. Am. Soc. Mass Spectrom. 2002, 13 (7), 839-850.
38. Pramanik, B. N.; Mirza, U. A.; Ing, Y. H.; Liu, Y.-H.; Banner, P. L.; Weber, P. C; Bose, A. K. Microwave-enhanced enzyme reaction for protein mapping by mass spectrometry: a new approach to protein digestion in minutes. Protein Sci. 2002, 11 (11), 2676-2687.
39. Lin, S.-S.; Wu, C.-H.; Sun, M.-C; Sun, C.-M.; Ho, Y.-P. Microwave-assisted enzyme-catalyzed reactions in various solvent systems. J. Am. Soc. Mass Spectrom. 2005, 16 (4), 581-588.
40. Swatkoski, S.; Russell, S.; Edwards, N.; Fenselau, C. Analysis of a Model Virus Using Residue-Specific Chemical Cleavage and MALDI-TOF Mass Spectrometry. Anal. Chem. 2007, 79 (2), 654-658.
41. Lill, J. R.; Ingle, E. S.; Liu, P. S.; Pham, V; Sandoval, W. N. Microwave-assisted proteomics. Mass Spectrom. Rev. 2007, 26 (5), 657-71.
42. Swatkoski, S.; Russell, S. C; Edwards, N.; Fenselau, C. Rapid Chemical Digestion of Small Acid-Soluble Spore Proteins for Analysis of Bacillus Spores. Anal. Chem. 2006, 78 (1), 181-188.
43. Hansen, R. E.; Ostergaard, H.; Norgaard, P.; Winther, J. R. Quantification of protein thiols and dithiols in the picomolar range sing sodium borohydride and 4,4'-dithiodipyridine. Anal. Biochem. 2007, 363 (1), 77-82.
44. Flory, P. J. Theory of elastic mechanisms in fibrous proteins. J. Am. Chem. Soc. 1956, 78, 5222-35.
45. 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 (26), 9528-9533.
46. Wu, S.-L.; Huehmer, A. F. R.; Hao, Z.; Karger, B. L., On-Line LC-MS Approach Combining Collision-Induced Dissociation (CID), Electron-Transfer Dissociation (ETD), and CID of an Isolated Charge-Reduced Species for the Trace-Level Characterization of Proteins with Post-Translational Modifications. J. Proteome Res. 2007, Published on Web 2-2007, ACS ASAP.
47. Zhang, S.; Basile, F. Site-Specific Pyrolysis-Induced Cleavage at Aspartic Acid Residue in Peptides and Proteins. J. Proteome Res. 2007, 6 (5), 1700-1704.
48. Zubarev, R. A.; Horn, D. M.; Fridriksson, E. K.; Kelleher, N. L.; Kruger, N. A.; Lewis, M. A.; Carpenter, B. K.; McLafferty, F. W. Electron capture dissociation for structural characterization of multiply charged protein cations. Anal. Chem. 2000, 72 (3), 563-73.
49. Coon, J. J.; Ueberheide, B.; Syka, J. E. P.; Dryhurst, D. D.; Ausio, J.;Shabanowitz, J.; Hunt, D. F. Protein identification using sequential ion/ion reactions and tandem mass spectrometry. Proc. Natl. Acad.Sci. U.SA. 2005, 102 (27), 9463-9468.
50. Pitteri, S. J.; Chrisman, P. A.; Hogan, J. M.; McLuckey, S. A. Electron Transfer Ion/Ion Reactions in a Three-Dimensional Quadrupole Ion Trap: Reactions of Doubly and Triply Protonated Peptides with SO2.-. Anal. Chem. 2005, 77 (6), 1831-1839.