51
|
Dawley MM, Tanzer K, Cantrell WA, Plattner P, Brinkmann NR, Scheier P, Denifl S, Ptasińska S. Electron ionization of the nucleobases adenine and hypoxanthine near the threshold: a combined experimental and theoretical study. Phys Chem Chem Phys 2014; 16:25039-53. [DOI: 10.1039/c4cp03452j] [Citation(s) in RCA: 19] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
|
52
|
Chen HY, Yang PY, Chen HF, Kao CL, Liao LW. DFT reinvestigation of DNA strand breaks induced by electron attachment. J Phys Chem B 2014; 118:11137-44. [PMID: 25184499 DOI: 10.1021/jp506679b] [Citation(s) in RCA: 29] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Abstract] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/28/2023]
Abstract
The benchmark study of DFT methods on the activation energies of phosphodiester C3'-O and C5'-O bond ruptures and glycosidic C1'-N bond ruptures induced by electron attachment was performed. While conventional pure and hybrid functionals provide a relatively reasonable description for the C1'-N bond rupture, they significantly underestimate the energy barriers of the C-O bond ruptures. This is because the transition states of the later reactions, which are characterized by an electron distribution delocalized from the nucleobase to sugar-phosphate backbone, suffer from a severe self-interaction error in common DFT methods. CAM-B3LYP, M06-2X, and ωB97XD are the top three methods that emerged from the benchmark study; the mean absolute errors relative to the CCSD(T) values are 1.7, 1.9, and 2.2 kcal/mol, respectively. The C-O bond cleavages of 3'- and 5'-dXMP(•-), where X represents four nucleobases, were then recalculated at the M06-2X/6-31++G**//M06-2X/6-31+G* level, and it turned out that the C-O bond cleavages do not proceed as easily as previously predicted by the B3LYP calculations. Our calculations revealed that the C-O bonds of purine nucleotides are more susceptible than pyrimidine nucleotides to the electron attachment. The energies of electron attachment to nucleotides were calculated and discussed as well.
Collapse
Affiliation(s)
- Hsing-Yin Chen
- Department of Medicinal and Applied Chemistry, Kaohsiung Medical University , Kaohsiung 807, Taiwan
| | | | | | | | | |
Collapse
|
53
|
Tanzer K, Feketeová L, Puschnigg B, Scheier P, Illenberger E, Denifl S. Reaktionen in Nitroimidazol, ausgelöst durch niederenergetische (0-2 eV) Elektronen: Methylierung an N1-H blockiert die Reaktivität. Angew Chem Int Ed Engl 2014. [DOI: 10.1002/ange.201407452] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/07/2022]
|
54
|
Dreiling JM, Gay TJ. Chirally sensitive electron-induced molecular breakup and the Vester-Ulbricht hypothesis. PHYSICAL REVIEW LETTERS 2014; 113:118103. [PMID: 25260009 DOI: 10.1103/physrevlett.113.118103] [Citation(s) in RCA: 31] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/06/2014] [Indexed: 06/03/2023]
Abstract
We have studied dissociative electron attachment in sub-eV collisions between longitudinally polarized electrons and chiral bromocamphor molecules. For a given target enantiomer, the dissociative Br anion production depends on the helicity of the incident electrons, with an asymmetry that depends on the electron energy and is of order 3×10^{-4}. The existence of chiral sensitivity in a well-defined molecular breakup reaction demonstrates the viability of the Vester-Ulbrict hypothesis, namely, that the longitudinal polarization of cosmic beta radiation was responsible for the origins of biological homochirality.
Collapse
Affiliation(s)
- J M Dreiling
- Jorgensen Hall, University of Nebraska, Lincoln, Nebraska 68588-0299, USA
| | - T J Gay
- Jorgensen Hall, University of Nebraska, Lincoln, Nebraska 68588-0299, USA
| |
Collapse
|
55
|
|
56
|
Alizadeh E, Sanz AG, Madugundu GS, García G, Wagner JR, Sanche L. Thymidine Decomposition Induced by Low-Energy Electrons and Soft X Rays under N2and O2Atmospheres. Radiat Res 2014; 181:629-40. [DOI: 10.1667/rr13584.1] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/03/2022]
|
57
|
Kopyra J, Freza S, Abdoul-Carime H, Marchaj M, Skurski P. Dissociative electron attachment to gas phase thiothymine: experimental and theoretical approaches. Phys Chem Chem Phys 2014; 16:5342-8. [DOI: 10.1039/c3cp54966f] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/29/2023]
|
58
|
Kopyra J, Abdoul-Carime H, Kossoski F, Varella MTDN. Electron driven reactions in sulphur containing analogues of uracil: the case of 2-thiouracil. Phys Chem Chem Phys 2014; 16:25054-61. [DOI: 10.1039/c4cp03544e] [Citation(s) in RCA: 18] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
Electron induced fragmentation of 2-thiouracil.
Collapse
Affiliation(s)
- J. Kopyra
- Chemistry Department
- Siedlce University
- 08-110 Siedlce, Poland
| | - H. Abdoul-Carime
- Université de Lyon
- Université Lyon 1
- CNRS/IN2P3
- UMR5822
- Institut de Physique Nucléaire de Lyon
| | - F. Kossoski
- Instituto de Fisica
- Universidade de São Paulo
- 05314-970 São Paulo, Brazil
| | | |
Collapse
|
59
|
Davis D, Sajeev Y. Low-energy-electron induced permanently reactive CO2 molecules. Phys Chem Chem Phys 2014; 16:17408-11. [DOI: 10.1039/c4cp02701a] [Citation(s) in RCA: 18] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/16/2023]
Abstract
The low-energy-electron induced conversion of the non-reactive CO2 molecule to its permanently reactive distonic-type radical anion.
