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Volumn 28, Issue 10, 2014, Pages 1127-1143

Predicting collision-induced dissociation spectra: Semi-empirical calculations as a rapid and effective tool in software-aided mass spectral interpretation

Author keywords

[No Author keywords available]

Indexed keywords

BOND LENGTH; CARBON; DENSITY FUNCTIONAL THEORY; DISSOCIATION; ELECTROSPRAY IONIZATION; ELONGATION; FORECASTING; MOLECULES; POSITIVE IONS; QUANTUM CHEMISTRY;

EID: 84898036897     PISSN: 09514198     EISSN: 10970231     Source Type: Journal    
DOI: 10.1002/rcm.6870     Document Type: Article
Times cited : (20)

References (46)
  • 1
    • 84885908085 scopus 로고    scopus 로고
    • Understanding collision-induced dissociation of dofetilide: A case study in the application of density functional theory as an aid to mass spectral interpretation
    • P. Wright, A. Alex, S. Harvey, T. Parsons, F. Pullen,. Understanding collision-induced dissociation of dofetilide: a case study in the application of density functional theory as an aid to mass spectral interpretation. Analyst 2013, 138, 6861.
    • (2013) Analyst , vol.138 , pp. 6861
    • Wright, P.1    Alex, A.2    Harvey, S.3    Parsons, T.4    Pullen, F.5
  • 2
    • 85153986355 scopus 로고    scopus 로고
    • Mass Frontier™
    • Mass Frontier™. Available: http://www.highchem.com/massfrontier/ mass-frontier.html.
  • 3
    • 84871229677 scopus 로고    scopus 로고
    • ACD/Labs.com ACDLabs, Toronto, Canada
    • ACD/MS Fragmenter. ACDLabs, Toronto, Canada. ACD/Labs.com.
    • ACD/MS Fragmenter
  • 5
    • 77952302069 scopus 로고    scopus 로고
    • In silico fragmentation for computer assisted identification of metabolite mass spectra
    • S. Wolf, S. Schmidt, M. Müller-Hannemann, S. Neumann,. In silico fragmentation for computer assisted identification of metabolite mass spectra. BMC Bioinformatics 2010, 11, 148.
    • (2010) BMC Bioinformatics , vol.11 , pp. 148
    • Wolf, S.1    Schmidt, S.2    Müller-Hannemann, M.3    Neumann, S.4
  • 7
    • 0035410472 scopus 로고    scopus 로고
    • Computational chemistry: A useful (sometimes mandatory) tool in mass spectrometry studies
    • M. Alcamí, O. Mõ, M. Yáñez,. Computational chemistry: a useful (sometimes mandatory) tool in mass spectrometry studies. Mass Spectrom. Rev. 2001, 20, 195.
    • (2001) Mass Spectrom. Rev. , vol.20 , pp. 195
    • Alcamí, M.1    Mõ, O.2    Yáñez, M.3
  • 8
    • 84860123425 scopus 로고    scopus 로고
    • Perspective on density functional theory
    • K. Burke,. Perspective on density functional theory. J. Chem. Phys. 2012, 136, 150901.
    • (2012) J. Chem. Phys. , vol.136 , pp. 150901
    • Burke, K.1
  • 9
    • 84883226439 scopus 로고    scopus 로고
    • Synthesis, crystal structure, and DFT study of N'-(2,4-dinitrophenyl)-2- fluorobenzohydrazide
    • DOI: 10.1155/2013/648121
    • A. Saeed, I. Arshad, U. Flörke,. Synthesis, crystal structure, and DFT study of N'-(2,4-dinitrophenyl)-2-fluorobenzohydrazide. J. Chem. 2013. DOI: 10.1155/2013/648121.
    • (2013) J. Chem.
    • Saeed, A.1    Arshad, I.2    Flörke, U.3
  • 10
    • 77949623087 scopus 로고    scopus 로고
    • Using density functional theory to rationalise the mass spectral fragmentation of maraviroc and its metabolites
    • P. Wright, A. Alex, T. Nyaruwata, T. Parsons, F. Pullen,. Using density functional theory to rationalise the mass spectral fragmentation of maraviroc and its metabolites. Rapid Commun. Mass Spectrom. 2010, 24, 1025.
    • (2010) Rapid Commun. Mass Spectrom. , vol.24 , pp. 1025
    • Wright, P.1    Alex, A.2    Nyaruwata, T.3    Parsons, T.4    Pullen, F.5
  • 11
    • 69249131630 scopus 로고    scopus 로고
    • Can density functional theory (DFT) be used as an aid to a deeper understanding of tandem mass spectrometric fragmentation pathways?
