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Verification of the existence of quadruplex structure in native human telomeres and determination of the major structure of d(T(2)AG(3))(4) (H24) in K(+) solution are the major questions regarding the structure of human telomeres. We have synthesized a fluorescent probe of 3,6-bis(1-methyl-4-vinylpyridinium)carbazole diiodide (BMVC) that has a very high binding affinity for G-quadruplex H24. BMVC stabilizes quadruplex structures and acts as a sensitive probe to the local environment. Although the circular dichroism patterns of H24 are different in Na(+) and K(+) solutions, similar binding behaviors of BMVC to H24 in these solutions led us to suggest that the major G-quadruplex structure of H24 in K(+) solution is very likely similar to that in Na(+) solution. Of particular interest is the fluorescent band detected at -575 nm in quadruplex H24 and at -545 nm in duplex DNA. In addition, the intensity of BMVC fluorescence increases by two orders of magnitudes upon interaction with either duplex or G-quadruplex DNA. BMVC has a greater binding preference for G-quadruplex H24 than for duplex DNA. Analyzing the BMVC fluorescence at the ends of metaphase chromosomes and other regions of chromosomes allowed us to verify the presence of G-quadruplex structure in human telomeres for the first time. Using fluorescence lifetime imaging microscopy, the longer decay time of BMVC in G-quadruplex H24 than in duplex DNA allowed us to map the G-quadruplex structure in human metaphase chromosomes.

Rotational energy transfer (RET) by Ar collisions within the v′ = 0 level of the SH A2Σ+ state is probed using a laser-induced dispersed fluorescence technique, following photodissociation of H2S at 248 nm. The Ar pressure is adjusted appropriately to allow for significant observation of the single-collision induced RET process. The spin-resolved and spin-averaged rate constants are then evaluated with the aid of a kinetic model under single-collision conditions. The theoretical counterparts are calculated using a quantum scattering method, in which a newly fitted potential energy function is based on ab initio potential energy surface reported previously. The experimental and theoretical kinetic data are essentially consistent in the trend of N and ΔN dependence. Several propensity rules are found in the RET collisions. For instance, for ΔN = 1, 2, and 3, the rate constants decrease with increasing N or ΔN. Given a fixed ΔN, the rate constants of the same initial N in the downward transition appear to be larger than those in the upward transitions. In ΔN = 0, the F2 → F1 transitions prevail over the F 1 → F2 transitions (F1 = N + 1/2, F 2 = N - 1/2), whereas in ΔN ≠ 0, the fine-structure- conserving collisions are more favored than the fine-structure-changing collisions. The principle of microscopic reversibility is also examined for both experimental and theoretical kinetic data, showing that translational energies of the RET collisions are close to thermal equilibrium at room temperature. The propensity rules may be rationalized according to this principle. © 2010 the Owner Societies.

Evanescent-wave cavity ring-down spectroscopy is applied to investigate the adsorption behavior of rhodamine B at three different interfaces. The adsorption equilibrium constant (Kads) and adsorption free energy of rhodamine B at the silica/methanol interface are determined to be (1.5 ± 0.2) × 104 M-1 and -23.8 ± 0.4 kJ/mol by use of a Langmuir isotherm model. A Langmuir-based kinetic model is also developed to determine the corresponding adsorption and desorption rate constants of (1.02 ± 0.03) × 102 M-1 s-1 and (7.1 ± 0.2) × 10-3 s-1, from which Kads is obtained to be (1.45 ± 0.09) × 104 M-1, in agreement with the value determined under equilibrium conditions. Similarly, when rhodamine B is at the chlorotrimethylsilane-immobilized silica/methanol interface, the adsorption and desorption rate constants are determined to be (1.7 ± 0.2) × 102 M-1 s-1 and (5.0 ± 1.0) × 10-3 s-1· The subsequent Kads is (3.6 ± 0.4) × 104 M-1, which is larger than that at the silica/methanol interface. The former adsorption is dominated by hydrophobic interaction, while the latter is subject to electrostatic attraction. When rhodamine B is at the silica/water interface, there exist three chemical forms, including zwitterion (R+B -), cation (RBH+), and lactone (RBL). A combination of double-layer and Langmuir competitive models is used to fit the adsorption isotherm as a function of solution pH, yielding Kads of (2.5 ± 0.2) × 104 M-1 and (1.1 ± 0.2) × 105 M-1 for R+B- and RBH +, respectively. RBL is considered to have the same Kads value as R+B-. © 2010 American Chemical Society.

The orientation dependence for the Br atom formation in the reaction of the oriented OH radicals with HBr molecules at 0.26 eV collision energy has been observed for the first time using the hexapole electric field, and we found that the reaction cross-section for O-end attack is more favorable than that for H-end attack by a factor of 3.4 ± 2.3. © the Owner Societies.

