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Volumn 3, Issue 1, 2004, Pages 61-67

Theoretical and Experimental Prospects for Protein Identification Based Solely on Accurate Mass Measurement

Author keywords

Accurate mass, elemental composition; Chemical formula; Exact mass; FT ICR; FTICR; FTMS; Mass resolution; Mass resolving power; Mutation; Peptide; Post translational modification; Protein database; Protein identification

Indexed keywords

ISOLEUCINE; LEUCINE; PEPTIDE DERIVATIVE;

EID: 1242284991     PISSN: 15353893     EISSN: None     Source Type: Journal    
DOI: 10.1021/pr034058z     Document Type: Article
Times cited : (73)

References (47)
  • 1
    • 0027198862 scopus 로고    scopus 로고
    • Identifying proteins from 2-dimensional gels by molecular mass searching of peptide fragments in protein sequence databases
    • Henzel, W. J.; Billeci, T. M.; Stults, J. T.; Wong, S. C.; Grimley, C.; Watanabe, C. Identifying proteins from 2-dimensional gels by molecular mass searching of peptide fragments in protein sequence databases, Proc. Natl. Acad. Sci. U.S.A. 1998, 90, 5011-5015.
    • (1998) Proc. Natl. Acad. Sci. U.S.A. , vol.90 , pp. 5011-5015
    • Henzel, W.J.1    Billeci, T.M.2    Stults, J.T.3    Wong, S.C.4    Grimley, C.5    Watanabe, C.6
  • 2
    • 0027608882 scopus 로고
    • Use of mass spectrometric molecular weight information to identify proteins in sequence databases
    • Mann, M.; Hojrup, P.; Roepstorff, P. Use of mass spectrometric molecular weight information to identify proteins in sequence databases, Biol. Mass. Spectrom. 1993, 22, 338-345.
    • (1993) Biol. Mass. Spectrom. , vol.22 , pp. 338-345
    • Mann, M.1    Hojrup, P.2    Roepstorff, P.3
  • 4
    • 0028429419 scopus 로고
    • Protein identification by peptide mass fingerprinting
    • Cottrell, J. S. Protein identification by peptide mass fingerprinting, Pept. Res. 1994, 7, 115-124.
    • (1994) Pept. Res. , vol.7 , pp. 115-124
    • Cottrell, J.S.1
  • 5
    • 0028060306 scopus 로고
    • Protein identification in Dna databases by peptide mass fingerprinting
    • James, P.; Quadroni, M.; Carafoli, E.; Gonnet, G. Protein identification in DNA databases by peptide mass fingerprinting, Protein Sci. 1994, 3, 1347-1350.
    • (1994) Protein Sci. , vol.3 , pp. 1347-1350
    • James, P.1    Quadroni, M.2    Carafoli, E.3    Gonnet, G.4
  • 8
    • 0032603760 scopus 로고    scopus 로고
    • Peptide Sequencing of 2-DE gel-isolated proteins by nanoelectrospray tandem mass spectrometry
    • Jensen, O. N.; Wilm, M.; Shevchenko, A.; Mann, M. Peptide Sequencing of 2-DE gel-isolated proteins by nanoelectrospray tandem mass spectrometry, Methods Mol. Biol. 1999, 112, 571-588.
    • (1999) Methods Mol. Biol. , vol.112 , pp. 571-588
    • Jensen, O.N.1    Wilm, M.2    Shevchenko, A.3    Mann, M.4
  • 9
    • 0032612351 scopus 로고    scopus 로고
    • Automated protein identification using microcolumn liquid chromatography-tandem mass spectrometry
    • Yates, J. R., III.; Carmack, E.; Hays, L.; Link, A. J.; Eng, J. K. Automated protein identification using microcolumn liquid chromatography-tandem mass spectrometry, Methods Mol. Biol. 1999, 112, 533-569.
    • (1999) Methods Mol. Biol. , vol.112 , pp. 533-569
    • Yates III, J.R.1    Carmack, E.2    Hays, L.3    Link, A.J.4    Eng, J.K.5
  • 11
    • 0033621537 scopus 로고    scopus 로고
    • Mass spectrometry. From genomics to proteomics
    • Yates, J. R., III. Mass spectrometry. From genomics to proteomics, Trends Genet. 2000, 16, 5-8.
