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PubMed2005

Molecular ionization energies and ground- and ionic-state properties using a non-Dyson electron propagator approach.

An earlier proposed propagator method for the treatment of molecular ionization is tested in first applications. The method referred to as the non-Dyson third-order algebraic-diagrammatic construction [nD-ADC(3)] approximation for the electron propagator represents a computationally promising alternative to the existing Dyson ADC(3) method. The advantage of the nD-ADC(3) scheme is that the (N+/-1)-electronic parts of the one-particle Green's function are decoupled from each other and the corresponding equations can be solved separately. For a test of the method the nD-ADC(3) results for the vertical ionization transitions in C(2)H(4), CO, CS, F(2), H(2)CO, H(2)O, HF, N(2), and Ne are compared with available experimental and theoretical data including results of full configuration interaction (FCI) and coupled cluster computations. The mean error of the nD-ADC(3) ionization energies relative to the experimental and FCI results is about 0.2 eV. The nD-ADC(3) method, scaling as n(5) with the number of orbitals, requires the solution of a relatively simple Hermitian eigenvalue problem. The method renders access to ground-state properties such as dipole moments. Moreover, also one-electron properties of (N+/-1) electron states can now be studied as a consequence of a specific intermediate-state representation (ISR) formulation of the nD-ADC approach. Corresponding second-order ISR equations are presented.

Journal Article↗
PubMed2005

First-principles T-matrix calculations of double-ionization energy spectra of atoms and molecules.

Strong electron correlation plays an important role in the determination of double ionization energy, which is required for removing or adding two electrons, particularly in small-sized systems. Starting from the state-of-the-art GW approximation, we evaluate the particle-particle ladder diagrams up to the infinite order by solving the Bethe-Salpeter equation of the T-matrix theory to calculate the double-ionization energy spectra of atoms and molecules (Be, Mg, Ca, Ne, Ar, Kr, CO, C(2)H(2), Li(2), Na(2), and K(2)) from first principles. The ladder diagrams up to the infinite order are significant to calculations of double-ionization energy spectra. The present results are in good agreement with available experimental data as well as the previous calculations using, e.g., the configuration-interaction method.

Journal Article↗
PubMed2005

One-color two-photon mass-analyzed threshold ionization spectroscopy of ethyl bromide through a dissociative intermediate state.

Mass-analyzed threshold ionization (MATI) spectra of ethyl bromide were obtained using one-color two-photon ionization through a dissociative intermediate state. Accurate values for the adiabatic ionization energy have been obtained, 83099+/-5 and 85454+/-5 cm(-1) for the X1 2E and X2 2E states of the ethyl bromide cation, respectively, giving a splitting of 2355+/-10 cm(-1). Compared with conventional photoelectron data, the two-photon MATI spectrum exhibited a more extensive vibrational structure with a higher resolution, mainly containing the modes involving the dissociation coordinate. The observed modes were analyzed and discussed in terms of wave packet evolving on the potential-energy surface of the dissociative state.

Journal Article↗
PubMed2006

Accurate ab initio predictions of ionization energies and heats of formation for the 2-propyl, phenyl, and benzyl radicals.