Collapse
Affiliation(s)
- Daly Davis
- Department of Nuclear and Atomic Physics
- Tata Institute of Fundamental Research
- Mumbai 400 005, India
| | - Y. Sajeev
- Theoretical Chemistry Section
- Bhabha Atomic Research Centre
- Mumbai 400 085, India
| |
Collapse
|
60
|
Sajeev Y. Real-valued continuum remover potential: An improved L2-stabilization method for the chemistry of electronic resonance states. Chem Phys Lett 2013. [DOI: 10.1016/j.cplett.2013.09.052] [Citation(s) in RCA: 17] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/26/2022]
|
61
|
da Silva FF, Matias C, Almeida D, García G, Ingólfsson O, Flosadóttir HD, Ómarsson B, Ptasinska S, Puschnigg B, Scheier P, Limão-Vieira P, Denifl S. NCO(-), a key fragment upon dissociative electron attachment and electron transfer to pyrimidine bases: site selectivity for a slow decay process. JOURNAL OF THE AMERICAN SOCIETY FOR MASS SPECTROMETRY 2013; 24:1787-97. [PMID: 24043519 DOI: 10.1007/s13361-013-0715-9] [Citation(s) in RCA: 32] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/06/2013] [Revised: 06/26/2013] [Accepted: 06/27/2013] [Indexed: 05/25/2023]
Abstract
We report gas phase studies on NCO(-) fragment formation from the nucleobases thymine and uracil and their N-site methylated derivatives upon dissociative electron attachment (DEA) and through electron transfer in potassium collisions. For comparison, the NCO(-) production in metastable decay of the nucleobases after deprotonation in matrix assisted laser desorption/ionization (MALDI) is also reported. We show that the delayed fragmentation of the dehydrogenated closed-shell anion into NCO(-) upon DEA proceeds few microseconds after the electron attachment process, indicating a rather slow unimolecular decomposition. Utilizing partially methylated thymine, we demonstrate that the remarkable site selectivity of the initial hydrogen loss as a function of the electron energy is preserved in the prompt as well as the metastable NCO(-) formation in DEA. Site selectivity in the NCO(-) yield is also pronounced after deprotonation in MALDI, though distinctly different from that observed in DEA. This is discussed in terms of the different electronic states subjected to metastable decay in these experiments. In potassium collisions with 1- and 3-methylthymine and 1- and 3-methyluracil, the dominant fragment is the NCO(-) ion and the branching ratios as a function of the collision energy show evidence of extraordinary site-selectivity in the reactions yielding its formation.
Collapse
Affiliation(s)
- Filipe Ferreira da Silva
- Laboratório de Colisões Atómicas e Moleculares, CEFITEC, Departamento de Física, Faculdade de Ciências e Tecnologia, Universidade Nova de Lisboa, Campus de Caparica, 2829-516, Caparica, Portugal
| | | | | | | | | | | | | | | | | | | | | | | |
Collapse
|
62
|
Park Y, Peoples AR, Madugundu GS, Sanche L, Wagner JR. Side-by-side comparison of DNA damage induced by low-energy electrons and high-energy photons with solid TpTpT trinucleotide. J Phys Chem B 2013; 117:10122-31. [PMID: 23909580 PMCID: PMC3817083 DOI: 10.1021/jp405397m] [Citation(s) in RCA: 19] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/06/2023]
Abstract
The genotoxic effects of high-energy ionizing radiation have been largely attributed to the ionization of H2O leading to hydroxyl radicals and the ionization of DNA leading mostly to damage through base radical cations. However, the contribution of low-energy electrons (LEEs; ≤ 10 eV), which involves subionization events, has been considered to be less important than that of hydroxyl radicals and base radical cations. Here, we compare the ability of LEEs and high-energy X-ray photons to induce DNA damage using dried thin films of TpTpT trinucleotide as a simple and representative model for DNA damage. The main radiation-induced damage of TpTpT as measured by high-performance liquid chromatography (HPLC) with UV detection and HPLC coupled to tandem mass spectrometry analyses included thymine release (-Thy), strand breaks (pT, Tp, pTpT, TpTp, and TpT), and the formation of base modifications [5,6-dihydrothymine (5,6-dhT), 5-hydroxymethyluracil (5-hmU), and 5-formyluracil (5-fU)]. The global profile of products was very similar for both types of radiation indicating converging pathways of formation. The percent damage of thymine release, fragmentation, and base modification was 20, 19, and 61 for high-energy X-rays, respectively, compared to 35, 13, and 51 for LEEs (10 eV). Base release was significantly lower for X-rays. In both cases, phosphodiester bond cleavage gave mononucleotides (pT and Tp) and dinucleotides (pTpT and TpTp) containing a terminal phosphate as the major fragments. For base modifications, the ratio of reductive (5,6-dhT) to oxidative products (5-hmU plus 5-fU) was 0.9 for high-energy X-rays compared to 1.7 for LEEs. These results indicate that LEEs give a similar profile of products compared to ionizing radiation.
Collapse
Affiliation(s)
- Yeunsoo Park
- Department of Nuclear Medicine and Radiobiology, Faculty of Medicine and Heath Sciences, Université de Sherbrooke, Sherbrooke, Quebec, Canada J1H 5N4
- Fundamental Technology Division, Plasma Technology Research Center, National Fusion Research Institute, Gunsan, Jeollabuk-do, South Korea 573-540
| | - Anita R. Peoples
- Department of Biochemistry and Biophysics, School of Medicine and Dentistry, University of Rochester, Rochester, NY 14642, USA
| | - Guru S. Madugundu
- Department of Nuclear Medicine and Radiobiology, Faculty of Medicine and Heath Sciences, Université de Sherbrooke, Sherbrooke, Quebec, Canada J1H 5N4
| | - Léon Sanche
- Department of Nuclear Medicine and Radiobiology, Faculty of Medicine and Heath Sciences, Université de Sherbrooke, Sherbrooke, Quebec, Canada J1H 5N4
| | - J. Richard Wagner
- Department of Nuclear Medicine and Radiobiology, Faculty of Medicine and Heath Sciences, Université de Sherbrooke, Sherbrooke, Quebec, Canada J1H 5N4
| |
Collapse
|
63
|
Hydrogen release from charged fragments of the uracil cation followed by their fragmentation: A DFT study. Chem Phys Lett 2013. [DOI: 10.1016/j.cplett.2013.07.082] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/23/2022]
|
64
|
Shao P, Kuang XY, Ding LP, Zhao YR. Structures, electrophilic properties, and hydrogen bonds of cytidine, uridine, and their radical anions: Microhydration effects. J Chem Phys 2013; 139:024305. [PMID: 23862941 DOI: 10.1063/1.4812500] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/31/2022] Open
Abstract
Structures, electrophilic properties, and hydrogen bonds of the neutral and anionic monohydrated nucleoside, (cytidine)H2O, and (uridine)H2O have been systematically investigated using density functional theory. Various water-binding sites were predicted by explicitly considering the optimized monohydrated structures. Meanwhile, predictions of electron affinities and vertical detachment energies were also carried out to investigate their electrophilic properties. By examining the singly occupied molecular orbital and natural population analysis, we found the excess negative charge is localized on the cytidine and uridine moiety in anionic monohydrates. This may be the reason why the strength of hydrogen bonding undergoes an obvious change upon the extra electron attachment. Based on the electron density (ρ) and reduced density gradient (RDG), we present an approach to map and analyze the weak interaction (especially hydrogen bond) in monohydrated cytidine and uridine. The scatter plots of RDG versus ρ allow us to identify the different type interactions. Meanwhile, the maps of the gradient isosurfaces show a rich visualization of hydrogen bond, van der Waals interaction, and steric effect.
