The role of electron capture dissociation in biomolecular analysis

Mass Spectrometry Reviews

Volumn 24, Issue 2, 2005, Pages 201-222

  Cooper, Helen J ^a   Håkansson, Kristina ^b   Marshall, Alan G ^c,d  

^a UNIVERSITY OF BIRMINGHAM   (United Kingdom)

^b UNIVERSITY OF MICHIGAN   (United States)

^c FLORIDA STATE UNIVERSITY   (United States)

^d FLORIDA STATE UNIVERSITY   (United States)

Author keywords

ECD; Electron capture dissociation; FT MS; FTICR; Post translational modifications; Proteomics

Indexed keywords

ECD; ELECTRON CAPTURE DISSOCIATION (ECD); FT-ICR; FTICR; POST-TRANSLATIONAL MODIFICATIONS; PROTEOMICS;

BIOCHEMISTRY; CHARACTERIZATION; CHEMICAL MODIFICATION; CYCLOTRON RESONANCE; ELECTRONS; FOURIER TRANSFORMS; MOLECULAR STRUCTURE; OXIDATION; PHOTODISSOCIATION; PLASMAS; PROTEINS;

MASS SPECTROMETRY;

PROTEIN;

CYCLOTRON; ELECTROSPRAY MASS SPECTROMETRY; INFRARED SPECTROSCOPY; METHODOLOGY; PROTEIN PROCESSING; PROTEOMICS; REVIEW;

CYCLOTRONS; PROTEIN PROCESSING, POST-TRANSLATIONAL; PROTEINS; PROTEOMICS; SPECTROMETRY, MASS, ELECTROSPRAY IONIZATION; SPECTROSCOPY, FOURIER TRANSFORM INFRARED;

EID: 14744299376     PISSN: 02777037     EISSN: None     Source Type: Journal    
DOI: 10.1002/mas.20014     Document Type: Review

References (173)

