Asymmetric charge partitioning upon dissociation of DNA duplexes

Journal of the American Society for Mass Spectrometry

Volumn 21, Issue 7, 2010, Pages 1144-1150

  Madsen, James A ^a   Brodbelt, Jennifer S ^a  

^a UNIVERSITY OF TEXAS AT AUSTIN   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

BASE PAIRS; CHARGE STATE; COLLISIONAL ACTIVATION; COLLISIONAL ENERGIES; DEGREE OF ASYMMETRY; DNA COMPLEX; DNA DUPLEXES; GASPHASE; NON-COVALENT COMPLEXES;

DNA; GENES;

DISSOCIATION;

COPOLYMER; DOUBLE STRANDED DNA; OLIGODEOXYNUCLEOTIDE;

ARTICLE; BIOMASS PARTITIONING; CHEMICAL INTERACTION; CONTROLLED STUDY; DISSOCIATION; DNA CONFORMATION; HYDROGEN BOND; MASS SPECTROMETRY; SPECTROPHOTOMETRY;

BASE COMPOSITION; DNA; DNA, SINGLE-STRANDED; IONS; MASS SPECTROMETRY; THERMODYNAMICS;

EID: 77953917250     PISSN: 10440305     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.jasms.2010.03.003     Document Type: Article

References (31)