    • (2000) Trends Genet. , vol.16 , pp. 5-8
    • Yates III, J.R.1
  • 12
    • 0035241690 scopus 로고    scopus 로고
    • Mass Spectrometry in Proteomics
    • Aebersold, R.; Goodlett, D. R. Mass Spectrometry in Proteomics, Chem. Rev. 2001, 101, 269-295.
    • (2001) Chem. Rev. , vol.101 , pp. 269-295
    • Aebersold, R.1    Goodlett, D.R.2
  • 14
    • 0034794886 scopus 로고    scopus 로고
    • Informatics and multiplexing of intact protein identification in bacteria and the archaea
    • Meng, F.; Cargile, B. J.; Miller, L. M.; Forbes, A. J.; Johnson, J. R.; Kelleher, N. L. Informatics and multiplexing of intact protein identification in bacteria and the archaea, Nat. Biotechnol. 2001, i19, 952-957.
    • (2001) Nat. Biotechnol. , vol.I19 , pp. 952-957
    • Meng, F.1    Cargile, B.J.2    Miller, L.M.3    Forbes, A.J.4    Johnson, J.R.5    Kelleher, N.L.6
  • 15
    • 0027968728 scopus 로고
    • Role of mass accuracy in the identification of proteins by the mass spectrometric peptide maps
    • Mann, M. Role of mass accuracy in the identification of proteins by the mass spectrometric peptide maps, J. Protein Chem. 1994, 13, 506-507.
    • (1994) J. Protein Chem. , vol.13 , pp. 506-507
    • Mann, M.1
  • 16
    • 2742576125 scopus 로고    scopus 로고
    • Accuracy Requirements for Peptide Characterization by Monoisotopic Molecular Mass Measurements
    • Zubarev, R. A.; Hakansson, P.; Sundqvist, B. Accuracy Requirements for Peptide Characterization by Monoisotopic Molecular Mass Measurements, Anal. Chem. 1996, 68, 4060-4063.
    • (1996) Anal. Chem. , vol.68 , pp. 4060-4063
    • Zubarev, R.A.1    Hakansson, P.2    Sundqvist, B.3
  • 18
    • 0033565832 scopus 로고    scopus 로고
    • Role of accurate mass measurement (±10 ppm) in protein identification strategies employing MS of MS MS and database searching
    • Clauser, K. R.; Baker, P.; Burlingame, A. L. Role of accurate mass measurement (±10 ppm) in protein identification strategies employing MS of MS MS and database searching, Anal. Chem. 1999, 71, 2871-2882.
    • (1999) Anal. Chem. , vol.71 , pp. 2871-2882
    • Clauser, K.R.1    Baker, P.2    Burlingame, A.L.3
  • 19
    • 0033456265 scopus 로고    scopus 로고
    • Reliable automatic protein identification from matrix-assisted laser desorption/ionization mass spectrometric peptide fingerprints
    • Berndt, P.; Hobohm, U.; Langen, H. Reliable automatic protein identification from matrix-assisted laser desorption/ionization mass spectrometric peptide fingerprints, Electrophoresis 1999, 20, 3521-3526.
    • (1999) Electrophoresis , vol.20 , pp. 3521-3526
    • Berndt, P.1    Hobohm, U.2    Langen, H.3
  • 22
    • 0034086674 scopus 로고    scopus 로고
    • Analysis of enzymatically digested proteins and protein mixtures using a 9.4 T. Fourier transform ion cyclotron mass spectrometer
    • Palmblad, M.; Wetterhall, M.; Markides, K.; Hakansson, P.; Bergquist, J. Analysis of enzymatically digested proteins and protein mixtures using a 9.4 T Fourier transform ion cyclotron mass spectrometer, Rapid Commun. Mass Spectrom. 2000, 14, 1029-1034.
    • (2000) Rapid Commun. Mass Spectrom. , vol.14 , pp. 1029-1034
    • Palmblad, M.1    Wetterhall, M.2    Markides, K.3    Hakansson, P.4    Bergquist, J.5
  • 23
    • 0033230052 scopus 로고    scopus 로고
    • Mass accuracy and sequence requirements for protein database searching
    • Green, M. K.; Johnston, M. V.; Larsen, B. S. Mass accuracy and sequence requirements for protein database searching, Anal. Biochem. 1999, 275, 39-46.