1. Andren P, Emmett MR, Caprioli RM. 1994. Micro-electrospray: Zeptomole/attomole per microliter sensitivity for peptides. J Am Soc Mass Spectrom 5:867-869.
2. Annan RS, Carr SA. 1996. Phosphopeptide analysis by MALDI TOP mass spectrometry. Anal Chem 68:3413.
3. Axelsson J, Palmblad M, Hakansson K, Hakansson P. 1999. ECD of substance P using a commercially available FTICR mass spectrometer. Rapid Commun Mass Spectrom 13:474-477.
4. Baba T, Black D, Glish GL. 2003. ECD coupled with a linear radio frequency quadrupole ion trap - time-of-flight mass spectrometer. Proceedings of 51st ASMS Conference on Mass Spectrometry and Allied Topics, Montreal, Canada.
5. Beu SC, Senko MW, Quinn JP, Wampler FM III, McLafferty FW. 1993. Fourier transform electrospray instrumentation for tandem high-resolution MS of large molecules. J Am Soc Mass Spectrom 4:557-565.
6. Biemann K. 1988. Contributions of mass spectrometry to peptide and protein structure. Biomed Environ Mass 16:99-111.
7. Biemann K, Martin SA. 1987. MS/MS of peptides. Mass Spectrom Rev 6:1-76.
8. Breuker K, Oh H, Cerda B, Horn DM, McLafferty FW. 2002a. Hydrogen atom loss in ECD: A Fourier transform ion cyclotron resonance study with single isotopomeric ions. Eur J Mass Spectrom 8:177-180.
9. Breuker K, Oh H, Horn DM, Cerda B, McLafferty FW. 2002b. Detailed unfolding and folding of gaseous ubiquitin ions characterized by electron capture dissociation. J Am Chem Soc 124:6407-6420.
10. Budnik BA, Haselmann KF, Zubarev RA. 2000. Electron detachment dissociation of peptide di-anions: An electron-hole recombination phenomenon. Chem Phys Lett 342:299-302.
11. 2+• ion production from protonated polypeptides by electron impact: Observation and determination of ionization energies and a cross-section. Chem Phys Lett 316:19-23.
12. Budnik BA, Tsybin YO, Hakansson P, Zubarev RA. 2002. Ionization energies of multiply protonated polypeptides obtained by tandem ionization in Fourier transform mass spectrometers. J Mass Spectrom 37:1141-1144.
13. Burlingame AL. 1996. Characterization of protein glycosylation by mass spectrometry. Curr Opin Biotechnol 7:4-10.
14. Can SA, Huddleston MJ, Annan RS. 1996. Selective detection and sequencing of phosphopeptides at the femtomole level by mass spectrometry. Anal Biochem 239:180-192.
15. Cerda BA, Horn DM, Breuker K, Carpenter BK, McLafferty FW. 1999. Electron capture dissociation of multiply charged oxygenated cations. A Nonergodic process. Eur Mass Spectrom 5:335-338.
16. Cerda B, Breuker K, Horn DM, McLafferty FW. 2001. Charge/radical site initiation versus Coulombic repulsion for cleavage of multiply charged ions. Charge solvation in poly(alkene glycol) ions. J Am Soc Mass Spectrom 12:565-570.
17. Cerda BA, Horn DM, Breuker K, McLafferty FW. 2002. Sequencing of specific copolymer oligomers by electron capture dissociation mass spectrometry. J Am Chem Soc 124:9287-9291.
18. Chalmers MJ, Håkansson K, Johnson R, Smith R, Shen J, Emmett MR, Marshall AG. 2004. Protein kinase A phosphorylation characterized by tandem Fourier transform ion cyclotron resonance mass spectrometry. Proteomics 4:970-981.
19. Chan T-WD, Ip WHH. 2002. Optimization of experimental parameters for ECD of peptides in a Fourier transform mass spectrometer. J Am Soc Mass Spectrom 13:1396-1406.
20. Chen RD, Cheng XH, Mitchell DW, Hofstadler SA, Wu QY, Rockwood AL, Sherman MG, Smith RD. 1995. Trapping, detection, and mass determination of coliphage T4 DNA ions of 10(8) Da by electrospray-ionization Fourier-transform ion cyclotron resonance mass spectrometry. Anal Chem 67:1159-1163.
21. Chorush RA, Little DP, Beu SC, Wood TD, McLafferty FW. 1995. Surface induced dissociation of multiply protonated proteins. Anal Chem 67:1042-1046.
22. Cole ST, Brosch R, Parkhill, et al. 1998. Deciphering the biology of Mycobacterium tuberculosis from the completed genome sequence. Nature 393:537-544.
23. Comisarow MB, Marshall AG. 1974. Fourier transform ion cyclotron resonance spectroscopy. Chem Phys Lett 25:282-283.
24. Cooper HJ, Hudgins RR, Marshall AG. 2004. Electron capture dissociation of cyclodepsipeptides, branched peptides and ε-peptides. Int J Mass Spectrom 234:24-35.
25. Cooper HJ, Hudgins RR, Håkansson K, Marshall AG. 2002. Characterization of amino acid side chain losses in ECD. J Am Soc Mass Spectrom 13:241-249.