Collapse
Affiliation(s)
- Peng Shao
- Institute of Atomic and Molecular Physics, Sichuan University, Chengdu 610065, China
| | | | | | | |
Collapse
|
65
|
Freitas TC, Coutinho K, Varella MTDN, Lima MAP, Canuto S, Bettega MHF. Electron collisions with the HCOOH⋯(H2O)n complexes (n = 1, 2) in liquid phase: The influence of microsolvation on the π* resonance of formic acid. J Chem Phys 2013; 138:174307. [DOI: 10.1063/1.4803119] [Citation(s) in RCA: 20] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/26/2023] Open
|
66
|
Ghosh AK, Chattopadhyay A, Mukhopadhyay A, Chakraborty T. Isomeric effects on fragmentations of crotonaldehyde and methacrolein in low-energy electron–molecule collisions. Chem Phys Lett 2013. [DOI: 10.1016/j.cplett.2013.01.026] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/27/2022]
|
67
|
Chiari L, Anderson E, Tattersall W, Machacek JR, Palihawadana P, Makochekanwa C, Sullivan JP, García G, Blanco F, McEachran RP, Brunger MJ, Buckman SJ. Total, elastic, and inelastic cross sections for positron and electron collisions with tetrahydrofuran. J Chem Phys 2013; 138:074301. [PMID: 23445003 DOI: 10.1063/1.4789584] [Citation(s) in RCA: 27] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/14/2023] Open
Affiliation(s)
- Luca Chiari
- ARC Centre for Antimatter-Matter Studies, School of Chemical and Physical Sciences, Flinders University, GPO Box 2100, Adelaide, SA 5001, Australia
| | | | | | | | | | | | | | | | | | | | | | | |
Collapse
|
68
|
Chiari L, Palihawadana P, Machacek JR, Makochekanwa C, García G, Blanco F, McEachran RP, Brunger MJ, Buckman SJ, Sullivan JP. Experimental and theoretical cross sections for positron collisions with 3-hydroxy-tetrahydrofuran. J Chem Phys 2013; 138:074302. [DOI: 10.1063/1.4790620] [Citation(s) in RCA: 19] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
|
69
|
Almeida D, Ferreira da Silva F, García G, Limão-Vieira P. Selective bond cleavage in potassium collisions with pyrimidine bases of DNA. PHYSICAL REVIEW LETTERS 2013; 110:023201. [PMID: 23383904 DOI: 10.1103/physrevlett.110.023201] [Citation(s) in RCA: 25] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/12/2012] [Indexed: 06/01/2023]
Abstract
Electron transfer in alkali-molecule collisions to gas phase thymine and uracil yielding H- formation is selectively controlled in the energy range between 5.3 and 66.1 eV. By tuning the collision energy, electron transfer from the alkali to partly deuterated thymine, methylated thymine at the N1 and methylated uracil at the N3 positions, H- loss proceeds not only through the breaking of the (C-H) against (N-H) bonds but also through N1 against N3 sites. Such selectivity, as far as bond and site are concerned, is here reported for the first time by electron transfer induced dissociation experiments in alkali-molecule collisions.
Collapse
Affiliation(s)
- Diogo Almeida
- Laboratório de Colisões Atómicas e Moleculares, CEFITEC, Departamento de Física, Faculdade de Ciências e Tecnologia, Universidade Nova de Lisboa, 2829-516 Caparica, Portugal
| | | | | | | |
Collapse
|
70
|
Puschnigg B, Huber SE, Probst M, Tanzer K, Vizcaino V, Ferreira da Silva F, Scheier P, Limão-Vieira P, Denifl S. Electron attachment to the dipeptide dialanine: influence of methylation on site selective dissociation reactions. Phys Chem Chem Phys 2013; 15:3834-40. [DOI: 10.1039/c3cp44230f] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
|
71
|
Michaud M, Bazin M, Sanche L. Absolute cross sections for vibrational excitations of cytosine by low energy electron impact. J Chem Phys 2012; 137:115103. [PMID: 22998289 PMCID: PMC3812122 DOI: 10.1063/1.4752655] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
Abstract
The absolute cross sections (CSs) for vibrational excitations of cytosine by electron impact between 0.5 and 18 eV were measured by electron-energy loss (EEL) spectroscopy of the molecule deposited at monolayer coverage on an inert Ar substrate. The vibrational energies compare to those that have been reported from IR spectroscopy of cytosine isolated in Ar matrix, IR and Raman spectra of polycrystalline cytosine, and ab initio calculation. The CSs for the various H bending modes at 142 and 160 meV are both rising from their energy threshold up to 1.7 and 2.1 × 10(-17) cm(2) at about 4 eV, respectively, and then decrease moderately while maintaining some intensity at 18 eV. The latter trend is displayed as well for the CS assigned to the NH(2) scissor along with bending of all H at 179 meV. This overall behavior in electron-molecule collision is attributed to direct processes such as the dipole, quadrupole, and polarization contributions, etc. of the interaction of the incident electron with a molecule. The CSs for the ring deformation at 61 meV, the ring deformation with N-H symmetric wag at 77 meV, and the ring deformations with symmetric bending of all H at 119 meV exhibit common enhancement maxima at 1.5, 3.5, and 5.5 eV followed by a broad hump at about 12 eV, which are superimposed on the contribution due to the direct processes. At 3.5 eV, the CS values for the 61-, 77-, and 119-meV modes reach 4.0, 3.0, and 4.5 × 10(-17) cm(2), respectively. The CS for the C-C and C-O stretches at 202 meV, which dominates in the intermediate EEL region, rises sharply until 1.5 eV, reaches its maximum of 5.7 × 10(-17) cm(2) at 3.5 eV and then decreases toward 18 eV. The present vibrational enhancements, correspond to the features found around 1.5 and 4.5 eV in electron transmission spectroscopy (ETS) and those lying within 1.5-2.1 eV, 5.2-6.8 eV, and 9.5-10.9 eV range in dissociative electron attachment (DEA) experiments with cytosine in gas phase. While the ETS features are ascribed to shape resonances associated with the electron occupation of the second and third antibonding π-orbitals of the molecule in its ground state, the correspondence with DEA features suggests the existence of common precursor anion states decaying with certain probabilities into the vibrationally excited ground state.