In one-photon dissociation of gaseous acetyl chloride at 248 nm, time-resolved Fourier-transform infrared emission spectroscopy is used to detect the fragments of HCl, CO, and CH2 in the presence of Ar or O 2. The high-resolution spectra of HCl and CO are analyzed to yield the corresponding internal energy deposition of 8.9 ± 1.1 and 6.2 ± 0.9 kcal/mol. The presence of the CH2 fragment is verified by detecting the CO2 product resulting from the reaction of CH 2 and the added O2. The probability of the HCl formation via a hot Cl reaction with the precursor is examined to be negligible by performing two experiments, the CH3COCl pressure dependence and the measurement of Br2 with Cl reaction. The HCl elimination channel under the Ar addition is verified to be slowed by 2 orders of magnitude, as compared to the Cl elimination channel. The observed fragments are proposed to dissociate on the hot ground electronic state via collision-induced internal conversion. A two-body dissociation channel is favored leading to HCl and CH2CO, followed by secondary dissociation. © 2010 American Chemical Society.

In one-photon dissociation of propionyl chloride at 248 nm, time-resolved Fourier-transform infrared emission spectroscopy is used to detect the fragments of HCl and CO in the presence of Ar. The inert gas Ar plays a role to enhance the internal conversion. The time-dependence of high-resolution HCl spectra yields a bimodal rotational distribution in the early stage. The total rotational and vibrational energy partitioned in HCl are evaluated to be 1.7 ± 0.3 and 8.8 ± 1.9 kcal/mol, respectively. The CO appearance indicates that HCl may be eliminated through a five-center mechanism accompanied with three-body dissociation of C2H2, HCl, and CO. A four-center mechanism forming HCl and CH3CHCO also contributes to the HCl fragment with a feature of rotational bimodality. However, the probability for the HCl contribution from the hot Cl reaction is negligible. The reaction with CH4 is carried out to evaluate the HCl and Cl elimination rate constants. © 2010 Elsevier B.V. All rights reserved.

Kinetics of photoinduced electron transfer (ET) from oxazine 1 dye to TiO2 nanoparticles (NPs) surface is studied at a single molecule level by using confocal fluorescence microscopy. Upon irradiation with a pulsed laser at 630 nm, the fluorescence lifetimes sampled among 100 different dye molecules are determined to yield an average lifetime of 2.9 ± 0.3 ns, which is close to the value of 3.0 ± 0.6 ns measured on the bare coverslip. The lifetime proximity suggests that most interfacial electron transfer (IFET) processes for the current system are inefficient, probably caused by physisorption between dye and the TiO2 film. However, there might exist some molecules which are quenched before fluorescing and fail to be detected. With the aid of autocorrelation analysis under a three-level energy system, the IFET kinetics of single dye molecules in the conduction band of TiO2 NPs is evaluated to be (1.0 ± 0.1)×104 s-1 averaged over 100 single molecules and the back ET rate constant is 4.7 ± 0.9 s-1. When a thicker TiO2 film is substituted, the resultant kinetic data do not make a significant difference. The trend of IFET efficacy agrees with the method of fluorescence lifetime measurements. The obtained forward ET rate constants are about ten times smaller than the photovoltage response measured in an assembled dye-sensitized solar cell. The discrepancy is discussed. The inhomogeneous and fluctuation characters for the IFET process are attributed to microenvironment variation for each single molecule. The obtained ET rates are much slower than the fluorescence relaxation. Such a small ET quantum yield is yet feasibly detectable at a single molecule level. © 2010 American Chemical Society.

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Basing on the results of the scanning tunneling microscopy (STM) observations and density functional theory (DFT) calculations, the structural model for the Cu magic clusters formed on Si(1 1 1)7 x 7 surface has been proposed. Using STM, composition of the Cu magic clusters has been evaluated from the quantitative analysis of the Cu and Si mass transport occurring during magic cluster converting into the Si(1 1 1)’5.5 x 5.5’-Cu reconstruction upon annealing. Evaluation yields that Cu magic cluster accommodates similar to 20 Cu atoms with similar to 20 Si atoms being expelled from the corresponding 7 x 7 half unit cell (HUC). In order to fit these values, it has been suggested that the Cu magic clusters resemble fragments of the Cu2Si-silicide monolayer incorporated into the rest-atom layer of the Si(1 1 1)7 x 7 HUCs. Using DFT calculations, stability of the nineteen models has been tested of which five models appeared to have formation energies lower than that of the original Si(1 1 1)7 x 7 surface. The three of five models having the lowest formation energies have been concluded to be the most plausible ones. They resemble well the evaluated composition and their counterparts are found in the experimental STM images. (C) 2009 Elsevier B.V. All rights reserved.

In this study, the 13-atom cluster structures of alkaline metals, alkaline-earth metals, boron group metals, carbon group metals, and 3d, 4d, and 5d transition metals in the periodic table are investigated by density functional theory with three kinds of exchange-correlation (XC) functionals: (i) local-density approximation (LDA); (ii) generalized gradient approximation (GGA) with Perdew-Wang 91; and (iii) generalized gradient approximation with Perdew-Burke-Ernzerhof. The dependence on pseudopotentials (PPs) with and without semicore electrons is also examined. The relative energies of five selected high-symmetry three-dimensional and four low-symmetry layer-type isomers for each element of interest are calculated and studied. Among the 44 metallic 13-atom clusters, our results show that the two GGA XC functionals have a great consistency; LDA and GGA results also reveal a great consistency, apart from the Cr, Mn, Fe, Co, Ni, and Rh 13-atom clusters, for which the results show a significant difference. Meanwhile, for most of the elements, the calculations with and without semicore PPs also produce consistent results, except for Cr, Mo, and V, which require a careful treatment of semicore states in the PPs.