The ionization energies (IEs) for the 2-propyl (2-C(3)H(7)), phenyl (C(6)H(5)), and benzyl (C(6)H(5)CH(2)) radicals have been calculated by the wave-function-based ab initio CCSD(T)/CBS approach, which involves the approximation to the complete basis set (CBS) limit at the coupled cluster level with single and double excitations plus quasiperturbative triple excitation [CCSD(T)]. The zero-point vibrational energy correction, the core-valence electronic correction, and the scalar relativistic effect correction have been also made in these calculations. Although a precise IE value for the 2-C(3)H(7) radical has not been directly determined before due to the poor Franck-Condon factor for the photoionization transition at the ionization threshold, the experimental value deduced indirectly using other known energetic data is found to be in good accord with the present CCSD(T)/CBS prediction. The comparison between the predicted value through the focal-point analysis and the highly precise experimental value for the IE(C(6)H(5)CH(2)) determined in the previous pulsed field ionization photoelectron (PFI-PE) study shows that the CCSD(T)/CBS method is capable of providing an accurate IE prediction for C(6)H(5)CH(2), achieving an error limit of 35 meV. The benchmarking of the CCSD(T)/CBS IE(C(6)H(5)CH(2)) prediction suggests that the CCSD(T)/CBS IE(C(6)H(5)) prediction obtained here has a similar accuracy of 35 meV. Taking into account this error limit for the CCSD(T)/CBS prediction and the experimental uncertainty, the CCSD(T)/CBS IE(C(6)H(5)) value is also consistent with the IE(C(6)H(5)) reported in the previous HeI photoelectron measurement. Furthermore, the present study provides support for the conclusion that the CCSD(T)/CBS approach with high-level energy corrections can be used to provide reliable IE predictions for C(3)-C(7) hydrocarbon radicals with an uncertainty of +/-35 meV. Employing the atomization scheme, we have also computed the 0 K (298 K) heats of formation in kJ/mol at the CCSD(T)/CBS level for 2-C(3)H(7)/2-C(3)H(7) (+) ,C(6)H(5)/C(6)H(5) (+), and C(6)H(5)CH(2)/C(6)H(5)CH(2) (+) to be 105.2/822.7 (90.0/806.4), 351.4/1148.5 (340.4/1138.8), and 226.2/929.0 (210.3/912.7), respectively. Comparing these values with the available experimental values, we find that the discrepancies for the 0 and 298 K heats of formation values are < or =2.6 kJ/mol for 2-C(3)H(7)/2-C(3)H(7) (+),< or =4.1 kJ/mol for C(6)H(5)/C(6)H(5) (+), and < or =3.2 kJ//mol for C(6)H(5)CH(2)C(6)H(5)CH(2) (+).

Journal Article↗
PubMed2006

Pulsed-field ionization electron spectroscopy of group 6 metal (Cr, Mo, and W) bis(benzene) sandwich complexes.

Group 6 metal bis(benzene) sandwich complexes (M-bz(2): M=Cr, Mo, and W and bz=C(6)H(6)) were produced with laser vaporization molecular beam techniques and studied by pulsed-field ionization zero electron kinetic energy spectroscopy and density functional theory calculations. Each sandwich complex is in a D(6h) eclipsed configuration with (1)A(1g) and (2)A(1g) as the neutral and cationic ground electronic states, respectively. The adiabatic ionization energies for Cr-, Mo-, and W-bz(2) are measured to be 44,081(7), 44,581(10), and 43,634(7) cm(-1), respectively. The metal-benzene stretch and benzene torsion frequencies of the ion are measured to be 264, 277, and 370 cm(-1) and 11, 21, and 45 cm(-1) for Cr-, Mo-, and W-bz(2), respectively. In addition, a C-H out-of-plane bending mode is measured to be 787 cm(-1) for the Cr(+)-bz(2) complex, while a C-C in-plane bending mode is measured to be 614 cm(-1) for the W(+)-bz(2) complex. The unusual trend in the ionization energy and metal-benzene stretch frequency indicates strong relativistic effects on tungsten binding.

Journal Article↗
PubMed2006

Dynamics and fragmentation of van der Waals clusters: (H2O)n, (CH3OH)n, and (NH3)n upon ionization by a 26.5 eV soft x-ray laser.

A tabletop soft x-ray laser is applied for the first time as a high energy photon source for chemical dynamics experiments in the study of water, methanol, and ammonia clusters through time of flight mass spectroscopy. The 26.5 eV/photon laser (pulse time duration of approximately 1 ns) is employed as a single photon ionization source for the detection of these clusters. Only a small fraction of the photon energy is deposited in the cluster for metastable dissociation of cluster ions, and most of it is removed by the ejected electron. Protonated water, methanol, and ammonia clusters dominate the cluster mass spectra. Unprotonated ammonia clusters are observed in the protonated cluster ion size range 2< or =n< or =22. The unimolecular dissociation rate constants for reactions involving loss of one neutral molecule are calculated to be (0.6-2.7)x10(4), (3.6-6.0)x10(3), and (0.8-2.0)x10(4) s(-1) for the protonated water (9< or =n< or =24), methanol (5< or =n< or =10), and ammonia (5< or =n< or =18) clusters, respectively. The temperatures of the neutral clusters are estimated to be between 40 and 200 K for water clusters (10< or =n< or =21), and 50-100 K for methanol clusters (6< or =n< or =10). Products with losses of up to five H atoms are observed in the mass spectrum of the neutral ammonia dimer. Large ammonia clusters (NH(3))(n) (n>3) do not lose more than three H atoms in the photoionization/photodissociation process. For all three cluster systems studied, single photon ionization with a 26.5 eV photon yields near threshold ionization. The temperature of these three cluster systems increases with increasing cluster size over the above-indicated ranges.