    • (1999) Anal. Biochem. , vol.275 , pp. 39-46
    • Green, M.K.1    Johnston, M.V.2    Larsen, B.S.3
  • 24
    • 0034161650 scopus 로고    scopus 로고
    • Statistical Basis for Testing the Significance of Mass Spectrometric Protein Identification Results
    • Eriksson, J.; Chait, B. T.; Fenyo, D. A. Statistical Basis for Testing the Significance of Mass Spectrometric Protein Identification Results, Anal. Chem. 2000, 72, 999-1005.
    • (2000) Anal. Chem. , vol.72 , pp. 999-1005
    • Eriksson, J.1    Chait, B.T.2    Fenyo, D.A.3
  • 25
    • 0030029442 scopus 로고    scopus 로고
    • Structural analysis and identification of gel-separated proteins, available in the femto-mole range, using a novel computer program for peptide sequence assignment, by matrix-assisted laser desorption ionization time-of-flight mass spectrometry
    • Gevaert, K.; Verschelde, J. L.; Puype, M.; VanDamme, J.; Goethals, M.; DeBoeck, S.; Vandekerckhove, J. Structural analysis and identification of gel-separated proteins, available in the femto-mole range, using a novel computer program for peptide sequence assignment, by matrix-assisted laser desorption ionization time-of-flight mass spectrometry, Electrophoresis 1996, 17, 918-924.
    • (1996) Electrophoresis , vol.17 , pp. 918-924
    • Gevaert, K.1    Verschelde, J.L.2    Puype, M.3    VanDamme, J.4    Goethals, M.5    DeBoeck, S.6    Vandekerckhove, J.7
  • 26
    • 0035563749 scopus 로고    scopus 로고
    • Gas-phase cleavage of Edman-derivatized electrosprayed tryptic peptides: Mass-based protein identification without liquid chromatographic separation
    • van der Rest, G.; He, F.; Emmett, M. R.; Marshall, A. G.; Gaskell, S. Gas-phase cleavage of Edman-derivatized electrosprayed tryptic peptides: mass-based protein identification without liquid chromatographic separation, J. Am. Soc. Mass Spectrom. 2001, 12, 288-295.
    • (2001) J. Am. Soc. Mass Spectrom. , vol.12 , pp. 288-295
    • Van Der Rest, G.1    He, F.2    Emmett, M.R.3    Marshall, A.G.4    Gaskell, S.5
  • 27
    • 0037112383 scopus 로고    scopus 로고
    • Prediction of chromatographic retention and protein identification in liquid chromatography/mass spectrometry
    • Palmblad, M.; Ramstrom, M.; Markides, K. E.; Hakansson, P.; Bergquist, J. Prediction of chromatographic retention and protein identification in liquid chromatography/mass spectrometry, Anal. Chem. 2002, 74, 5826-5830.
    • (2002) Anal. Chem. , vol.74 , pp. 5826-5830
    • Palmblad, M.1    Ramstrom, M.2    Markides, K.E.3    Hakansson, P.4    Bergquist, J.5
  • 30
    • 0031239787 scopus 로고    scopus 로고
    • External accumulation of ions for enhanced electrospray ionization Fourier transform ion cyclotron resonance mass spectrometry
    • Senko, M. W.; Hendrickson, C. L.; Emmett, M. R.; Shi, S. D.-H.; Marshall, A. G. External accumulation of ions for enhanced electrospray ionization Fourier transform ion cyclotron resonance mass spectrometry, J. Am. Soc. Mass Spectrom. 1997, 8, 970-976.
    • (1997) J. Am. Soc. Mass Spectrom. , vol.8 , pp. 970-976
    • Senko, M.W.1    Hendrickson, C.L.2    Emmett, M.R.3    Shi, S.D.-H.4    Marshall, A.G.5
  • 31
    • 0000178042 scopus 로고
    • Micro-electrospray mass spectrometry - Ultrahigh-sensitivity analysis of peptides and proteins
    • Emmett, M. R.; Caprioli, R. M. Micro-electrospray mass spectrometry - ultrahigh-sensitivity analysis of peptides and proteins, J. Am. Soc. Mass Spectrom. 1994, 5, 605-613.