    • A. Alex, S. Harvey, T. Parsons, F. S. Pullen, P. Wright, J.-A. Riley,. Can density functional theory (DFT) be used as an aid to a deeper understanding of tandem mass spectrometric fragmentation pathways? Rapid Commun. Mass Spectrom. 2009, 23, 2619.
    • (2009) Rapid Commun. Mass Spectrom. , vol.23 , pp. 2619
    • Alex, A.1    Harvey, S.2    Parsons, T.3    Pullen, F.S.4    Wright, P.5    Riley, J.-A.6
  • 12
    • 33745842472 scopus 로고
    • A semi-empirical model for the two-center repulsion integrals in the NDDO approximation
    • M. J. S. Dewar, W. Thiel,. A semi-empirical model for the two-center repulsion integrals in the NDDO approximation. Theor. Chim. Acta 1977, 46, 89.
    • (1977) Theor. Chim. Acta , vol.46 , pp. 89
    • Dewar, M.J.S.1    Thiel, W.2
  • 13
    • 33947453433 scopus 로고
    • A molecular orbital theory of organic chemistry. I. General principles
    • M. J. S. Dewar,. A molecular orbital theory of organic chemistry. I. General principles. J. Am. Chem. Soc. 1952, 74, 3341.
    • (1952) J. Am. Chem. Soc. , vol.74 , pp. 3341
    • Dewar, M.J.S.1
  • 14
    • 84867114727 scopus 로고    scopus 로고
    • Molecular structure and electronic properties of pyridylindolizine derivative containing phenyl and phenacyl groups: Comparison between semi-empirical calculations and experimental studies
    • C. Cojocaru, A. Rotaru, V. Harabagiu, L. Sacaresc,. Molecular structure and electronic properties of pyridylindolizine derivative containing phenyl and phenacyl groups: Comparison between semi-empirical calculations and experimental studies. J. Mol. Struct. 2013, 1034, 162.
    • (2013) J. Mol. Struct. , vol.1034 , pp. 162
    • Cojocaru, C.1    Rotaru, A.2    Harabagiu, V.3    Sacaresc, L.4
  • 15
    • 80955178301 scopus 로고    scopus 로고
    • Calculated carbon-hydrogen bond dissociation enthalpies for predicting oxidative susceptibility of drug substance molecules
    • T. R. Sharp,. Calculated carbon-hydrogen bond dissociation enthalpies for predicting oxidative susceptibility of drug substance molecules. Int. J. Pharm. 2011, 418, 304.
    • (2011) Int. J. Pharm. , vol.418 , pp. 304
    • Sharp, T.R.1
  • 16
    • 27844463054 scopus 로고    scopus 로고
    • The applicability of AM1 and PM3 semi-empirical methods for the study of N-H bond dissociation enthalpies and ionisation potentials of amine type antioxidants
    • E. Klein, M. Matis, V. Lukeš, Z. Cibulková,. The applicability of AM1 and PM3 semi-empirical methods for the study of N-H bond dissociation enthalpies and ionisation potentials of amine type antioxidants. Polym. Degrad. Stab. 2006, 91, 270.
    • (2006) Polym. Degrad. Stab. , vol.91 , pp. 270
    • Klein, E.1    Matis, M.2    Lukeš, V.3    Cibulková, Z.4
  • 17
    • 0842341771 scopus 로고
    • Development and use of quantum mechanical molecular models. 76. AM1: A new general purpose quantum mechanical molecular model
    • M. J. S. Dewar, E. G. Zoebisch, E. F. Healy, J. J. P. Stewart,. Development and use of quantum mechanical molecular models. 76. AM1: a new general purpose quantum mechanical molecular model. J. Am. Chem. Soc. 1985, 107, 390.2.
    • (1985) J. Am. Chem. Soc. , vol.107 , pp. 3902
    • Dewar, M.J.S.1    Zoebisch, E.G.2    Healy, E.F.3    Stewart, J.J.P.4
  • 18
    • 84867114727 scopus 로고    scopus 로고
    • Molecular structure and electronic properties of pyridylindolizine derivative containing phenyl and phenacyl groups: Comparison between semi-empirical calculations and experimental studies
    • C. Cojocaru, A. Rotaru, V. Harabagiu, L. Sacarescu,. Molecular structure and electronic properties of pyridylindolizine derivative containing phenyl and phenacyl groups: Comparison between semi-empirical calculations and experimental studies. J. Mol. Struct. 2013, 1034.