Journal Article↗
PubMed2006

Vacuum ultraviolet laser pulsed field ionization-photoelectron study of cis-dichloroethene.

The vacuum ultraviolet (VUV) laser pulsed field ionization photoelectron (PFI-PE) spectrum of cis-dichloroethene (cis-ClCH[Double Bond]CHCl) has been measured in the energy region of 77 600-79 500 cm(-1). On the basis of the semiempirical simulation of the origin PFI-PE band, we have obtained the IE(cis-ClCH[Double Bond]CHCl) to be 77 899.5+/-2.0 cm(-1) (9.658 39+/-0.000 25 eV). The assignment of the vibrational bands resolved in the VUV-PFI-PE spectrum are guided by high-level ab initio calculations of the vibrational frequencies for cis-ClCH[Double Bond]CHCl(+) and the Franck-Condon factors for the ionization transitions. Combining the results of the present VUV-PFI-PE measurement and the recent VUV-infrared-photoinduced Rydberg ionization study, the vibrational frequencies for eleven of the twelve vibrational modes of cis-ClCH[Double Bond]CHCl(+) have been experimentally determined: nu(1) (+)(a(1))=181 cm(-1), nu(2) (+)(a(2))=277 cm(-1), nu(3) (+)(b(2))=580 cm(-1), nu(4) (+)(b(1))=730 cm(-1), nu(5) (+)(a(1))=810 cm(-1), nu(6) (+)(a(2))=901 cm(-1), nu(8) (+)(a(1))=1196 cm(-1), nu(9) (+)(b(2))=1348 cm(-1), nu(10) (+)(a(1))=1429 cm(-1), nu(11) (+)(b(2))=3067 cm(-1), and nu(12) (+)(a(1))=3090 cm(-1)). These values are compared to theoretical anharmonic vibrational frequencies obtained at the MP2/6-311G(2df,p) and CCSD(T)/6-311G(2df,p) levels. The IE prediction for cis-ClCH[Double Bond]CHCl has also been calculated with the wave function based CCSD(T)/CBS method, which involves the approximation to the complete basis set (CBS) and the high-level correlation corrections. The theoretical IE(cis-ClCH[Double Bond]CHCl)=9.668 eV thus obtained is found to have a deviation of less than 10 meV with respect to the experimental IE value.

Journal Article↗
PubMed2006

Pulsed-field ionization electron spectroscopy and ab initio calculations of copper-diazine complexes.

Copper complexes of pyrazine (1,4-C4H4N2), pyrimidine (1,3-C4H4N2), and pyridazine (1,2-C4H4N2) are produced in laser-vaporization supersonic molecular beams and studied by pulsed-field ionization zero electron kinetic energy (ZEKE) spectroscopy and second-order Moller-Plesset perturbation theory. Both sigma and pi complexes are considered by these ab initio calculations; only sigma structures are identified in these experiments. Adiabatic ionization energies and metal-ligand vibrational frequencies of the sigma complexes are measured from the ZEKE spectra. Metal-ligand bond dissociation energies of these complexes are obtained from a thermochemical cycle. The ionization energies follow the trend of Cu pyridazine (43,054 cm(-1)) < Cu pyrimidine (45,332 cm(-1)) < Cu pyrazine (46,038 cm(-1)); the bond energies are in the order of Cu pyridazine (56.2 kJ mol(-1)) > Cu pyrazine (48.5 kJ mol(-1)) approximately Cu pyrimidine (46.4 kJ mol(-1)). The stronger binding of pyridazine is due to its larger electric dipole moment and possibly bidentate binding.