26. Cooper HJ, Case MA, McLendon GL, Marshall AG. 2003a. ESIFT-ICR mass spectrometric analysis of metal-ion selected dynamic protein libraries. J Am Chem Soc 125:5331-5339.
27. Cooper HJ, Håkansson K, Hudgins RR, Marshall AG, Haselmann KF, Budnik BA, Kjeldsen F, Polfer NC, Zubarev RA. 2003b. The diagnostic value of amino acid side-chain losses in electron capture dissociation of polypeptides. Eur J Mass Spectrom 9:221-222.
28. Cooper HJ, Hudgins RR, Håkansson K, Marshall AG. 2003c. Secondary fragmentation of linear peptides in electron capture dissociation. Int J Mass Spectrom 228:723-728.
29. Davidson W, Frego L. 2002. Micro-HPLC FTMS with ECD for the analysis of protein enzymatic digests. Rapid Commun Mass Spectrom 16:993-998.
30. Demirev PA, Ramirez J, Fenselau C. 2001. Tandem mass spectrometry of intact proteins for characterization of biomarkers from Bacillus cereus T spores. Anal Chem 73:5725-5731.
31. Dinner AR, Sali A, Smith LJ, Dobson CM, Karplus M. 2000. Understanding protein folding via free-energy surfaces from theory and experiment. Trends Biochem Sci 25:331-339.
32. Domon B, Costello CE. 1988. A systematic nomenclature for carbohydrate fragmentations in FAB MS/MS spectra of glycoconjugates. Glycoconj J 5:397-409.
33. Dunbar RC, McMahon TB. 1998. Activation of unimolecular reactions by ambient blackbody radiation. Science 279:194-197.
34. Eichmann ES, Brodbelt JS. 1993. Ion-molecule reactions and dissociation of glycols in a quadrupole ion trap mass spectrometer - Evidence of intramolecular interactions. Org Mass Spectrom 28:737-744.
35. Fagerquist CF, Hudgins RR, Emmett MR, Håkansson K, Marshall AG. 2003. An antibiotic linked to peptides and proteins is released by ECD FT-ICR MS. J Am Soc Mass Spectrom 14:302-310.
36. Fandrich M, Tito MA, Leroux MR, Rostrom AA, Hartl F, Dobson CM, Robinson CV. 2000. Observation of the noncovalent assembly and disassembly pathways of the chaperone complex MtGimC by mass spectrometry. Proc Natl Acad Sci 97:14151-14155.
37. Fenn JB, Mann M, Meng CK, Wong SF, Whitehouse CM. 1989. Electrospray ionization for mass spectrometry of large biomolecules. Science 246:64-71.
38. Flora JW, Muddiman DC. 1998. Comprehensive nomenclature for the fragment ions produced from collisional activation of peptide nucleic acids. Rapid Commun Mass Spectrom 12:759-762.
39. Flora JW, Muddiman DC. 2001. Selective, sensitive, and rapid phosphopeptide identification in enzymatic digests using ESI-FTICR-MS with infrared multiphoton dissociation. Anal Chem 73:3305-3331.
40. Ganesh KN, Nielsen PE. 2000. Peptide nucleic acids: Analogs and derivatives. Curr Org Chem 4:931-943.
41. Gauthier JW, Trautman TR, Jacobson DB. 1991. Sustained off-resonance irradiation for CAD involving FTMS. CAD technique that emulates infrared multiphoton dissociation. Anal Chim Acta 246:211-225.
42. Ge Y, Horn DM, McLafferty FW, 2001. BIRD of larger (42 kDa) multiply charged proteins. Int J Mass Spectrom 210(211):203-214.
43. Ge Y, Lawhorn BG, ElNaggar M, Strauss E, Park J-H, Begley T, McLafferty FW. 2002. Top down characterization of larger proteins by ECD mass spectrometry. J Am Chem Soc 124:672-678.
44. Ge Y, ElNaggar M, Sze SK, Oh H, Begley T, McLafferty FW. 2003. Top down characterization of secreted proteins from Mycobacterium tuberculosis by ECD mass spectrometry. J Am Soc Mass Spectrom 14:253-261.
45. Godovac-Zimmermann J, Brown L. 2001. Perspectives for mass spectrometry and functional proteomics. Mass Spectrom Rev 20:1-57.
46. Goletz S, Thiede B, Hanisch FG, Schultz M, Peter-Katalinic J, Muller S, Seitz O, Karsten U. 1997. A sequencing strategy for the localization of O-glycosylation sites of MUC1 tandem repeats by PSD-MALDI mass spectrometry. Glycobiology 7:881-896.
47. Green-Church KB, Limbach PA. 2000. Mononucleotide gas-phase proton affinities as determined by the kinetic method. J Am Soc Mass Spectrom 11:24-32.
48. Green-Church KB, Limbach PA, Freitas MA, Marshall AG. 2001. Gas-phase hydrogen/deuterium exchange of positively charged mononucleotides by use of Fourier-transform ion cyclotron resonance mass spectrometry. J Am Soc Mass Spectrom 12:268-277.
49. Guan Z. 2002. Identification and localization of the fatty acid modification in ghrelin by BCD. J Am Soc Mass Spectrom 13:1443-1447.
50. Guan Z, Yates NA, Bakhtiar R. 2003. Detection and characterization of methionine oxidation in peptides by CID and ECD. J Am Soc Mass Spectrom 14:605-613.