    • (2013) J. Mol. Struct. , pp. 1034
    • Cojocaru, C.1    Rotaru, A.2    Harabagiu, V.3    Sacarescu, L.4
  • 19
    • 23144449695 scopus 로고    scopus 로고
    • Performance of the DFTB method in comparison to DFT and semi-empirical methods for geometries and energies of C20-C86 fullerene isomers
    • G. Zheng, S. Irle, K. Morokuma,. Performance of the DFTB method in comparison to DFT and semi-empirical methods for geometries and energies of C20-C86 fullerene isomers. Chem. Phys. Lett. 2005, 412, 210.
    • (2005) Chem. Phys. Lett. , vol.412 , pp. 210
    • Zheng, G.1    Irle, S.2    Morokuma, K.3
  • 20
    • 84855297474 scopus 로고    scopus 로고
    • Modeling of the chemico-physical process of protonation of molecules entailing some quantum chemical descriptors
    • S. Rajak, N. Islam, D. Ghosh,. Modeling of the chemico-physical process of protonation of molecules entailing some quantum chemical descriptors. J. Quantum Inf. Sci. 2011, 1, 87.
    • (2011) J. Quantum Inf. Sci. , vol.1 , pp. 87
    • Rajak, S.1    Islam, N.2    Ghosh, D.3
  • 21
    • 84883868199 scopus 로고    scopus 로고
    • Can semi-empirical calculations help solve mass spectrometry problems? Protonation sites and proton affinities of amino acids
    • P. J. Amorim Madeir, P. D. Vaz, R. J. N. Bettencourt da Silva, M. H. Florêncio,. Can semi-empirical calculations help solve mass spectrometry problems? Protonation sites and proton affinities of amino acids. Chempluschem 2013, 78, 1149.
    • (2013) Chempluschem , vol.78 , pp. 1149
    • Amorim Madeir, P.J.1    Vaz, P.D.2    Bettencourt Da Silva, R.J.N.3    Florêncio, M.H.4
  • 22
    • 33746218430 scopus 로고    scopus 로고
    • The performance of hybrid DFT for mechanisms involving transition metal complexes in enzymes
    • P. E. M. Siegbahn,. The performance of hybrid DFT for mechanisms involving transition metal complexes in enzymes. J. Biol. Inorg. Chem. 2006, 11, 695.
    • (2006) J. Biol. Inorg. Chem. , vol.11 , pp. 695
    • Siegbahn, P.E.M.1
  • 23
    • 62149116601 scopus 로고    scopus 로고
    • Characterization of CF bonds with multiple-bond character: Bond lengths, stretching force constants, and bond dissociation energies
    • E. Kraka, D. Creme,. Characterization of CF bonds with multiple-bond character: bond lengths, stretching force constants, and bond dissociation energies. Chemphyschem 2009. 10, 686.
    • (2009) Chemphyschem , vol.10 , pp. 686
    • Kraka, E.1    Creme, D.2
  • 24
    • 33646444724 scopus 로고
    • The dependence of bond energy on bond length
    • L. Pauling,. The dependence of bond energy on bond length. J. Phys. Chem. 1954, 58, 662.
    • (1954) J. Phys. Chem. , vol.58 , pp. 662
    • Pauling, L.1
  • 26
    • 84877759735 scopus 로고    scopus 로고
    • Prediction of physicochemical properties of organic molecules using semi-empirical methods
    • C. K. Kim, S. G. Cho, C. K. Kim, M.-R. Kim, H. W. Lee,. Prediction of physicochemical properties of organic molecules using semi-empirical methods. Bull. Korean Chem. Soc. 2013, 34, 1043.
    • (2013) Bull. Korean Chem. Soc. , vol.34 , pp. 1043
    • Kim, C.K.1    Cho, S.G.2    Kim, C.K.3    Kim, M.-R.4    Lee, H.W.5
  • 27
    • 84860513037 scopus 로고    scopus 로고
    • Dissociative protonation and fragmentation: Retro-Friedel-Crafts reactions of heterocyclic drug and metabolite molecules in mass spectrometry
    • Y.-P. Tu,. Dissociative protonation and fragmentation: retro-Friedel-Crafts reactions of heterocyclic drug and metabolite molecules in mass spectrometry. Int. J. Mass Spectrom. 2012, 316/318, 40.