We have developed a continuous SrF radical beam for the loading of helium buffer gas cooling. The SrF molecules are efficiently generated by high-temperature chemical reaction of the solid precursor SrF(2) with boron in a graphite oven. The beam properties are characterized with laser-induced fluorescence spectroscopic method. We obtain a molecular flux of up to 2.1 x 10(15) sr(-1) s(-1) at the detection region for all rotational states. The dependence of the flux on oven temperature suggests that even higher flux is possible if a higher temperature in the oven is achieved. (C) 2009 American Institute of Physics. [doi:10.1063/1.3262631]

We present a first-principles study of the electron-phonon (e-ph) interactions and their contributions to the linewidths for the optical-phonon modes at Gamma and K in one-layer to three-layer graphene. It is found that, due to the interlayer coupling and the stacking geometry, the high-frequency optical-phonon modes in few-layer graphene couple with different valence and conduction bands, giving rise to different e-ph interaction strengths for these modes. Some of the multilayer optical modes derived from the Gamma-E(2g) mode of monolayer graphene exhibit slightly higher frequencies and much reduced linewidths. In addition, the linewidths of K-A(1)(') related modes in multilayers depend on the stacking pattern and decrease with increasing layer numbers.

We present a first-principles investigation to study the possible alloy phases of sodium and lithium alanates. Structural and energetics properties of alloy systems Na(1-x)Li(x)AlH(4) and Na(3(1-x))Li(3x)AlH(6) are studied via phase interpolation. Alloy system Na(1-x)Li(x)AlH(4) is found to have a small mixing energy (<5 kj/mol). The equilibrium structure undergoes a transition from a tetragonal structure to a monoclinic structure between x = 0.25 and 0.5. Within each structure the cell volume decreases with increasing x, which can be explained by Li having a smaller ion size than Na. Alloy system Na(3(1-x))Li(3x)AlH(6) is also studied, and one intermediate composition Na(2)LiAlH(6) is found to be stable in agreement with experimental findings. (C) 2009 Elsevier B.V. All rights reserved.

Accurate multideterminant ground-state energies of circular quantum dots containing N <= 13 electrons as a function of interaction strength have been evaluated by the diffusion quantum Monte Carlo method. Two unique features are found for these confined two-dimensional systems: (1) as the electron density decreases, the quantum dots favor states with zero orbital angular momentum (L = 0); and (2) for some values of N, the ground state cannot be fully spin-polarized because of a symmetry constraint.

The physical and chemical properties of thin metal films show damped oscillations as a function of film thickness (one-dimensional shell effects). While the oscillation period, determined by subband crossings of the Fermi level, is the same for all properties, the phases can be different. Specifically, oscillations in the work function and surface energy are offset by 1/4 of a period. For Pb(111) films, this offset is similar to 0.18 monolayers, a seemingly very small effect. However, aliasing caused by the discrete atomic layer structure leads to striking out-of-phase beating patterns displayed by these two quantities.

To assess the accuracy of exchange-correlation approximations within density functional theory (DFT), diffusion quantum Monte Carlo (DMC) and DFT methods are used to calculate the energies of isomers of three covalently bonded carbon and boron clusters (C(20), B(18), and B(20)), and three metallic aluminum and copper clusters (Al(13), Al(55), and Cu(13)). We find that local and semilocal DFT methods predict the same energy ordering as DMC for the metallic clusters but not for the covalent clusters, implying that the DFT functionals are inadequate in such systems. In addition, we find that DFT fails to describe energy reductions arising from Jahn-Teller distortions..

The clean-off reaction of AgO added rows by CO on Ag(110) and Au/Ag(110) bimetallic surfaces was studied by scanning tunneling microscopy (STM) and compared with density functional theory (DFT). This combined study of a model system illustrated the complexity of catalytic enhancement in bimetallic systems. By analyzing in situ time-lapsed STM image series, we found that CO oxidation on a Au-enriched Ag(110) surface leads to an exponential depletion of oxygen with time and a reaction rate that is synergistically enhanced by the presence of Au. First principles calculations indicate that the local atomic configuration around the active reaction sites at the chain ends and the preference of An atom substitution into the subsurface second Ag layer are of critical importance. By calculating CO adsorption energies and reaction barriers for plausible reaction pathways, a detailed description of the CO oxidation reaction emerges, For the optimal reaction pathway, a large (similar to 0.09 eV) barrier reduction and a small barrier of similar to 0.01 eV were found for the Eley-Rideal (ER) mechanism. In contrast, a small (similar to 0.03 eV) barrier reduction and a moderate barrier of similar to 0.23 eV were obtained for the Langmuir-Hinshelwood (LH) mechanism. The ER transitional state was also found to be lower in energy. We conclude that, irrespective of whether the ER mechanism is actually rate dominating, it is definitively enhanced.

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