51. Håkansson K, Axelsson J, Palmblad M, Hakansson P. 2000. Mechanistic studies of multipole storage assisted dissociation. J Am Soc Mass Spectrom 11:210-217.
52. Håkansson K, Cooper HJ, Emmett MR, Costello CE, Marshall AG, Nilsson CL. 2001. ECD and IRMPD MS/MS of an N-glycosylated tryptic peptide to yield complementary sequence information. Anal Chem 73:4530-4536.
53. Håkansson K, Emmett MR, Hendrickson CL, Marshall AG. 2001b. High sensitivity ECD tandem FTICR mass spectrometry of microelectros-prayed peptides. Anal Chem 73:3605-3610.
54. Håkansson K, Chalmers MJ, Quinn JP, McFarland MA, Hendrickson CL, Marshall AG. 2003a. Combined ECD and IRMPD for multistage MS/MS in a FTICR mass spectrometer. Anal Chem 75:3256-3262.
55. Håkansson K, Hudgins RR, Marshall AG, O'Hair RAJ. 2003b. Electron capture dissociation and infrared multiphoton dissociation of oligo-deoxynucleotide dications. J Am Soc Mass Spectrom 14:23-41.
56. Hanisch FG, Green BN, Bateman RH, Peter-Katalinic J. 1998. Localization of O-glycosylation sites of MUC1 tandem repeats by QTOF ESI mass spectrometry. J Mass Spectrom 33:358-362.
57. Hanton SD. 2001. Mass spectrometry of polymers and polymer surfaces. Chem Rev 101:527-569.
58. Haselmann KF, Budnik BA, Zubarev RA. 2000. Electron capture dissociation of b2+ peptide fragments reveals the presence of the acylium ion structure. Rapid Commun Mass Spectrom 14:2242-2246.
59. Haselmann KF, Budnik BA, Olsen JV, Nielsen ML, Reis CA, Clausen H, Johnsen AH, Zubarev RA. 2001. Advantages of external accumulation for ECD in FTMS. Anal Chem 73:2998-3005.
60. Haselmann KF, Budnik BA, Kjeldsen F, Nielsen ML, Olsen JV, Zubarev RA. 2002a. Electronic excitation gives informative fragmentation of polypeptide cations and anions. Eur J Mass Spectrom 8:117-121.
61. Haselmann KF, Budnik BA, Kjeldsen F, Polfer NC, Zubarev RA. 2002b. Can the (m-X) region in electron capture dissociation provide reliable information on amino acid composition of polypeptides? Eur J Mass Spectrom 8:461-469.
62. Haselmann KF, Jorgensen TJD, Budnik BA, Jensen F, Zubarev RA. 2002c. ECD of weakly bound polypeptide polycationic complexes. Rapid Commun Mass Spectrom 16:2260-2265.
63. Heck AJR, Derrick PJ. 1998. Selective fragmentation of single isotopic ions of proteins up to 17kDa using 9.4T FTICR. Eur Mass Spectrom 4:181-188.
64. Hendrickson CL, Emmett MR. 1999. Electrospray ionization Fourier transform ion cyclotron resonance mass spectrometry. Annu Rev Phys Chem 50:517-536.
65. Henry KD, Williams ER, Wang B-H, McLafferty FW, Shabanowitz J, Hunt DF. 1989. FTMS of large molecules by ESI. Proc Natl Acad Sci 86:9075-9078.
66. Horn DM, Ge Y, McLafferty FW. 2000. Activated ion electron capture dissociation for mass spectral sequencing of larger (42 kDa) proteins. Anal Chem 72:4778-4784.
67. Horn DM, Zubarev RA, McLafferty FW. 2000. Automated de novo sequencing of proteins by tandem high-resolution mass spectrometry. Proc Natl Acad Sc 97:10313-10317.
68. Horn DM, Breuker K, Frank AJ, McLafferty FW. 2001. Kinetic intermediates in the folding of gaseous protein ions characterized by electron capture dissociation. J Am Chem Soc 123:9792-9799.
69. Hudgins RR, Håkansson K, Marshall AG. 2001. ECD of disulfide linked helical peptides. Proceedings of 49th ASMS Conference on Mass Spectrometry and Allied Topics, Chicago, IL.
70. Hudgins RR, Håkansson K, Quinn JP, Hendrickson CL, Marshall AG. 2002. Electron capture dissociation of peptides and proteins does not require a hydrogen atom mechanism. Proceedings of 50th ASMS Conference on Mass Spectrometry and Allied Topics, Orlando, FL.
71. Ivonin IA, Zubarev RA. 2003. Numerical simulations of electron capture by cations in Paul traps. Proceedings of 51st ASMS Conference on Mass Spectrometry and Allied Topics, Montreal, Canada.
72. Kelleher NL, Nicewonger RB, Begley TH, McLafferty FW. 1997. Identification of modification sites in large biomolecules by stable isotope labelling and tandem high resolution mass spectrometry. J Biol Chem 272:32215-32220.
73. Kelleher NL, Lin HY, Valaskovic GA, Aaserud DJ, Fridriksson EK, McLafferty FW. 1999a. Top down versus bottom up protein characterization by tandem high-resolution mass spectrometry. J Am Chem Soc 121:806-812.
74. Kelleher NL, Zubarev RA, Bush K, Furie B, Furie BC, McLafferty FW, Walsh CT. 1999b. Localization of labile posttranslational modifications by ECD: The case of gamma-carboxyglutamic acid. Anal Chem 71:4250-4253.