Collapse
Affiliation(s)
- M Michaud
- Département de Médecine Nucléaire et Radiobiologie, Faculté de Médecine et Sciences de la Santé, Université de Sherbrooke, Sherbrooke, Québec J1H 5N4, Canada.
| | | | | |
Collapse
|
72
|
Park Y, Polska K, Rak J, Wagner JR, Sanche L. Fundamental mechanisms of DNA radiosensitization: damage induced by low-energy electrons in brominated oligonucleotide trimers. J Phys Chem B 2012; 116:9676-82. [PMID: 22812492 DOI: 10.1021/jp304964r] [Citation(s) in RCA: 54] [Impact Index Per Article: 4.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Abstract
The replacement of nucleobases with brominated analogs enhances DNA radiosensitivity. We examine the chemistry of low-energy electrons (LEEs) in this sensitization process by experiments with thin films of the oligonucleotide trimers TBrXT, where BrX = 5-BrU (5-bromouracil), 5-BrC (5-bromocytosine), 8-BrA (8-bromoadenine), or 8-BrG (8-bromoguanine). The products induced from irradiation of thin (∼ 2.5 nm) oligonucleotide films, with 10 eV electrons, under ultrahigh vacuum (UHV) are analyzed by HPLC-UV. The number of damaged brominated trimers ranges from about 12 to 15 × 10(-3) molecules per incident electron, whereas under the identical conditions, these numbers drop to 4-7 × 10(-3) for the same, but nonbrominated oligonucleotides. The results of HPLC analysis show that the main degradation pathway of trinucleotides containing brominated bases involve debromination (i.e., loss of the bromine atom and its replacement with a hydrogen atom). The electron-induced sum of products upon bromination increases by factors of 2.1 for the pyrimidines and 3.2 for the purines. Thus, substitution of any native nucleobase with a brominated one in simple models of DNA increases LEE-induced damage to DNA and hence its radiosensitivity. Furthermore, besides the brominated pyrimidines that have already been tested in clinical trials, brominated purines not only appear to be promising sensitizers for radiotherapy, but could provide a higher degree of radiosensitization.
Collapse
Affiliation(s)
- Yeunsoo Park
- Center for Radiobiology and Radiotherapy, Department of Nuclear Medicine and Radiobiology, Faculty of Medicine, Université de Sherbrooke, Sherbrooke, Québec, Canada J1H 5N4
| | | | | | | | | |
Collapse
|
73
|
Davis D, Vysotskiy VP, Sajeev Y, Cederbaum LS. A One-Step Four-Bond-Breaking Reaction Catalyzed by an Electron. Angew Chem Int Ed Engl 2012. [DOI: 10.1002/ange.201204162] [Citation(s) in RCA: 12] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/11/2022]
|
74
|
Davis D, Vysotskiy VP, Sajeev Y, Cederbaum LS. A one-step four-bond-breaking reaction catalyzed by an electron. Angew Chem Int Ed Engl 2012; 51:8003-7. [PMID: 22767526 DOI: 10.1002/anie.201204162] [Citation(s) in RCA: 43] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/29/2012] [Indexed: 11/08/2022]
Affiliation(s)
- Daly Davis
- Theoretische Chemie, Physikalisch-Chemisches Institut, Universität Heidelberg, Im Neuenheimer Feld 229, 69120 Heidelberg, Germany
| | | | | | | |
Collapse
|
75
|
|
76
|
Alizadeh E, Sanche L. Precursors of solvated electrons in radiobiological physics and chemistry. Chem Rev 2012; 112:5578-602. [PMID: 22724633 DOI: 10.1021/cr300063r] [Citation(s) in RCA: 242] [Impact Index Per Article: 18.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- Elahe Alizadeh
- Groupe en Sciences des Radiations, Département de Médecine Nucléaire et Radiobiologie, Faculté de médecine et des sciences de la santé, Université de Sherbrooke, Canada
| | | |
Collapse
|
77
|
Kopyra J. Low energy electron attachment to the nucleotide deoxycytidine monophosphate: direct evidence for the molecular mechanisms of electron-induced DNA strand breaks. Phys Chem Chem Phys 2012; 14:8287-9. [PMID: 22573242 DOI: 10.1039/c2cp40847c] [Citation(s) in RCA: 36] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
Reactions induced by the attachment of low energy electrons to an entire gas phase nucleotide (2'-deoxycytidine 5'-monophosphate) are reported for the first time. From the resonant attachment profiles information on the site of initial electron localization and from the observed ionic fragments information on final bond cleavage can be extracted.