Journal Article↗
PubMed2006

Energy pooling in multiple ionization and Coulomb explosion of clusters by nanosecond-long, megawatt laser pulses.

We report the results of experiments that establish the possibility of bringing about multiple ionization and Coulomb explosion of molecular clusters with nanosecond laser pulses at intensities as small as 10(9) W cm(-2). We demonstrate several new facets of the laser-cluster interaction in the low-intensity, long-pulse domain: (i) The choice of laser wavelength for a given cluster species is very crucial. (ii) Excited electronic states play a very important role in the ionization dynamics. (iii) When field ionization is insignificant and ponderomotive energies are very small, it is energy pooling rather than inverse bremsstrahlung that determines how clusters absorb energy from the optical field.

Journal Article↗
PubMed2006

Ionization spectra and electronic decay in small iodide clusters: fully relativistic results.

Singly ionized systems in high-lying energetic final states can stabilize themselves via various electronic decay mechanisms. With increasing system size interatomic and intermolecular processes dominate over intra-atomic (Auger) decay channels. For the small (HI)(2) and (LiI)(2) clusters fully relativistic ionization spectra are calculated and the subsequent electronic decay of the cations is investigated. Due to the presence of the iodine atom a fully relativistic description is mandatory and was performed by the algebraic diagrammatic construction technique in its four-component form. The lifetimes of the singly ionized final states are estimated by the application of Weisskopf-Wigner [Z. Phys. 63, 54 (1930)] theory.

Journal Article↗
PubMed2006

Single photon ionization of van der Waals clusters with a soft x-ray laser: (CO2)n and (CO2)n(H2O)m.

Pure neutral (CO2)n clusters and mixed (CO2)n(H2O)m clusters are investigated employing time of flight mass spectroscopy and single photon ionization at 26.5 eV. The distribution of pure (CO2)n clusters decreases roughly exponentially with increasing cluster size. During the ionization process, neutral clusters suffer little fragmentation because almost all excess cluster energy above the vertical ionization energy is taken away by the photoelectron and only a small part of the photon energy is deposited into the (CO2)n cluster. Metastable dissociation rate constants of (CO2)n+ are measured in the range of (0.2-1.5) x 10(4) s(-1) for cluster sizes of 5< or =n< or =16. Mixed CO2-H2O clusters are studied under different generation conditions (5% and 20% CO2 partial pressures and high and low expansion pressures). At high CO2 concentration, predominant signals in the mass spectrum are the (CO2)n+ cluster ions. The unprotonated cluster ion series (CO2)nH2O+ and (CO2)n(H2O)2+ are also observed under these conditions. At low CO2 concentration, protonated cluster ions (H2O)nH+ are the dominant signals, and the protonated CO2(H2O)nH+ and unprotonated (H2O)n+ and (CO2)(H2O)n+ cluster ion series are also observed. The mechanisms and dynamics of the formation of these neutral and ionic clusters are discussed.

Journal Article↗
PubMed2006

Formation and distribution of neutral vanadium, niobium, and tantalum oxide clusters: single photon ionization at 26.5 eV.

Neutral vanadium, niobium, and tantalum oxide clusters are studied by single photon ionization employing a 26.5 eV/photon soft x-ray laser. During the ionization process the metal oxide clusters are almost free of fragmentation. The most stable neutral clusters of vanadium, niobium, and tantalum oxides are of the general form (MO2)0,1(M2O5)y. M2O5 is identified as a basic building unit for these three neutral metal oxide species. Each cluster family (Mm, m=1,...,9) displays at least one oxygen deficient and/or oxygen rich cluster stoichiometry in addition to the above most stable species. For tantalum and niobium families with even m, oxygen deficient clusters have the general formula (MO2)2(M2O5)y. For vanadium oxide clusters, oxygen deficient clusters are detected for all cluster families Vm (m=1,[ellipsis (horizontal)],9), with stable structures (VO2)x(V2O5)y. Oxygen rich metal oxide clusters with high ionization energies (IE>10.5 eV, 118 nm photon) are detected with general formulas expressed as (MO2)2 (M2O5)y O1,2,3. Oxygen rich clusters, in general, have up to three attached hydrogen atoms, such as VO3H1,2, V2O5H1,2, Nb2O5H1,2, etc.