75. Kjeldsen F, Zubarev RA. 2003. Secondary losses via γ-lactam formation in hot electron capture dissociation: A missing link to complete de novo sequencing of proteins? J Am Chem Soc 125:6628-6629.
76. Kjeldsen F, Haselmann KF, Budnik BA, Jensen F, Zubarev RA. 2002. Dissociative capture of hot (3-13 eV) electrons by polypeptide polycations: An efficient process accompanied by secondary fragmentation. Chem Phys Lett 356:201-206.
77. Kjeldsen F, Haselmann KF, Budnik BA, Sorensen E, Zubarev RA. 2003a. Complete characterization of post-translational modification sites in the bovine milk protein PP3 by tandem mass spectrometry with electron capture dissociation as the last stage. Anal Chem 75:2355-2361.
78. Kjeldsen F, Haselmann KF, Sorensen E, Zubarev RA. 2003b. Distinguishing of Ile/Leu amino acid residues in the PP3 protein by (hot) electron capture dissociation in Fourier transform ion cyclotron resonance mass spectrometry. Anal Chem 75:1267-1274.
79. Kleinnijenhuis AJ, Duursma MC, Breukink E, Heeren RMA, Heck AJR. 2003. Localization of intramolecular monosulfide bridges in lantibiotics determined with ECD. Anal Chem 75:3219-3225.
80. Kornfeld R, Kornfeld S. 1985. Assembly of asparagine linked oligosaccharides. Annu Rev Biochem 54:631-664.
81. Koster S, Duursma MC, Guo X, de Koster CG, van Benthem RATM, Boon JJ, Heeren RMA. 2002. Isomer separation of hyperbranched polyesteramides with gas-phase H/D exchange and a novel MS" approach: DoDIP. J Mass Spectrom 37:792-802.
82. Koster S, Duursma MC, Boon JJ, Heeren RMA, Ingemann S, van Benthem RATM, de Koster CG. 2003. Electron capture and collisionally activated dissociation mass spectrometry of doubly charged hyperbranched polyesteramides. J Am Soc Mass Spectrom 14:332-341.
83. Kruger NA, Zubarev RA, Carpenter BK, Kelleher NL, Horn DM, McLafferty FW. 1999a. Electron capture versus energetic dissociation of protein ions. Int J Mass Spectrom 182(183):1-5.
84. Kruger NA, Zubarev RA, Horn DM, McLafferty FW. 1999b. ECD of multiply charged peptide cations. Int J Mass Spectrom 185-187:787-793.
85. Lattimer RP. 1992. Tandem mass spectrometry of poly(ethylene glycol) proton attachment and deuteron attachment ions. Int J Mass Spectrom Ion Processes 116:23-36.
86. Leymarie NM, Berg EA, McComb ME, O'Connor PB, Grogan J, Oppenheim FG, Costello CE. 2002. Tandem MS for structural characterization of proline-rich proteins: Application to salivary PRP-3. Anal Chem 74:4124-4132.
87. Lis H, Sharon N. 1993. Protein glycosylation. Structural and functional aspects. Eur J Biochem 218:1-27.
88. Little DP, McLafferty FW. 1995. Sequencing 50-mer DNAs using ESI tandem mass spectroscopy and complementary fragmentation methods. J Am Chem Soc 117:6783-6784.
89. Little DP, Speir JP, Senko MW, O'Connor PB, McLafferty FW. 1994. Infrared multiphoton dissociation of large multiply charged ions for biomolecule sequencing. Anal Chem 66:2809-2815.
90. Little DP, Aaserud DJ, Valaskovic GA, McLafferty FW. 1996. Sequence information from 42-108-mer DNAs (complete for a 50 mer) by tandem mass spectrometry. J Am Chem Soc 118:9352-9359.
91. Loo JA. 2000. ESI mass spectrometry: A technology for studying noncovalent macromolecular complexes. Int J Mass Spectrom 200:175-186.
92. Loo JA, Edmonds CG, Udseth HR, Smith RD. 1990a. Collisional activation and dissociation of large multiply charged proteins produced by electrospray ionisation. Anal Chim Acta 241:167-173.
93. Loo JA, Edmonds CG, Udseth HR, Smith RD. 1990b. Effect of reducing disulfide-containing proteins on ESI mass spectra. Anal Chem 62:693-698.
94. Lorenz SA, Maziarz EPI, Wood TD. 1999. Electrospray ionization Fourier transform mass spectrometry of macromolecules: The first decade. Appl Spectrosc 53:18A-36A.
95. Macek B, Hofsteenge J, Peter-Katalinic J. 2001. Direct determination of glycosylation sites in O-fucosylated peptides using nano-ESI QTOF mass spectrometry. Rapid Commun Mass Spectrom 15:771-777.
96. Macek B, Mormann M, Gonzalez de Peredo A, Hofsteenge J, Peter-Katalinic J. 2002. ECD versus CID mass spectrometry in structural studies of protein O-fucosylation. Proceedings of 50th ASMS Conference on Mass Spectrometry and Allied Topics, Orlando, PL.
97. Maier CS, Van X, Harder ME, Schimerlik MI, Deinzer ML, Pasa-Tolic L, Smith RD. 1999. ESI FTICR MS analysis of the recombinant human macrophage colony stimulating factor beta and derivatives. J Am Soc Mass Spectrom 11:237-243.