Collapse
Affiliation(s)
- Janina Kopyra
- Department of Chemistry, Siedlce University, 3 Maja 54, 08-110 Siedlce, Poland.
| |
Collapse
|
78
|
Gupta A, Jaeger HM, Compaan KR, Schaefer HF. Electron attachment to the guanine-cytosine nucleic acid base pair and the effects of monohydration and proton transfer. J Phys Chem B 2012; 116:5579-87. [PMID: 22530702 DOI: 10.1021/jp211608b] [Citation(s) in RCA: 19] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/08/2023]
Abstract
The guanine-cytosine (GC) radical anion and its interaction with a single water molecule is studied using ab initio and density functional methods. Z-averaged second-order perturbation theory (ZAPT2) was applied to GC radical anion for the first time. Predicted spin densities show that the radical character is localized on cytosine. The Watson-Crick monohydrated GC anion is compared to neutral GC·H2O, as well as to the proton-transferred analogue on the basis of structural and energetic properties. In all three systems, local minima are identified that correspond to water positioned in the major and minor grooves of macromolecular DNA. On the anionic surface, two novel structures have water positioned above or below the GC plane. On the neutral and anionic surfaces, the global minimum can be described as water interacting with the minor groove. These structures are predicted to have hydration energies of 9.7 and 11.8 kcal mol(-1), respectively. Upon interbase proton-transfer (PT), the anionic global minimum has water positioned in the major groove, and the hydration energy increases to 13.4 kcal mol(-1). PT GC·H2O(•-) has distonic character; the radical character resides on cytosine, while the negative charge is localized on guanine. The effects of proton transfer are further investigated through the computed adiabatic electron affinities (AEA) of GC and monohydrated GC, and the vertical detachment energies (VDE) of the corresponding anions. Monohydration increases the AEAs and VDEs by only 0.1 eV, while proton-transfer increases the VDEs substantially (0.8 eV). The molecular charge distribution of monohydrated guanine-cytosine radical anion depends heavily on interbase proton transfer.
Collapse
|
79
|
Kopyra J. Electron attachment to the N-substituted amino acids N-methylglycine and N-methylalanine: Effective cleavage of the N–Cα bond at sub-excitation energies. Chem Phys Lett 2012. [DOI: 10.1016/j.cplett.2012.03.004] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
|
80
|
Adaniya H, Slaughter DS, Osipov T, Weber T, Belkacem A. A momentum imaging microscope for dissociative electron attachment. THE REVIEW OF SCIENTIFIC INSTRUMENTS 2012; 83:023106. [PMID: 22380078 DOI: 10.1063/1.3685244] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/31/2023]
Abstract
We describe an experimental approach to image the three-dimensional (3D) momentum distribution of the negative ions arising from dissociative electron attachment (DEA). The experimental apparatus employs a low energy pulsed electron gun, an effusive gas source and a 4π solid-angle ion momentum imaging spectrometer consisting of a pulsed ion extraction field, an electrostatic lens, and a time- and position-sensitive detector. The time-of-flight and impact position of each negative ion are measured event by event in order to image the full 3D ion momentum sphere. The system performance is tested by measuring the anion momentum distributions from two DEA resonances, namely H(-) from H(2)O(-) ((2)B(1)) and O(-) from O(2)(-) ((2)Π(u)). The results are compared with existing experimental and theoretical data.
Collapse
Affiliation(s)
- H Adaniya
- Lawrence Berkeley National Laboratory, Chemical Sciences, Berkeley, California 94720, USA
| | | | | | | | | |
Collapse
|
81
|
Michaud M, Bazin M, Sanche L. Measurement of inelastic cross sections for low-energy electron scattering from DNA bases. Int J Radiat Biol 2012; 88:15-21. [PMID: 21615242 PMCID: PMC3828174 DOI: 10.3109/09553002.2011.577505] [Citation(s) in RCA: 26] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/13/2022]
Abstract
PURPOSE To determine experimentally the absolute cross sections (CS) to deposit various amount of energies into DNA bases by low-energy electron (LEE) impact. MATERIALS AND METHODS Electron energy loss (EEL) spectra of DNA bases were recorded for different LEE impact energies on the molecules deposited at very low coverage on an inert argon (Ar) substrate. Following their normalisation to the effective incident electron current and molecular surface number density, the EEL spectra were then fitted with multiple Gaussian functions in order to delimit the various excitation energy regions. The CS to excite a molecule into its various excitation modes were finally obtained from computing the area under the corresponding Gaussians. RESULTS The EEL spectra and absolute CS for the electronic excitations of pyrimidine and the DNA bases thymine, adenine, and cytosine by electron impacts below 18 eV were reported for the molecules deposited at about monolayer coverage on a solid Ar substrate. CONCLUSIONS The CS for electronic excitations of DNA bases by LEE impact were found to lie within the 10(216) to 10(218) cm(2) range. The large value of the total ionisation CS indicated that ionisation of DNA bases by LEE is an important dissipative process via which ionising radiation degrades and is absorbed in DNA.
Collapse
Affiliation(s)
- Marc Michaud
- Department of Nuclear Medicine and Radiobiology, Sherbrooke, Quebec, Canada.
| | | | | |
Collapse
|
82
|
The Role of Secondary Electrons in Radiation Damage. RADIATION DAMAGE IN BIOMOLECULAR SYSTEMS 2012. [DOI: 10.1007/978-94-007-2564-5_2] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 12/31/2022]
|
83
|
Kopyra J, König-Lehmann C, Illenberger E. Low energy (0–10 eV) electron driven reactions in the halogenated organic acids CCl3COOH, CClF2COOH, and CF3CHNH2COOH (trifluoroalanine). J Chem Phys 2011; 135:124307. [DOI: 10.1063/1.3641479] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
|
84
|
Energy deposition by a 106Ru/106Rh eye applicator simulated using LEPTS, a low-energy particle track simulation. Appl Radiat Isot 2011; 69:1198-204. [DOI: 10.1016/j.apradiso.2011.04.024] [Citation(s) in RCA: 16] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/29/2010] [Revised: 04/18/2011] [Accepted: 04/19/2011] [Indexed: 11/24/2022]
|
85
|
Johnson PS, Cook PL, Liu X, Yang W, Bai Y, Abbott NL, Himpsel FJ. Universal mechanism for breaking amide bonds by ionizing radiation. J Chem Phys 2011; 135:044702. [DOI: 10.1063/1.3613638] [Citation(s) in RCA: 43] [Impact Index Per Article: 3.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
|
86
|
Almeida D, Antunes R, Martins G, Eden S, Ferreira da Silva F, Nunes Y, Garcia G, Limão-Vieira P. Electron transfer-induced fragmentation of thymine and uracil in atom-molecule collisions. Phys Chem Chem Phys 2011; 13:15657-65. [PMID: 21796297 DOI: 10.1039/c1cp21340g] [Citation(s) in RCA: 33] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/31/2023]
Abstract
Ion-pair formation has been studied in hyperthermal (30-100 eV) neutral potassium collisions with gas phase thymine (C(5)H(6)N(2)O(2)) and uracil (C(4)H(4)N(2)O(2)). Negative ions formed by electron transfer from the alkali atom to the target molecule were analysed by time-of-flight (TOF) mass spectrometry. The most abundant product anions are assigned to CNO(-) and (U-H)(-)/(T-H)(-) and the associated electron transfer mechanisms are discussed. Special emphasis is given to the enhancement of ring breaking pathways in the present experiments, notably CNO(-) formation, compared with free electron attachment measurements.
