Literature DB >> 17125389

The guanine cation radical: investigation of deprotonation states by ESR and DFT.

Amitava Adhikary1, Anil Kumar, David Becker, Michael D Sevilla.   

Abstract

This work reports ESR studies that identify the favored site of deprotonation of the guanine cation radical (G*+) in an aqueous medium at 77 K. Using ESR and UV-visible spectroscopy, one-electron oxidized guanine is investigated in frozen aqueous D2O solutions of 2'-deoxyguanosine (dGuo) at low temperatures at various pHs at which the guanine cation radical, G*+ (pH 3-5), singly deprotonated species, G(-H)* (pH 7-9), and doubly deprotonated species, G(-2H)*- (pH > 11), are found. C-8-deuteration of dGuo to give 8-D-dGuo removes the major proton hyperfine coupling at C-8. This isolates the anisotropic nitrogen couplings for each of the three species and aids our analyses. These anisotropic nitrogen couplings were assigned to specific nitrogen sites by use of 15N-substituted derivatives at N1, N2, and N3 atoms in dGuo. Both ESR and UV-visible spectra are reported for each of the species: G*+, G(-H)*, and G(-2H)*-. The experimental anisotropic ESR hyperfine couplings are compared to those obtained from DFT calculations for the various tautomers of G(-H)*. Using the B3LYP/6-31G(d) method, the geometries and energies of G*+ and its singly deprotonated state in its two tautomeric forms, G(N1-H)* and G(N2-H)*, were investigated. In a nonhydrated state, G(N2-H)* is found to be more stable than G(N1-H)*, but on hydration with seven water molecules G(N1-H)* is found to be more stable than G(N2-H)*. The theoretically calculated hyperfine coupling constants (HFCCs) of G*+, G(N1-H)*, and G(-2H)*- match the experimentally observed HFCCs best on hydration with seven or more waters. For G(-2H)*-, the hyperfine coupling constant (HFCC) at the exocyclic nitrogen atom (N2) is especially sensitive to the number of hydrating water molecules; good agreement with experiment is not obtained until nine or 10 waters of hydration are included.

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Year:  2006        PMID: 17125389      PMCID: PMC2526163          DOI: 10.1021/jp064361y

Source DB:  PubMed          Journal:  J Phys Chem B        ISSN: 1520-5207            Impact factor:   2.991


  34 in total

1.  Mechanistic aspects of radiation-induced free radical formation in frozen aqueous solutions of DNA constituents: consequences for DNA?

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2.  Electron-transfer-induced acidity/basicity and reactivity changes of purine and pyrimidine bases. Consequences of redox processes for DNA base pairs.

Authors:  S Steenken
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3.  Influence of DNA structure on the reactivity of the guanine radical cation.

Authors:  Francesco Luigi Gervasio; Alessandro Laio; Marcella Iannuzzi; Michele Parrinello
Journal:  Chemistry       Date:  2004-10-04       Impact factor: 5.236

4.  Radical formation in X-irradiated single crystals of guanine hydrochloride monohydrate. II. ESR and ENDOR in the range 10-77 K.

Authors:  D M Close; W H Nelson; E Sagstuen
Journal:  Radiat Res       Date:  1987-11       Impact factor: 2.841

5.  Hydration effects on free radical yields in DNA X-irradiated at 4 K.

Authors:  N Mroczka; W A Bernhard
Journal:  Radiat Res       Date:  1993-08       Impact factor: 2.841

6.  An efficient and economic site-specific deuteration strategy for NMR studies of homologous oligonucleotide repeat sequences.

Authors:  X Huang; P Yu; E LeProust; X Gao
Journal:  Nucleic Acids Res       Date:  1997-12-01       Impact factor: 16.971

7.  The structure of the guanine cation: ESR/ENDOR of cyclic guanosine monophosphate single crystals after X irradiation at 10 K.

Authors:  E O Hole; E Sagstuen; W H Nelson; D M Close
Journal:  Radiat Res       Date:  1992-01       Impact factor: 2.841

8.  Direct observation of guanine radical cation deprotonation in duplex DNA using pulse radiolysis.

Authors:  Kazuo Kobayashi; Seiichi Tagawa
Journal:  J Am Chem Soc       Date:  2003-08-27       Impact factor: 15.419

9.  Electron paramagnetic resonance investigation of X-irradiated poly(U), poly(A) and poly(A):poly(U): influence of hydration, packing and conformation on radical yield at 4 K.

Authors:  N E Mroczka; W A Bernhard
Journal:  Radiat Res       Date:  1995-12       Impact factor: 2.841

10.  UVA-visible photo-excitation of guanine radical cations produces sugar radicals in DNA and model structures.

Authors:  Amitava Adhikary; Aramice Y S Malkhasian; Sean Collins; Jessica Koppen; David Becker; Michael D Sevilla
Journal:  Nucleic Acids Res       Date:  2005-10-04       Impact factor: 16.971

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  49 in total

Review 1.  Proton-coupled electron transfer in DNA on formation of radiation-produced ion radicals.

Authors:  Anil Kumar; Michael D Sevilla
Journal:  Chem Rev       Date:  2010-05-05       Impact factor: 60.622

2.  Independent Generation and Reactivity of 2'-Deoxyguanosin-N1-yl Radical.

Authors:  Liwei Zheng; Marc M Greenberg
Journal:  J Org Chem       Date:  2020-06-11       Impact factor: 4.354

3.  Prototropic equilibria in DNA containing one-electron oxidized GC: intra-duplex vs. duplex to solvent deprotonation.

Authors:  Amitava Adhikary; Anil Kumar; Shawn A Munafo; Deepti Khanduri; Michael D Sevilla
Journal:  Phys Chem Chem Phys       Date:  2010       Impact factor: 3.676

4.  Formation of S-Cl phosphorothioate adduct radicals in dsDNA S-oligomers: hole transfer to guanine vs disulfide anion radical formation.

Authors:  Amitava Adhikary; Anil Kumar; Brian J Palmer; Andrew D Todd; Michael D Sevilla
Journal:  J Am Chem Soc       Date:  2013-08-14       Impact factor: 15.419

5.  π- vs σ-radical states of one-electron-oxidized DNA/RNA bases: a density functional theory study.

Authors:  Anil Kumar; Michael D Sevilla
Journal:  J Phys Chem B       Date:  2013-09-19       Impact factor: 2.991

6.  Sugar radical formation by a proton coupled hole transfer in 2'-deoxyguanosine radical cation (2'-dG*+): a theoretical treatment.

Authors:  Anil Kumar; Michael D Sevilla
Journal:  J Phys Chem B       Date:  2009-10-08       Impact factor: 2.991

7.  Highly oxidizing excited states of one-electron-oxidized guanine in DNA: wavelength and pH dependence.

Authors:  Deepti Khanduri; Amitava Adhikary; Michael D Sevilla
Journal:  J Am Chem Soc       Date:  2011-03-07       Impact factor: 15.419

8.  Density functional theory studies of the extent of hole delocalization in one-electron oxidized adenine and guanine base stacks.

Authors:  Anil Kumar; Michael D Sevilla
Journal:  J Phys Chem B       Date:  2011-03-21       Impact factor: 2.991

9.  Gamma and Ion-Beam Irradiation of DNA: Free Radical Mechanisms, Electron Effects, and Radiation Chemical Track Structure.

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10.  Synthesis and EPR studies of 2'-deoxyuridines with alkynyl, rodlike linkages.

Authors:  Adam Sniady; Michael D Sevilla; Srinivasarao Meneni; Tadeusz Lis; Slawomir Szafert; Deepthi Khanduri; John M Finke; Roman Dembinski
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