98. Mann M, Wilm M. 1994. Error-tolerant identification of peptides in sequence database by peptide sequence tags. Anal Chem 66:4390-4399.
99. Mann M, Ong S-E, Gronburg M, Steen H, Jensen ON, Pandey A. 2002. Analysis of protein phosphorylation using mass spectrometry: Deciphering the phosphoproteome. Trends Biotechnol 20:261-268.
100. Marshall AG. 2000. Milestones in Fourier transform ion cyclotron resonance mass spectrometry technique development. Int J Mass Spectrom 200:331-336.
101. Marshall AG, Hendrickson CL, Jackson GS. 1998. Fourier transform ion cyclotron resonance mass spectrometry: A primer. Mass Spectrom Rev 17:1-35.
102. Marshall AG, Wang T-CL, Ricca TL. 1985. Tailored excitation for FTICR MS. J Am Chem Soc 107:7893-7897.
103. McCormack AL, Jones JL, Wysocki VH. 1992. Surface-induced dissociation of multiply protonated peptides. J Am Soc Mass Spectrom 3:859-862.
104. McLachlin DT, Chait BT. 2001. Analysis of phosphorylated proteins and peptides by mass spectrometry. Curr Opin Chem Biol 5:591-602.
105. McLafferty FW. 1983. Tandem mass spectrometry. New York: Wiley.
106. McLafferty FW, Fridriksson EK, Horn DM, Lewis MA, Zubarev RA. 1999. Biomolecule mass spectrometry. Science 284:1289-1290.
107. McLafferty FW, Horn DM, Breuker K, Ge Y, Lewis MA, Cerda B, Zubarev RA, Carpenter BK. 2000. ECD of gaseous multiply charged ions by FTICR. J Am Soc Mass Spectrom 12:245-249.
108. McLuckey SA, Goeringer DE. 1997. Slow heating methods in tandem mass spectrometry. J Mass Spectrom 35:461-474.
109. McLuckey SA, Habibi-Goudarzi S. 1993. Decompositions of multiply charged oligonucleotide anions. J Am Chem Soc 115:12085-12095.
110. Medzihradszky K, Phillips N, Senderowicz L, Wang P, Turck C. 1997. Synthesis and characterization of histidine-phosphorylated peptides. Protein Sci 6:1405-1411.
111. Meng F, Cargile BJ, Miller LM, Forbes AJ, Johnson JR, Kelleher NL. 2001. Informatics and multiplexing of intact protein identification in bacteria and the archaea. Nat Biotechnol 19:952-957.
112. Miranker AD. 2000. Mass spectrometry of proteins of known mass. Proc Natl Acad Sci 97:14025-14027.
113. Mirgorodskaya E, Roepstorff P, Zubarev RA. 1999. Localization of O-glycosylation sites in peptides by ECD in a Fourier transform mass spectrometer. Anal Chem 71:4431-4436.
114. Mirgorodskaya E, Hassan H, Wandall HH, Clausen H, Roepstorff P. 1999. Partial vapor-phase hydrolysis of peptide bonds: A method for mass spectrometric determination of O-glycosylated sites in glycopeptides. Anal Biochem 269:54-65.
115. Mirgorodskaya E, Hassan H, Clausen H, Roepstorff P. 2001. Mass spectrometric determination of O-glycosylation sites using beta-elimination and partial acid hydrolysis. Anal Chem 73:1263-1269.
116. Mormann M, Meisen I, Hakansson K, Quenzer TL, Emmett MR, Marshall AG, Peter-Katalinic J. 2001. Characterization of MUC2 glycopeptides by nanoESI low-energy CID and ECD. Proceedings of 49th ASMS Conference on Mass Spectrometry and Allied Topics, Chicago, IL.
117. Mormann M, Paulsen H, Brockhausen I, Peter-Katalinic J. 2002. Determination of glycosylation sites and core structure of O-glycosylated peptides by ECD. Proceedings of 50th ASMS Conference on Mass Spectrometry and Allied Topics, Orlando, FL.
118. Morris HR, Paxton T, Dell A, Langhorne J, Berg M, Bordoli RS, Hoyes J, Bateman RH. 1996. High sensitivity CAD tandem MS on a novel quadrupole/ orthogonal acceleration TOF mass spectrometer. Rapid Commun Mass Spectrom 10:889-896.
119. Muddiman DC, Smith RD. 1998. Sequencing and characterization of larger oligonucleotides by ESI FT-ICR mass spectrometry. Rev Anal Chem 17:1-68.
120. Murray KK. 1996. DNA sequencing by mass spectrometry. J Mass Spectrom 31:1203-1215.
121. Nakamura T, Yu Z, Fainzilber M, Burlingame AL. 1996. Mass spectrometric-based revision of the structure of a cysteine rich peptide toxin with gamma-carboxyglutamic acid, TxVIIA, from the sea snail, Conus textile. Protein Sci 5:524-530.
122. Neubauer G, Mann M. 1999. Mapping of phopshorylation sites of gel-isolated proteins by nanospray tandem mass spectrometry: Potentials and limitations. Anal Chem 71:235.
123. Nielen MWF. 1999. MALDI time-of-flight mass spectrometry of synthetic polymers. Mass Spectrom Rev 18:309-344.
124. Nielsen PE. 2001. Peptide nucleic acid: A versatile tool in genetic diagnostics and molecular biology. Curr Opin Biotechnol 12:16-20.