1. van den Heuvel R.H.H., Heck A.J.R. Native Protein Mass Spectrometry: From Intact Oligomers to Functional Machineries. Curr. Opin. Chem. Biol. 2004, 8:519-526.
2. Benesch J.L.P., Robinson C.V. Mass Spectrometry of Macromolecular Assemblies: Preservation and Dissociation. Curr. Opin. Struct. Biol. 2006, 16:245-251.
3. Felitsyn N., Kitova E.N., Klassen J.S. Thermal Decomposition of a Gaseous Multiprotein Complex Studied by Blackbody Infrared Radiative Dissociation. Investigating the Origin of the Asymmetric Dissociation Behavior. Anal. Chem. 2001, 73:4647-4661.
4. Benesch J.L.P., Sobott F., Robinson C.V. Thermal Dissociation of Multimeric Protein Complexes by Using Nanoelectrospray Mass Spectrometry. Anal. Chem. 2003, 75:2208-2214.
5. Schwartz B.L., Bruce J.E., Anderson G.A., Hofstadler S.A., Rockwood A.L., Smith R.D., Chilkoti A., Stayton P.S. Dissociation of Tetrameric Ions of Noncovalent Streptavidin Complexes Formed by Electrospray Ionization. J. Am. Soc. Mass Spectrom. 1995, 6:459-465.
6. Versluis C., van der Staaij A., Stokvis E., Heck A.J.R., de Craene B. Metastable Ion Formation and Disparate Charge Separation in the Gas-Phase Dissection of Protein Assemblies Studied by Orthogonal Time-of-Flight Mass Spectrometry. J. Am. Soc. Mass Spectrom. 2001, 12:329-336.
7. Zhang Z., Krutchinsky A., Endicott S., Realini C., Rechsteiner M., Standing K.G. Proteasome Activator 11S REG or PA28: Recombinant REGα/REGβ Hetero-oligomers Are Heptamers. Biochemistry 1999, 38:5651-5658.
8. Rostom A.A., Sunde M., Richardson S.J., Schreiber G., Jarvis S., Bateman R., Dobson C.M., Robinson C.V. Dissection of Multi-Protein Complexes Using Mass Spectrometry: Subunit Interactions in Transthyretin and Retinol-Binding Protein Complexes. Proteins: Struct. Funct. Genet. 1998, 33:3-11.
9. Light-Wahl K.J., Schwartz B.L., Smith R.D. Observation of the Noncovalent Quaternary Associations of Proteins by Electrospray Ionization Mass Spectrometry. J. Am. Chem. Soc. 1994, 116:5271-5278.
10. Fitzgerald M.C., Chernushevich I., Standing k.G., Whitman C.P., Kent S.B.H. Probing the Oligomeric Structure of an Enzyme by Electrospray Ionization Time-of-Flight Mass Spectrometry. Proc. Natl. Acad. Sci. U.S.A 1996, 93:6851-6856.
11. Rostom A.A., Fucini P., Benjamin D.R., Juenemann R., Nierhaus K.H., Hartl F.U., Dobson C.M., Robinson C.V. Detection and Selective Dissociation of Intact Ribosomes in a Mass Spectrometer. Proc. Natl. Acad. Sci. U.S.A 2000, 97:5185-5190.
12. Fandrich M., Tito M.A., Leroux M.R., Rostom A.A., Hartl F.U., Dobson C.M., Robinson C.V. Observation of the Noncovalent Assembly and Disassembly Pathways of the Chaperone Complex MtGimC by Mass Spectrometry. Proc. Natl. Acad. Sci. U.S.A 2000, 97:14151-14155.
13. Aquilina J.A., Benesch J.L.P., Bateman O.A., Slingsby C., Robinson C.V. Polydispersity of a Mammalian Chaperone: Mass Spectrometry Reveals the Population of Oligomers in α B-crystallin. Proc. Natl. Acad. Sci. U.S.A 2003, 100:10611-10616.
14. Benesch J.L.P., Aquilina J.A., Ruotolo B.T., Sobott F., Robinson C.V. Tandem Mass Spectrometry Reveals the Quaternary Organization of Macromolecular Assemblies. Chem. Biol. 2006, 13:597-605.
15. Jurchen J.C., Williams E.R. Origin of Asymmetric Charge Partitioning in the Dissociation of Gas-Phase Protein Homodimers. J. Am. Chem. Soc. 2003, 125:2817-2826.
16. Jurchen J.C., Garcia D.E., Williams E.R. Further Studies on the Origins of Asymmetric Charge Partitioning in Protein Homodimers. J. Am. Soc. Mass. Spectrom. 2004, 15:1408-1415.
17. Wanasundara S.N., Thachuk M. Theoretical Investigations of the Dissociation of Charged Protein Complexes in the Gas Phase. J. Am. Soc. Mass Spectrom. 2007, 18:2242-2253.
18. Csiszar S., Thachuk M. Using Ellipsoids to Model Charge Distributions in Gas Phase Protein Complex Ion Dissociation. Can. J. Chem. 2004, 82:1736-1744.
19. Wanasundara S.N., Thachuk M. Free Energy Barrier Estimation for the Dissociation of Charged Protein Complexes in the Gas Phase. J. Phys. Chem. A 2009, 113:3814-3821.
20. Jones C.M., Beardsley R.L., Galhena A.S., Dagan S., Cheng G., Wysocki V.H. Symmetrical Gas-Phase Dissociation of Noncovalent Protein Complexes via Surface Collisions. J. Am. Chem. Soc. 2006, 128:15044-15045.
21. Beardsley R.L., Jones C.M., Galhena A.S., Wysocki V.H. Noncovalent Protein Tetramers and Pentamers with "n" Charges Yield Monomers with n/4 and n/5 Charges. Anal. Chem. 2009, 81:1347-1356.
22. Schnier P.D., Klassen J.S., Strittmatter E.F., Williams E.R. Activation Energies for Dissociation of Double Strand Oligonucleotide Anions: Evidence for Watson-Crick Base Pairing In Vacuo. J. Am. Chem. Soc. 1998, 120:9605-9613.
23. Gabelica V., De Pauw E. Collision-Induced Dissociation of 16-mer DNA Duplexes with Various Sequences: Evidence for Conservation of the Double Helix Conformation in the Gas Phase. Int. J. Mass Spectrom. 2002, 219:151-159.
24. Gabelica V., De Pauw E. Comparison Between Solution-Phase Stability and Gas-Phase Kinetic Stability of Oligodeoxynucleotide Duplexes. J. Mass Spectrom. 2001, 36:397-402.
25. Rueda M., Kalko S.G., Luque F.J., Orozco M. The Structure and Dynamics of DNA in the Gas Phase. J. Am. Chem. Soc. 2003, 125:8007-8014.
26. Danell A.S., Parks J.H. Fraying and Electron Autodetachment Dynamics of Trapped Gas-Phase Oligonucleotides. J. Am. Soc. Mass Spectrom. 2003, 14:1330-1339.
27. Danell A.S., Parks J.H. FRET Measurements of Trapped Oligonucleotide Duplexes. Int. J. Mass Spectrom. 2003, 229:35-45.
28. Gabelica V., De Pauw E. Comparison of the Collision-Induced dissociation of duplex DNA at different collision regimes: Evidence for a Multistep Dissociation Mechanism. J. Am. Soc. Mass Spectrom. 2002, 13:91-98.
29. Gidden J., Ferzoco A., Baker E.S., Bowers M.T. Duplex Formation and the Onset of Helicity in Poly d(CG)n Oligonucleotides in a Solvent-Free Environment. J. Am. Chem. Soc. 2004, 126:15132-15140.
30. Gidden J., Baker E.S., Ferzoco A., Bowers M.T. Structural Motifs of DNA Complexes in the Gas Phase. Int. J. Mass Spectrom. 2005, 240:183-193.
31. Baker E.S., Bowers M.T.B. -DNA Helix Stability in a Solvent-Free Environment. J. Am. Soc. Mass Spectrom. 2007, 18:1188-1195.