Collapse
Affiliation(s)
- D Almeida
- Laboratório de Colisões Atómicas e Moleculares, CEFITEC, Departamento de Física, Universidade Nova de Lisboa, 2829-516 Caparica, Portugal
| | | | | | | | | | | | | | | |
Collapse
|
87
|
Liljequist D. Discussion of coherent and incoherent contributions to the spatial distribution of very low energy electrons elastically scattered in liquid water. Radiat Phys Chem Oxf Engl 1993 2011. [DOI: 10.1016/j.radphyschem.2010.08.014] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/19/2022]
|
88
|
Rak J, Kobyłecka M, Storoniak P. Single Strand Break in DNA Coupled to the O—P Bond Cleavage. A Computational Study. J Phys Chem B 2011; 115:1911-7. [DOI: 10.1021/jp111059q] [Citation(s) in RCA: 21] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/08/2023]
Affiliation(s)
- Janusz Rak
- Department of Chemistry, University of Gdańsk, Sobieskiego 18, 80-952 Gdańsk, Poland
| | - Monika Kobyłecka
- Department of Chemistry, University of Gdańsk, Sobieskiego 18, 80-952 Gdańsk, Poland
| | - Piotr Storoniak
- Department of Chemistry, University of Gdańsk, Sobieskiego 18, 80-952 Gdańsk, Poland
| |
Collapse
|
89
|
Hamann T, Edtbauer A, Ferreira da Silva F, Denifl S, Scheier P, Swiderek P. Dissociative electron attachment to gas-phase formamide. Phys Chem Chem Phys 2011; 13:12305-13. [DOI: 10.1039/c1cp20833k] [Citation(s) in RCA: 26] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/17/2022]
|
90
|
Szyperska A, Gajewicz A, Mazurkiewicz K, Leszczynski J, Rak J. Theoretical studies on interactions between low energy electrons and protein–DNA fragments: valence anions of AT-amino acids side chain complexes. Phys Chem Chem Phys 2011; 13:19499-507. [DOI: 10.1039/c1cp21511f] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/23/2023]
|
91
|
Bazin M, Michaud M, Sanche L. Absolute cross sections for electronic excitations of cytosine by low energy electron impact. J Chem Phys 2010; 133:155104. [PMID: 20969430 PMCID: PMC3817082 DOI: 10.1063/1.3505301] [Citation(s) in RCA: 25] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
Abstract
The absolute cross sections (CSs) for electronic excitations of cytosine by electron impact between 5 and 18 eV were measured by electron-energy-loss (EEL) spectroscopy of the molecule deposited at low coverage on an inert Ar substrate. The lowest EEL features found at 3.55 and 4.02 eV are ascribed to transitions from the ground state to the two lowest triplet 1 (3)A(')(π→π(∗)) and 2 (3)A(')(π→π(∗)) valence states of the molecule. Their energy dependent CSs exhibit essentially a common maximum at about 6 eV with a value of 1.84×10(-17) cm(2) for the former and 4.94×10(-17) cm(2) for the latter. In contrast, the CS for the next EEL feature at 4.65 eV, which is ascribed to the optically allowed transition to the 2 (1)A(')(π→π(∗)) valence state, shows only a steep rise to about 1.04×10(-16) cm(2) followed by a monotonous decrease with the incident electron energy. The higher EEL features at 5.39, 6.18, 6.83, and 7.55 eV are assigned to the excitations of the 3 (3,1)A(')(π→π(∗)), 4 (1)A(')(π→π(∗)), 5 (1)A(')(π→π(∗)), and 6 (1)A(')(π→π(∗)) valence states, respectively. The CSs for the 3 (3,1)A(') and 4 (1)A(') states exhibit a common enhancement at about 10 eV superimposed on a more or less a steep rise, reaching, respectively, a maximum of 1.27 and 1.79×10(-16) cm(2), followed by a monotonous decrease. This latter enhancement and the maximum seen at about 6 eV in the lowest triplet states correspond to the core-excited electron resonances that have been found by dissociative electron attachment experiments with cytosine in the gas phase. The weak EEL feature found at 5.01 eV with a maximum CS of 3.8×10(-18) cm(2) near its excitation threshold is attributed to transitions from the ground state to the 1 (3,1)A(")(n→π(∗)) states. The monotonous rise of the EEL signal above 8 eV is attributed to the ionization of the molecule. It is partitioned into four excitation energy regions at about 8.55, 9.21, 9.83, and 11.53 eV, which correspond closely to the ionization energies of the four highest occupied molecular orbitals of cytosine. The sum of the ionization CS for these four excitation regions reaches a maximum of 8.1×10(-16) cm(2) at the incident energy of 13 eV.