125. Nielsen ML, Budnik BA, Haselmann KF, Olsen JV, Zubarev RA. 2000. Intramolecular hydrogen atom transfer in hydrogen deficient polypeptide radical cations. Chem Phys Lett 330:558-562.
126. Nielsen ML, Budnik BA, Haselmann KF, Zubarev RA. 2003. Tandem MALDI/EI ionization for tandem Fourier transform ion cyclotron resonance mass spectrometry of polypeptides. Int J Mass Spectrom 226:181-187.
127. Niiranen H, Budnik BA, Zubarev RA, Auriola S, Lapinjoki S. 2002. HPLC-MS and ECD tandem mass spectrometry of osteocalcin. Determination of gamma-carboxyglutamic acid residues. J Chromatogr A 962:95-103.
128. Nordhoff E, Kirpekar F, Roepstorff P. 1996. Mass spectrometry of nucleic acids. Mass Spectrom Rev 15:67-138.
129. O'Connor PB, Leymarie NM, Costello CE. 2002. Electron capture dissociation of post-translationally modified peptides. Proceedings of 50th ASMS Conference on Mass Spectrometry and Allied Topics, Orlando, FL.
130. O'Connor PB, Speir JP, Senko MW, Little DP, McLafferty FW. 1995. Tandem mass spectrometry of carbonic anhydrase. J Mass Spectrom 30:88-93.
131. Oh H, Breuker K, Sze SK, Ge Y, Carpenter BK, McLafferty FW. 2002. Secondary and tertiary structures of gaseous protein ions characterized by ECD mass spectrometry and photofragment spectroscopy. Proc Natl Acad Sci 99:15863-15868.
132. Olsen JV, Haselmann KF, Nielsen ML, Budnik BA, Nielsen PE, Zubarev RA. 2001. Comparison of electron capture dissociation and collisionally activated dissociation of polycations of peptide nucleic acids. Rapid Commun Mass Spectrom 15:969-974.
133. Palmblad M, Tsybin YO, Ramstrom M, Bergquist J, Hakansson P. 2002. LC and ECD in FTICR mass spectrometry. Rapid Commun Mass Spectrom 16:988-992.
134. Peng J, Gygi SP. 2001. Proteomics: The move to mixtures. J Mass Spectrom 36:1083-1091.
135. Polfer NC, Haselmann KF, Zubarev RA, Langridge-Smith PRR. 2002. ECD of polypeptides using a 3 T FTICR mass spectrometer. Rapid Commun Mass Spectrom 16:936-943.
136. Price WD, Schnier PD, Williams ER. 1996. Tandem mass spectrometry of large biomolecule ions by blackbody infrared radiative dissociation. Anal Chem 68:859-866.
137. Rademaker GJ, Pergantis SA, Bloktip L, Langridge JI, Kleen A, Thomas Oates JE. 1998. Mass spectrometric determination of the sites of O-glycan attachment with low picomolar sensitivity. Anal Biochem 257:149-160.
138. Resing K, Johnson R, Walsh K. 1995. Mass spectrometric analysis of 21 phosphorylation sites in the internal repeat of rat profilaggrin, precursor of an intermediate filament associated protein. Biochemistry 34:9477.
139. Robinson JM, Greig MJ, Griffey RH, Mohan V, Laude DA. 1998. Hydrogen-deuterium exchange of nucleotides in the gas phase. Anal Chem 70:3566-3571.
140. Roepstorff P, Fohlman J. 1984. Proposal for a common nomenclature for sequence ions in mass spectra of peptides. Biol Mass Spectrom 11:601.
141. Rumbley J, Hoang L, Mayne L, Englander SW. 2001. An amino acid code for protein folding. Proc Natl Acad Sci 98:105-112.
142. Sannes-Lowery K, Griffey RH, Kruppa GH, Speir JP, Hofstadler SA. 1998. Multipole storage assisted dissociation, a novel in-source dissociation technique for electrospray ionization generated ions. Rapid Commun Mass Spectrom 12:1957-1961.
143. Selby TL, Wesdemiotis C, Lattimer RP. 1994. Dissociation characteristics of [M + X](+) ions (X = H, Li, K) from linear and cyclic polyglycols. J Am Soc Mass Spectrom 5:1081-1092.
144. Senko MW, Speir JP, McLafferty FW. 1994. Collisional activation of large multiply charged ions using Fourier transform mass spectrometry. Anal Chem 66:2801-2808.
145. Senko MW, Hendrickson CL, Emmett MR, Shi SD-H, Marshall AG. 1997. External accumulation of ions for enhanced electrospray ionization Fourier transform ion cyclotron resonance mass spectrometry. J Am Soc Mass Spectrom 8:970-976.
146. Shi SD-H, Hemling ME, Carr SA, Horn DM, Lindh I, McLafferty FW. 2001. Phosphopetide/phosphoprotein mapping by ECD mass spectrometry. Anal Chem 73:19-22.
147. Sorensen ES, Petersen TE. 1993, Phosphorylation, glycosylation, and aminoacid sequence of component PP3 from the proteose peptone fraction of bovine milk. J Dairy Res 60:535-542.
148. Speir JP, Senko MW, Little DP, Loo JA, McLafferty FW. 1995. Highresolution tandem mass spectra of 37-67 kDa proteins. J Mass Spectrom 30:39-42.