    • (1994) J. Am. Soc. Mass Spectrom. , vol.5 , pp. 605-613
    • Emmett, M.R.1    Caprioli, R.M.2
  • 32
    • 33845379336 scopus 로고
    • Tailored Excitation for Fourier transform ion cyclotron resonance mass spectrometry
    • Marshall, A. G.; Wang, T.-C. L.; Ricca, T. L. Tailored Excitation for Fourier transform ion cyclotron resonance mass spectrometry, J. Am. Chem. Soc. 1985, 107, 7893-7897.
    • (1985) J. Am. Chem. Soc. , vol.107 , pp. 7893-7897
    • Marshall, A.G.1    Wang, T.-C.L.2    Ricca, T.L.3
  • 33
    • 4243270417 scopus 로고    scopus 로고
    • Stored waveform inverse Fourier transform (swift) ion excitation in trapped-ion mass spectrometry: Theory and applications
    • Guan, S.; Marshall, A. G. Stored waveform inverse Fourier transform (SWIFT) ion excitation in trapped-ion mass spectrometry: theory and applications, Int. J. Mass Spectrom. Ion Processes 1996, 157/158, 5-37.
    • (1996) Int. J. Mass Spectrom. Ion Processes , vol.157-158 , pp. 5-37
    • Guan, S.1    Marshall, A.G.2
  • 34
    • 0021705942 scopus 로고
    • Space charge effects in Fourier transform mass spectrometry mass calibration
    • Ledford, E. B., Jr.; Rempel, D. L.; Gross, M. L. Space charge effects in Fourier transform mass spectrometry mass calibration, Anal. Chem. 1984, 56, 2744-2748.
    • (1984) Anal. Chem. , vol.56 , pp. 2744-2748
    • Ledford Jr., E.B.1    Rempel, D.L.2    Gross, M.L.3
  • 35
    • 0034695360 scopus 로고    scopus 로고
    • Comparison and interconversion of the two most common frequency-to-mass calibration functions for Fourier transform ion cyclotron resonance mass spectrometry
    • Shi, S. D.-H.; Drader, J. J.; Freitas, M. A.; Hendrickson, C. L.; Marshall, A. G. Comparison and interconversion of the two most common frequency-to-mass calibration functions for Fourier transform ion cyclotron resonance mass spectrometry, Int. J. Mass Spectrom. 2000, 195/196, 591-598.
    • (2000) Int. J. Mass Spectrom. , vol.195-196 , pp. 591-598
    • Shi, S.D.-H.1    Drader, J.J.2    Freitas, M.A.3    Hendrickson, C.L.4    Marshall, A.G.5
  • 38
    • 0035253342 scopus 로고    scopus 로고
    • Baseline mass resolution of peptide isobars: A new record for molecular mass resolution
    • He, F.; Hendrickson, C. L.; Marshall, A. G. Baseline mass resolution of peptide isobars: a new record for molecular mass resolution, Anal. Chem. 2001, 73, 647-650.
    • (2001) Anal. Chem. , vol.73 , pp. 647-650
    • He, F.1    Hendrickson, C.L.2    Marshall, A.G.3
  • 39
    • 0031466712 scopus 로고    scopus 로고
    • Evaluation of high performance liquid chromatography electrospray mass spectrometry with selected ion monitoring for the analysis of large synthetic combinatorial peptide libraries
    • Lambert, P. H.; Boutin, J. A.; Bertin, S.; Fauchere, J. L.; Volland, J. P. Evaluation of high performance liquid chromatography electrospray mass spectrometry with selected ion monitoring for the analysis of large synthetic combinatorial peptide libraries, Rapid Commun. Mass Spectrom. 1997, 11, 1971-1976.
    • (1997) Rapid Commun. Mass Spectrom. , vol.11 , pp. 1971-1976
    • Lambert, P.H.1    Boutin, J.A.2    Bertin, S.3    Fauchere, J.L.4    Volland, J.P.5
  • 40
  • 41
    • 0032903489 scopus 로고    scopus 로고
    • Use of caco-2 cells and LC/MS/MS to screen a peptide combinatorial library for permeable structures
    • Stevenson, C. L.; Augustijns, P. F.; Hendren, R. W. Use of caco-2 cells and LC/MS/MS to screen a peptide combinatorial library for permeable structures, Int. J. Pharm. 1999, 177, 103-115.