Collapse
Affiliation(s)
- M. Bazin
- Département de Médecine Nucléaire et Radiobiologie, Faculté de Médecine et Sciences de la Santé, Université de Sherbrooke, Sherbrooke Québec, Canada J1H 5N4
| | - M. Michaud
- Département de Médecine Nucléaire et Radiobiologie, Faculté de Médecine et Sciences de la Santé, Université de Sherbrooke, Sherbrooke Québec, Canada J1H 5N4
| | - L. Sanche
- Département de Médecine Nucléaire et Radiobiologie, Faculté de Médecine et Sciences de la Santé, Université de Sherbrooke, Sherbrooke Québec, Canada J1H 5N4
| |
Collapse
|
92
|
Zheng Y, Sanche L. Influence of organic ions on DNA damage induced by 1 eV to 60 keV electrons. J Chem Phys 2010; 133:155102. [PMID: 20969428 PMCID: PMC3217039 DOI: 10.1063/1.3505046] [Citation(s) in RCA: 11] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
Abstract
We report the results of a study on the influence of organic salts on the induction of single strand breaks (SSBs) and double strand breaks (DSBs) in DNA by electrons of 1 eV to 60 keV. Plasmid DNA films are prepared with two different concentrations of organic salts, by varying the amount of the TE buffer (Tris-HCl and EDTA) in the films with ratio of 1:1 and 6:1 Tris ions to DNA nucleotide. The films are bombarded with electrons of 1, 10, 100, and 60 000 eV under vacuum. The damage to the 3197 base-pair plasmid is analyzed ex vacuo by agarose gel electrophoresis. The highest yields are reached at 100 eV and the lowest ones at 60 keV. The ratios of SSB to DSB are surprisingly low at 10 eV (∼4.3) at both salt concentrations, and comparable to the ratios measured with 100 eV electrons. At all characteristic electron energies, the yields of SSB and DSB are found to be higher for the DNA having the lowest salt concentration. However, the organic salts are more efficient at protecting DNA against the damage induced by 1 and 10 eV electrons. DNA damage and protection by organic ions are discussed in terms of mechanisms operative at each electron energy. It is suggested that these ions create additional electric fields within the groove of DNA, which modify the resonance parameter of 1 and 10 eV electrons, namely, by reducing the electron capture cross-section of basic DNA units and the lifetime of corresponding transient anions. An interstrand electron transfer mechanism is proposed to explain the low ratios for the yields of SSB to those of DSB produced by 10 eV electrons.
Collapse
Affiliation(s)
- Yi Zheng
- Research Institute of Photocatalysis, Fuzhou University, Fuzhou 35002, People's Republic of China.
| | | |
Collapse
|
93
|
Li X, Wang H, Bowen KH. Photoelectron spectroscopic study of the hydrated nucleoside anions: Uridine−(H2O)n=0–2, cytidine−(H2O)n=0–2, and thymidine−(H2O)n=0,1. J Chem Phys 2010; 133:144304. [DOI: 10.1063/1.3487735] [Citation(s) in RCA: 13] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/15/2022] Open
|
94
|
Li Z, Cloutier P, Sanche L, Wagner JR. Low-energy electron-induced DNA damage: effect of base sequence in oligonucleotide trimers. J Am Chem Soc 2010; 132:5422-7. [PMID: 20345139 DOI: 10.1021/ja9099505] [Citation(s) in RCA: 55] [Impact Index Per Article: 3.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Abstract
DNA damage induced by low-energy electrons (LEEs) has attracted considerable attention in recent years because LEEs represent a large percentage of the total energy deposited by ionizing radiation and because LEEs have been shown to damage DNA components. In this article, we have studied the effect of base sequences in a series of oligonucleotide trimers by the analysis of damage remaining within the nonvolatile condensed phase after LEE irradiation. The model compounds include TXT, where X represents one of the four normal bases of DNA (thymine (T), cytosine (C), adenine (A), and guanine (G)). Using HPLC-UV analysis, several known fragments were quantified from the release of nonmodified nucleobases (T and X) as well as from phosphodiester C-O bond cleavage (pT, pXT, Tp, and TXp). The total damage was estimated by the disappearance of the parent peaks in the chromatogram of nonirradiated and irradiated samples. When trimers were irradiated with LEE (10 eV), the total damage decreased 2-fold in the following order: TTT > TCT > TAT > TGT. The release of nonmodified nuclobases (giving from 17 to 24% of the total products) mainly occurred from the terminal sites of trimers (i.e., T) whereas the release of central nucleobases was minor (C) or not at all detected (A and G). In comparison, the formation of products arising from phosphodiester bond cleavage accounted for 9 to 20% of the total damage and it partitioned to the four possible sites of cleavage present in trimers. This study indicates that the initial LEE capture and subsequent bond breaking within the intermediate anion depend on the sequence and electron affinity of the bases, with the most damage attributed to the most electronegative base, T.
Collapse
Affiliation(s)
- Zejun Li
- Center for Radiobiology and Radiotherapy, Department of Nuclear Medicine and Radiobiology, Faculty of Medicine, Université de Sherbrooke, Sherbrooke, Québec, Canada J1H 5N4
| | | | | | | |
Collapse
|
95
|
Agnihotri N, Mishra PC. Formation of 8-Nitroguanine Due to Reaction between Guanyl Radical and Nitrogen Dioxide: Catalytic Role of Hydration. J Phys Chem B 2010; 114:7391-404. [DOI: 10.1021/jp9122437] [Citation(s) in RCA: 13] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
- Neha Agnihotri
- Department of Physics, Banaras Hindu University Varanasi 221 005, India
| | - P. C. Mishra
- Department of Physics, Banaras Hindu University Varanasi 221 005, India
| |
Collapse
|
96
|
Dumont A, Zheng Y, Hunting D, Sanche L. Protection by organic ions against DNA damage induced by low energy electrons. J Chem Phys 2010; 132:045102. [PMID: 20113068 PMCID: PMC3828175 DOI: 10.1063/1.3298895] [Citation(s) in RCA: 29] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
Abstract
It is well known that electrons below 15 eV induce strand breaks in DNA essentially via the formation of transient anions which decay by dissociative electron attachment (DEA) or into dissociative electronics states. The present article reports the results of a study on the influence of organic ions on this mechanism. tris and EDTA are incorporated at various concentrations within DNA films of different thicknesses. The amino group of tris molecules and the carboxylic acid function of ethylenediamine tetra-acetic acid (EDTA) molecules together can be taken as simple model for the amino acids components of proteins, such as histones, which are intimately associated with the DNA of eukaryotic cells. The yield of single strand breaks induced by 10 eV electrons is found to decrease dramatically as a function of the number of organic ions/nucleotide. As few as 2 organic ions/nucleotide are sufficient to decrease the yield of single strand breaks by 70%. This effect is partly explained by an increase in multiple inelastic electrons scattering with film thickness but changes in the resonance parameters can also contribute to DNA protection. This can occur if the electron captures cross section and the lifetime of the transient anions (i.e., core-excited resonances) formed at 10 eV are reduced by the presence of organic ions within the grooves of DNA. Moreover, it is proposed that the tris molecules may participate in the repair of DNA anions [such as G(-H)(-)] induced by DEA on DNA bases.