    • (2012) Int. J. Mass Spectrom. , vol.316-318 , pp. 40
    • Tu, Y.-P.1
  • 29
    • 0036499929 scopus 로고    scopus 로고
    • Modeling intrinsic basicities and acidities
    • M. Alcamí, O. Mõ, M. Yáñez,. Modeling intrinsic basicities and acidities. J. Phys. Org. Chem. 2002, 15, 174.
    • (2002) J. Phys. Org. Chem. , vol.15 , pp. 174
    • Alcamí, M.1    Mõ, O.2    Yáñez, M.3
  • 30
    • 67650351236 scopus 로고    scopus 로고
    • High-throughput approaches towards the definitive identification of pharmaceutical drug metabolites. 2. An example of how unexpected dissociation behaviour could preclude correct assignment of sites of metabolism
    • S. W. Holman, P. Wright, G. J. Langley,. High-throughput approaches towards the definitive identification of pharmaceutical drug metabolites. 2. An example of how unexpected dissociation behaviour could preclude correct assignment of sites of metabolism. Rapid Commun. Mass Spectrom. 2009, 23, 2017.
    • (2009) Rapid Commun. Mass Spectrom. , vol.23 , pp. 2017
    • Holman, S.W.1    Wright, P.2    Langley, G.J.3
  • 31
    • 63449114767 scopus 로고    scopus 로고
    • Are liquid chromatography/electrospray tandem quadrupole fragmentation ratios unequivocal confirmation criteria?
    • A. Kaufmann, P. Butcher, K. Maden, M. K. Widmer, K. Giles, D. Uría,. Are liquid chromatography/electrospray tandem quadrupole fragmentation ratios unequivocal confirmation criteria? Rapid Commun. Mass Spectrom. 2009, 23, 985.
    • (2009) Rapid Commun. Mass Spectrom. , vol.23 , pp. 985
    • Kaufmann, A.1    Butcher, P.2    Maden, K.3    Widmer, M.K.4    Giles, K.5    Uría, D.6
  • 32
    • 15944391659 scopus 로고    scopus 로고
    • Proton migration and its effect on the MS fragmentation of N-acetyl OMe proline: MS/MS experiments and ab initio and density functional calculations
    • I. Komáromi, A. Somogyi, V. H. Wysocki,. Proton migration and its effect on the MS fragmentation of N-acetyl OMe proline: MS/MS experiments and ab initio and density functional calculations. Int. J. Mass Spectrom. 2005, 241, 315.
    • (2005) Int. J. Mass Spectrom. , vol.241 , pp. 315
    • Komáromi, I.1    Somogyi, A.2    Wysocki, V.H.3
  • 35
    • 84877079353 scopus 로고    scopus 로고
    • Calculations of relative intensities of fragment ions in the MSMS spectra of a doubly charged penta-peptide
    • T. Pechan, S. R. Gwaltney,. Calculations of relative intensities of fragment ions in the MSMS spectra of a doubly charged penta-peptide. BMC Bioinformatics 2012, 13, S13.
    • (2012) BMC Bioinformatics , vol.13
    • Pechan, T.1    Gwaltney, S.R.2
  • 36
    • 84876234443 scopus 로고    scopus 로고
    • A predictive science approach to aid understanding of electrospray ionisation tandem mass spectrometric fragmentation pathways of small molecules using density functional calculations
    • A. Galezowska, M. W. Harrison, J. M. Herniman, C.-K. Skylaris, G. J. Langley,. A predictive science approach to aid understanding of electrospray ionisation tandem mass spectrometric fragmentation pathways of small molecules using density functional calculations. Rapid Commun. Mass Spectrom. 2013, 27, 964.
    • (2013) Rapid Commun. Mass Spectrom. , vol.27 , pp. 964
    • Galezowska, A.1    Harrison, M.W.2    Herniman, J.M.3    Skylaris, C.-K.4    Langley, G.J.5
  • 37
    • 0030000913 scopus 로고    scopus 로고
    • Role of the site of protonation in the low-energy decompositions of gas-phase peptide ions
    • K. A. Cox, S. J. Gaskell, M. Morris, A. Whiting,. Role of the site of protonation in the low-energy decompositions of gas-phase peptide ions. J. Am. Soc. Mass Spectrom. 1996, 7, 522.