149. Stensballe A, Jensen ON, Olsen JV, Haselmann KF, Zubarev RA. 2000. ECD of singly and multiply phosphorylated peptides. Rapid Commun Mass Spectrom 14:1793-1800.
150. Stults JT, Bourell JH, Canova-Davis E, Ling VT, Larame GR, Winslow JW, Griffin PR, Rinderknecht E, Vandlin RL. 1990. High energy CAD can cleave S-S in singly charged cations. Biomed Environ Mass Spectrom 19:655-664.
151. Syrstad EA, Stephens DD, Turecek F. 2003. Hydrogen atom adducts to the amide bond. Generation and energetics of amide radicals in the gas phase. J Phys Chem A 107:115-126.
152. Syrstad EA, Turecek F. 2001. Hydrogen atom adducts to the amide bond. Generation and energetics of the amino(hydroxyl) methyl radical in the gas phase. J Phys Chem A 105:11144-11155.
153. Sze SK, Ge Y, Oh H, McLafferty FW. 2002. Top-down characterization of a 29 kDa protein for characterization of any post-translational modification to within one residue. Proc Natl Acad Sci 99:1774-1779.
154. Sze SK, Ge Y, Oh H, McLafferty FW. 2003. Plasma ECD for the characterization of large proteins by top-down mass spectrometry. Anal Chem 75:1599-1603.
155. Takayama M. 2001. N-Calpha bond cleavage of the peptide backbone via hydrogen abstraction. J Am Soc Mass Spectrom 12:1044-1049.
156. Tsybin YO, Håkansson P, Budnik BA, Haselmann KF, Kjeldsen F, Gorshkov M, Zubarev RA. 2001. Improved low-energy electron injection systems for high rate electron capture dissociation in Fourier transform ion cyclotron resonance mass spectrometry. Rapid Commun Mass Spectrom 15:1849-1854.
157. Tsybin YO, Håkansson P, Wetterhall M, Markides KE, Bergquist J. 2002. CE and ECD FTICR MS for peptide mixture and protein digest analysis. Eur J Mass Spectrom 8:389-395.
158. Tsybin YO, Witt M, Baykut G, Kjeldsen F, Håkansson P. 2003. Combined IRMPD and ECD with a hollow electron beam in FT-ICR mass spectrometry. Rapid Commun Mass Spectrom 17:1759-1768.
159. Turecek F. 2003. N-C bond dissociation energies and kinetics in amide and peptide radicals. Is the dissociation a non-ergodic process? J Am Chem Soc 125:5954-5963.
160. Turecek F, Syrstad EA. 2003. Mechanisms and energetics of intramolecular hydrogen transfer in amide and peptide radicals and cation radicals. J Am Chem Soc 125:3353-3369.
161. Vekey K. 1995. Multiply charged ions. Mass Spectrom Rev 14:195-225.
162. Williams ER. 1998. Tandem FTMS of large biomolecules. Anal Chem 70:179A-185A.
163. Wilm M, Neubauer G, Mann M. 1996. Parent ion scans of unseparated peptide mixtures. Anal Chem 68:527-533.
164. Wilm M, Shevchenko A, Houthaeve T, Brett S, Schweigerer L, Fotsis T, Mann M. 1996. Femtomole sequencing of proteins from polyacrylamide gels by nano-ESI mass spectrometry. Nature 379:466-469.
165. Woodlin RL, Bomse DS, Beauchamp JL. 1978. Multiphoton dissociation of molecules with low power continuous wave infrared laser radiation. J Am Chem Soc 100:3248-3250.
166. Wu Q, Van Orden S, Cheng X, Bakhtiar R, Smith RD. 1995. Characterization of cytochrome c variants with high-resolution FTICR mass spectrom etry: Correlation of fragmentation and structure. Anal Chem 67:2498-2509.
167. Zhang XL, Herring CJ, Romano PR, Szczepanowska J, Brzeska H, Hinnebusch AG, Qin J. 1998. Identification of phosphorylation sites in proteins separated by polyacrylamide gel electrophoresis. Anal Chem 70:2050-2059.
168. Zubarev RA. 2003. Reactions of polypeptide ions with electrons in the gas phase. Mass Spectrom Rev 22:57-77.
169. Zubarev RA, Kelleher NL, McLafferty FW. 1998. ECD of multiply charged protein cations. A non-ergodic process. J Am Chem Soc 120:3265-3266.
170. Zubarev RA, Nielsen ML, Budnik BA. 2000. Tandem ionization mass spectrometry of biomolecules. Eur J Mass Spectrom 6:235-240.
171. Zubarev RA, Kruger NA, Fridriksson EK, Lewis MA, Horn DM, Carpenter BK, McLafferty FW. 1999. ECD of gaseous multiply charged proteins is favored at disulfide bonds and other sites of high hydrogen atom affinity. J Am Chem Soc 121:2857-2862.
172. Zubarev RA, Horn DM, Fridriksson EK, Kelleher NL, Kruger NA, Lewis MA, Carpenter BK, McLafferty FW. 2000. Electron capture dissociation for structural characterization of multiply charged protein cations. Anal Chem 72:563-573.
173. Zubarev RA, Haselmann KF, Budnik BA, Kjeldsen F, Jensen F. 2002. Towards an understanding of the mechanism of electron capture dissociation: A historical perspective and modern ideas. Eur J Mass Spectrom 8:337-349.