Journal Article↗
PubMed2004

Direct experimental observation of the low ionization potentials of guanine in free oligonucleotides by using photoelectron spectroscopy.

Photodetachment photoelectron spectroscopy is used to probe the electronic structure of mono-, di-, and trinucleotide anions in the gas phase. A weak and well defined threshold band was observed in the photoelectron spectrum of 2'-deoxyguanosine 5'-monophosphate at a much lower ionization energy than the other three mononucleotides. Density function theory calculations revealed that this unique spectral feature is caused by electron-detachment from a pi orbital of the guanine base on 2'-deoxyguanosine 5'-monophosphate, whereas the lowest ionization channel for the other three mononucleotides takes place from the phosphate group. This low-energy feature was shown to be a "fingerprint" in all the spectra of dinucleotides and trinucleotides that contain the guanine base. The current experiment provides direct spectroscopic evidence that the guanine base is the site with the lowest ionization potential in oligonucleotides and DNA and is consistent with the fact that guanine is most susceptible to oxidation to give the guanine cation in DNA damage.

Electrons↗
PubMed1978

Observational model of the ionized gas in Seyfert and radio-galaxy nuclei.

Equivalent widths of the total emission-line Hbeta in Seyfert 1, Seyfert 2, and intermediate-type Seyfert galaxies, expressed in terms of the featureless continuum, all have approximately the same frequency distribution. This suggests that the energy-input mechanism to both the narrow-line, low-density gas and the broad-line, high-density gas is photoionization by the featureless continuum. The reason for the weakness of the narrow emission lines in extreme Seyfert 1 galaxies is then the absorption of most of the ionizing photons in the dense gas near the central source. The statistics of line widths can be fitted by a model in which the dense gas has typical rotational velocity 5000 km/sec and typical turbulent velocity 2000 km/sec. A model is proposed in which the dense gas forms a rotating, turbulent disk with dimension approximately 0.1 pc and height/diameter approximately 2/5. Seyfert 2 galaxies are objects with little dense gas, and intermediate-type Seyfert galaxies are objects in which the dense gas is optically thin to ionizing radiation at least along the poles. Most radio galaxies have strong narrow emission lines, suggesting that escape of radio plasma can only occur where some ionizing photons can also escape from the dense gas. Other predictions, implications, and tests of this model are discussed.

Journal Article↗
PubMed1988

Base substitutions, frameshifts, and small deletions constitute ionizing radiation-induced point mutations in mammalian cells.

The relative role of point mutations and large genomic rearrangements in ionizing radiation-induced mutagenesis has been an issue of long-standing interest. Recent studies using Southern blotting analysis permit the partitioning of ionizing radiation-induced mutagenesis in mammalian cells into detectable deletions and major genomic rearrangements and into point mutations. The molecular nature of these point mutations has been left unresolved; they may include base substitutions as well as small deletions, insertions, and frame-shifts below the level of resolution of Southern blotting analysis. In this investigation, we have characterized a collection of ionizing radiation-induced point mutations at the endogenous adenine phosphoribosyltransferase (aprt) locus of Chinese hamster ovary cells at the DNA sequence level. Base substitutions represented approximately equal to 2/3 of the point mutations analyzed. Although the collection of mutants is relatively small, every possible type of base substitution event has been recovered. These mutations are well distributed throughout the coding sequence with only one multiple occurrence. Small deletions represented the remainder of characterized mutants; no insertions have been observed. Sequence-directed mechanisms mediated by direct repeats could account for some of the observed deletions, while others appear to be directly attributable to radiation-induced strand breakage.

Adenine Phosphoribosyltransferase↗
PubMed1992

Ionizing radiation activates transcription of the EGR1 gene via CArG elements.