    • (1999) Int. J. Pharm. , vol.177 , pp. 103-115
    • Stevenson, C.L.1    Augustijns, P.F.2    Hendren, R.W.3
  • 42
    • 0035106612 scopus 로고    scopus 로고
    • High-resolution analysis of a 144-membered pyrazole library from combinatorial solid-phase synthesis by using electrospray ionization Fourier transform ion cyclotron resonance mass spectrometry
    • Schmid, D. G.; Grosche, P.; Jung, G. High-resolution analysis of a 144-membered pyrazole library from combinatorial solid-phase synthesis by using electrospray ionization Fourier transform ion cyclotron resonance mass spectrometry, Rapid Commun. Mass Spectrom. 2001, 15, 341-347.
    • (2001) Rapid Commun. Mass Spectrom. , vol.15 , pp. 341-347
    • Schmid, D.G.1    Grosche, P.2    Jung, G.3
  • 43
    • 0032993035 scopus 로고    scopus 로고
    • Differentation of "isobaric" peptides and human milk oligosaccharides by exact mass measurements using electrospray ionization orthogonal time-of-flight analysis
    • Bahr, U.; Karas, M. Differentation of "isobaric" peptides and human milk oligosaccharides by exact mass measurements using electrospray ionization orthogonal time-of-flight analysis, Rapid Commun. Mass Spectrom. 1999, 13, 1052-1058.
    • (1999) Rapid Commun. Mass Spectrom. , vol.13 , pp. 1052-1058
    • Bahr, U.1    Karas, M.2
  • 44
    • 0035122575 scopus 로고    scopus 로고
    • Charge reduction lowers mass resolving power for isotopically resolved electrospray ionization Fourier transform ion cyclotron resonance mass spectra
    • Marshall, A. G.; Hendrickson, C. L. Charge reduction lowers mass resolving power for isotopically resolved electrospray ionization Fourier transform ion cyclotron resonance mass spectra, Rapid Commun. Mass Spectrom. 2001, 15, 232-235.
    • (2001) Rapid Commun. Mass Spectrom. , vol.15 , pp. 232-235
    • Marshall, A.G.1    Hendrickson, C.L.2
  • 45
    • 0032578463 scopus 로고    scopus 로고
    • Counting individual sulfur atoms in a protein by ultrahigh-resolution Fourier transform ion cyclotron resonance mass spectrometry: Experimental resolution of isotopic fine structure in proteins
    • Shi, S. D.-H.; Hendrickson, C. L.; Marshall, A. G. Counting individual sulfur atoms in a protein by ultrahigh-resolution Fourier transform ion cyclotron resonance mass spectrometry: experimental resolution of isotopic fine structure in proteins, Proc. Natl. Acad. Sci. U.S.A. 1998, 95, 11 532-11 537.
    • (1998) Proc. Natl. Acad. Sci. U.S.A. , vol.95 , pp. 11532-11537
    • Shi, S.D.-H.1    Hendrickson, C.L.2    Marshall, A.G.3
  • 46
    • 0033868397 scopus 로고    scopus 로고
    • The significance of monoisotopic and carbon-13 isobars for the identification of a 19-component dodecapeptide library by positive ion electrospray Fourier transform ion cyclotron resonance mass spectrometry
    • Ramjit, H. G.; Kruppa, G. H.; Spier, J. P.; Ross, C. W. I.; Garsky, V. M. The significance of monoisotopic and carbon-13 isobars for the identification of a 19-component dodecapeptide library by positive ion electrospray Fourier transform ion cyclotron resonance mass spectrometry, Rapid Commun. Mass Spectrom. 2000, 14, 1368-1376.
    • (2000) Rapid Commun. Mass Spectrom. , vol.14 , pp. 1368-1376
    • Ramjit, H.G.1    Kruppa, G.H.2    Spier, J.P.3    Ross, C.W.I.4    Garsky, V.M.5
  • 47
    • 0033957834 scopus 로고    scopus 로고
    • The SWISS-PROT protein sequence database and its supplement TrEMBL in 2000
    • Bairoch, A.; Apweiler, R. The SWISS-PROT protein sequence database and its supplement TrEMBL in 2000, Nucleic Acids Res. 2000, 28, 45-48.
    • (2000) Nucleic Acids Res. , vol.28 , pp. 45-48
    • Bairoch, A.1    Apweiler, R.2


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