Collapse
Affiliation(s)
- A Dumont
- Research Center in Radiobiology and Radiotherapy (CR2), Faculté de Médecine, Université de Sherbrooke, Sherbrooke, QC J1H 5N4, Canada.
| | | | | | | |
Collapse
|
97
|
Sedlacko T, Balog R, Lafosse A, Stano M, Matejcik S, Azria R, Illenberger E. Reactions in condensed formic acid (HCOOH) induced by low energy (< 20 eV) electrons. Phys Chem Chem Phys 2009; 7:1277-82. [PMID: 19791345 DOI: 10.1039/b419104h] [Citation(s) in RCA: 26] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/22/2022]
Abstract
The interaction of low energy (< 20 eV) electrons with a five monolayer (ML) film of formic acid (HCOOH) deposited on a cryogenically cooled monocrystalline Au substrate is studied by electron stimulated desorption (ESD) of negatively charged fragment ions. A comparison with results from gas phase experiments demonstrates the strong effect of the environment for negative ion formation via dissociative electron attachment (DEA). From condensed phase formic acid (FA) a strong H desorption signal from a resonant feature peaking at 9 eV is observed. In the gas phase, the dominant reaction is neutral hydrogen abstraction generating HCOO- within a low energy resonance, peaking at 1.25 eV. ESD studies on the isotopomers HCOOD and DCOOH indicate effective H/D exchange in the precursor ion at 9 eV prior to dissociation. The evolution of the desorption signals in the course of electron irradiation and the features in the thermal desorption spectra (TDS) of the electron irradiated film suggest the formation of CO2 at electron energies above 8 eV.
Collapse
Affiliation(s)
- Tibor Sedlacko
- Institut für Chemie-Physikalische und Theoretische Chemie, Freie Universität Berlin, Takustrasse 3, D-14195 Berlin, Germany
| | | | | | | | | | | | | |
Collapse
|
98
|
Bachorz RA, Rak J, Gutowski M. Stabilization of very rare tautomers of uracil by an excess electron. Phys Chem Chem Phys 2009; 7:2116-25. [PMID: 19791402 DOI: 10.1039/b503745j] [Citation(s) in RCA: 72] [Impact Index Per Article: 4.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/16/2023]
Abstract
We characterized valence-type and dipole-bound anionic states of uracil using various electronic structure methods. We found that the most stable anion is related to neither the canonical 2,4-dioxo nor a rare imino-hydroxy tautomer. Instead, it is related to an imino-oxo tautomer, in which the N1H proton is transferred to the C5 atom. This valence anion is characterized by an electron vertical detachment energy (VDE) of 1267 meV and it is adiabatically stable with respect to the canonical neutral by 3.93 kcal mol(-1). It is also more stable by 2.32 and 5.10 kcal mol(-1) than the dipole-bound and valence anion, respectively, of the canonical tautomer. The VDE values for the former and the latter are 73 and 506 meV, respectively. Another, anionic, low-lying imino-oxo tautomer with a VDE of 2499 meV has a proton transferred from N3H to C5. It is less stable than the neutral canonical tautomer by 1.38 kcal mol(-1). The mechanism of formation of anionic tautomers with the carbon C5 protonated may involve intermolecular proton transfer or dissociative electron attachment to the canonical neutral tautomer followed by a barrier-free attachment of a hydrogen atom to C5. The six-member ring structure of anionic tautomers with carbon atoms protonated might be unstable upon an excess electron detachment. Indeed, the neutral systems resulting from electron detachment from anionic tautomers with carbon atoms protonated evolve along barrier-free decomposition pathways to a linear or a bicyclo structure, which might be viewed as lesions to RNA. Within the PCM hydration model, the low-lying valence anions become adiabatically bound with respect to the canonical neutral and the two most stable tautomers have carbon atoms protonated.
Collapse
Affiliation(s)
- Rafał A Bachorz
- Department of Chemistry, University of Gdańsk, 80-952 Gdańsk, Poland
| | | | | |
Collapse
|
99
|
|
100
|
Martin I, Langer J, Illenberger E. Reactions in Fluorinated Acetic Acid Esters Triggered by Slow Electrons: Bond Cleavages, Hydrogen Transfer Reactions and Loss of Halocarbons. Z PHYS CHEM 2009. [DOI: 10.1524/zpch.2008.5382] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/24/2022]
Abstract
Abstract
Low energy electron induced reactions in the four fluorinated acetic acid esters CF3COOCH3, CF3COOC2H5, CF3COOCH2CF3 and CH3COOCH2CF3 are studied by means of a crossed electron-molecular beam experiment and mass spectrometric detection of the anions. All target molecules exhibit a prominent resonance located near 1 eV which is subjected to a variety of unimolecular reactions. The observation of the carboxylate anion CF3COO–/CH3COO– indicates rupture of the O−R ester bond, which in turn demonstrates that the prominent cleavage of the O−H bond recently observed in trifluoroacetic acid and acetic acid is not blocked when O−H is replaced by O−R (R=−CH3, −C2H5, −CH2CF3). In CF3COOCH3 and CF3COOC2H5 an ion of the form CF2COO– is generated which is identified to arise from a complex reaction involving multiple bond cleavages and substantial rearrangement in the transitory negative ion ultimately generating CH3F and C2H5F, respectively, as neutral counterpart. A fragment ion of the type (M-H)– (M: target molecule), i.e. loss of a neutral hydrogen atom, is only observed in CH3COOCH2CF3 which directly demonstrates that dehydrogenation selectively occurs at the CH3 site.
Collapse
|