    • (1996) J. Am. Soc. Mass Spectrom. , vol.7 , pp. 522
    • Cox, K.A.1    Gaskell, S.J.2    Morris, M.3    Whiting, A.4
  • 39
    • 0000131701 scopus 로고
    • Unimolecular chemistry of protonated formamide. Mass spectrometry and ab Initio quantum chemical calculations
    • H.-Y. Lin, D. P. Ridge, E. Uggerud, T. Vulpius,. Unimolecular chemistry of protonated formamide. mass spectrometry and ab Initio quantum chemical calculations. J. Am. Chem. Soc. 1994, 116, 2996.
    • (1994) J. Am. Chem. Soc. , vol.116 , pp. 2996
    • Lin, H.-Y.1    Ridge, D.P.2    Uggerud, E.3    Vulpius, T.4
  • 40
    • 0037236998 scopus 로고    scopus 로고
    • Confirmatory analysis of beta-lactam antibiotics in kidney tissue by liquid chromatography/electrospray ionization selective reaction monitoring ion trap tandem mass spectrometry
    • C. K. Fagerquist, A. R. Lightfield,. Confirmatory analysis of beta-lactam antibiotics in kidney tissue by liquid chromatography/electrospray ionization selective reaction monitoring ion trap tandem mass spectrometry. Rapid Commun. Mass Spectrom. 2003, 17, 660.
    • (2003) Rapid Commun. Mass Spectrom. , vol.17 , pp. 660
    • Fagerquist, C.K.1    Lightfield, A.R.2
  • 41
    • 14744268156 scopus 로고    scopus 로고
    • Confirmatory and quantitative analysis of beta-lactam antibiotics in bovine kidney tissue by dispersive solid-phase extraction and liquid chromatography-tandem mass spectrometry
    • C. K. Fagerquist, A. R. Lightfield, S. J. Lehotay,. Confirmatory and quantitative analysis of beta-lactam antibiotics in bovine kidney tissue by dispersive solid-phase extraction and liquid chromatography-tandem mass spectrometry. Anal. Chem. 2005, 77, 1473.
    • (2005) Anal. Chem. , vol.77 , pp. 1473
    • Fagerquist, C.K.1    Lightfield, A.R.2    Lehotay, S.J.3
  • 42
    • 82855165002 scopus 로고    scopus 로고
    • Estimation of pKa values for carboxylic acids, alcohols, phenols and amines using changes in the relative Gibbs free energy
    • Y. Zeng, X. Chen, D. Zhao, H. Li, Y. Zhang, X. Xiao,. Estimation of pKa values for carboxylic acids, alcohols, phenols and amines using changes in the relative Gibbs free energy. Fluid Phase Equilib. 2012, 313, 148.
    • (2012) Fluid Phase Equilib. , vol.313 , pp. 148
    • Zeng, Y.1    Chen, X.2    Zhao, D.3    Li, H.4    Zhang, Y.5    Xiao, X.6
  • 43
    • 84870527239 scopus 로고    scopus 로고
    • Fragmentation reactions of thiourea- and urea-compounds examined by tandem MS-, energy-resolved CID experiments, and theory
    • F. Falvo, L. Fiebig, F. Dreiocker, R. Wang, P. B. Armentrout, M. Schäfer,. Fragmentation reactions of thiourea- and urea-compounds examined by tandem MS-, energy-resolved CID experiments, and theory. Int. J. Mass Spectrom. 2012, 330/332, 124.
    • (2012) Int. J. Mass Spectrom. , vol.330-332 , pp. 124
    • Falvo, F.1    Fiebig, L.2    Dreiocker, F.3    Wang, R.4    Armentrout, P.B.5    Schäfer, M.6
  • 44
    • 44049124877 scopus 로고
    • Are the electrospray mass spectra of proteins related to their aqueous solution chemistry?
    • R. Guevremont, K. W. M. Siu, J. C. Y. Blanc, S. S. Berman,. Are the electrospray mass spectra of proteins related to their aqueous solution chemistry? J. Am. Soc. Mass Spectrom. 1992, 3, 216.
    • (1992) J. Am. Soc. Mass Spectrom. , vol.3 , pp. 216
    • Guevremont, R.1    Siu, K.W.M.2    Blanc, J.C.Y.3    Berman, S.S.4
  • 45
    • 0034327110 scopus 로고    scopus 로고
    • Applications and mechanisms of charge-remote fragmentation
    • C. Cheng, M. L. Gross,. Applications and mechanisms of charge-remote fragmentation. Mass Spectrom. Rev. 2000, 19, 398.
    • (2000) Mass Spectrom. Rev. , vol.19 , pp. 398
    • Cheng, C.1    Gross, M.L.2


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