The present studies have examined the effects of ionizing radiation on control of the early growth response 1 (EGR1) gene. Exposure of human HL-525 cells to x-rays was associated with increases in EGR1 mRNA levels. Nuclear run-on assays showed that this effect is related at least in part to activation of EGR1 gene transcription. Sequences responsive to ionizing radiation-induced signals were determined by deletion analysis of the EGR1 promoter. The results demonstrate that x-ray inducibility of the EGR1 gene is conferred by a region containing six serum response or CC(A+T-rich)6GG (CArG) motifs. Further analysis confirmed that the region encompassing the three distal or upstream CArG elements is functional in the x-ray response. Moreover, this region conferred x-ray inducibility to a minimal thymidine kinase gene promoter. Taken together, these results indicate that ionizing radiation induces EGR1 transcription through CArG elements.

Base Sequence↗
PubMed1992

pH gradients across phospholipid membranes caused by fast flip-flop of un-ionized fatty acids.

A central, unresolved question in cell physiology is how fatty acids move across cell membranes and whether protein(s) are required to facilitate transbilayer movement. We have developed a method for monitoring movement of fatty acids across protein-free model membranes (phospholipid bilayers). Pyranin, a water-soluble, pH-sensitive fluorescent molecule, was trapped inside well-sealed phosphatidylcholine vesicles (with or without cholesterol) in Hepes buffer (pH 7.4). Upon addition of a long-chain fatty acid (e.g., oleic acid) to the external buffer (also Hepes, pH 7.4), a decrease in fluorescence of pyranin was observed immediately (within 10 sec). This acidification of the internal volume was the result of the "flip" of un-ionized fatty acids to the inner leaflet, followed by a release of protons from approximately 50% of these fatty acid molecules (apparent pKa in the bilayer = 7.6). The proton gradient thus generated dissipated slowly because of slow cyclic proton transfer by fatty acids. Addition of bovine serum albumin to vesicles with fatty acids instantly removed the pH gradient, indicating complete removal of fatty acids, which requires rapid "flop" of fatty acids from the inner to the outer monolayer layer. Using a four-state kinetic diagram of fatty acids in membranes, we conclude that un-ionized fatty acid flip-flops rapidly (t1/2 < or = 2 sec) whereas ionized fatty acid flip-flops slowly (t1/2 of minutes). Since fatty acids move across phosphatidylcholine bilayers spontaneously and rapidly, complex mechanisms (e.g., transport proteins) may not be required for translocation of fatty acids in biological membranes. The proton movement accompanying fatty acid flip-flop is an important consideration for fatty acid metabolism in normal physiology and in disease states such as cardiac ischemia.

Biological Transport↗
PubMed1997

Hypersensitivity of Ku80-deficient cell lines and mice to DNA damage: the effects of ionizing radiation on growth, survival, and development.

We recently have shown that mice deficient for the 86-kDa component (Ku80) of the DNA-dependent protein kinase exhibit growth retardation and a profound deficiency in V(D)J (variable, diversity, and joining) recombination. These defects may be related to abnormalities in DNA metabolism that arise from the inability of Ku80 mutant cells to process DNA double-strand breaks. To further characterize the role of Ku80 in DNA double-strand break repair, we have generated embryonic stem cells and pre-B cells and examined their response to ionizing radiation. Ku80(-/-) embryonic stem cells are more sensitive than controls to gamma-irradiation, and pre-B cells derived from Ku80 mutant mice display enhanced spontaneous and gamma-ray-induced apoptosis. We then determined the effects of ionizing radiation on the survival, growth, and lymphocyte development in Ku80-deficient mice. Ku80(-/-) mice display a hypersensitivity to gamma-irradiation, characterized by loss of hair pigmentation, severe injury to the gastrointestinal tract, and enhanced mortality. Exposure of newborn Ku80(-/-) mice to sublethal doses of ionizing radiation enhances their growth retardation and results in the induction of T cell-specific differentiation. However, unlike severe combined immunodeficient mice, radiation-induced T cell development in Ku80(-/-) mice is not accompanied by extensive thymocyte proliferation. The response of Ku80-deficient cell lines and mice to DNA-damaging agents provides important insights into the role of Ku80 in growth regulation, lymphocyte development, and DNA repair.

Animals↗