Rearrangement of 3-deoxy-D-erythro-hexos-2-ulose in aqueous solution: NMR evidence of intramolecular 1,2-hydrogen transfer

Selective (13)C- and (2)H-labeling, and (13)C NMR spectroscopy, have been used to show that the 1,2-dicarbonyl compound (osone), 3-deoxy-D-erythro-hexos-2-ulose (3-deoxy-D-glucosone) (1; 3DG), degrades to 3-deoxy-D-ribo-hexonic acid 2 and 3-deoxy-D-arabino-hexonic acid 3 exclusively via an intramolecular 1,2-hydrogen transfer mechanism in aqueous phosphate buffer at pH 7.5 at 37 °C. Acids 2 and 3 are produced in significantly different amounts (1:6 ratio) despite the prochiral C3 in 1, and two potential reaction mechanisms are considered to explain the observed stereoselectivity. One mechanism involves acyclic forms of 1 as reactants, whereas the other assumes cyclic pyranose reactants. In the former (2-keto-hydrate or 2KH mechanism), putative transition state structures based on density functional theory (DFT) calculations arise from the C1 hydrate form of acyclic 1 having the C1-H1 bond roughly orthogonal to the C2 carbonyl plane. The relative orientation of the alkoxide oxygen atom at C1 and the C2 carbonyl oxygen, and H-bonding between C(1)OH and the C2 carbonyl oxygen, contribute to the stability of the transition state. DFT calculations of the natural charges on individual atoms in the transition state show the migrating hydrogen to have an almost neutral charge, implying that it may more closely resemble a hydrogen atom than a hydride anion during transfer from C1 to C2. A second mechanism (2-keto-pyranose or 2KP mechanism) involving the cyclic 2-keto-pyranoses of 1 as reactants aligns the C1-H1 bond orthogonal to the C2 carbonyl plane in different ring conformations of both anomers, with the β-pyranose giving 3 and the α-pyranose giving 2. While both the 2KH and 2KP mechanisms are possible, the latter readily leads to a prediction of the reaction stereospecificity that is consistent with the experimental data.     

Predicting air quality: Improvements through advanced methods to integrate models and measurements

Air quality prediction plays an important role in the management of our environment. Computational power and efficiencies have advanced to the point where chemical transport models can predict pollution in an urban air shed with spatial resolution less than a kilometer, and cover the globe with a horizontal resolution of less than 50 km. Predicting air quality remains a challenge due to the complexity of the governing processes and the strong coupling across scales. While air quality prediction is closely aligned with weather prediction, there are important differences, including the role of pollution emissions and their associated large uncertainties. Improvements in air quality prediction require a close integration of observations. As more atmospheric chemical observations become available chemical data assimilation is expected to play an essential role in air quality forecasting. In this paper advances in air quality forecasting are discussed with an emphasis on data assimilation. Applications of the four-dimensional variational method (4D-Var) and the ensemble Kalman filter (EnKF) approach are presented and the computation challenges are discussed.     

An efficient step size control for continuation methods

In solving a nonlinear equation by the use of a continuation method one of the crucial problems is the choice of the step sizes. We present a model for the total computational cost of a standard numerical continuation process and solve the problem of optimal step size control for this model. Using the theoretical results as a basis, we develop an adaptive step size algorithm for Newton's method. This procedure is computationally inexpensive and it gives quite satisfactory results compared to some other numerical experiments found in the literature.     

Squeezing in the degenerate parametric oscillator

Squeezing of the intracavity field in a degenerate parametric oscillator is calculated above threshold neglecting pump depletion. Arbitrary squeezing is in principle obtainable. We conclude that above threshold squeezing in the steady-state parametric oscillator is limited primarily by pump depletion rather than degradation by vacuum fluctuations at the mirrors. The squeezing predicted by the present calculation should be observable in an oscillator operated in a transient or pulsed mode     

Steady-state formulation of optical bistability for a Doppler-broadened medium in a Fabry-Perot

A two-level model for absorptive and dispersive bistability in a Fabry-Perot is described. Doppler broadening and the effects of atomic motion through the standing wave field are included. Numerical results illustrating saturation of the Doppler line are presented and bistable transmission characteristics are obtained for systems with varying degrees of Doppler broadening.     

Functionally relevant electric-field induced perturbations of the prosthetic group of yeast ferrocytochrome c mutants obtained from a vibronic analysis of low-temperature absorption spectra

We have measured the low temperature (T = 20 K) absorption spectra of the N52A, N52V, N52I, Y67F, and N52AY67F mutants of ferrous Saccharomyces cerevisiae (baker's yeast) cytochrome c. All the bands in the Q0- and Q(v)-band region are split, and the intensity distributions among the split bands are highly asymmetric. The spectra were analyzed by a decomposition into Voigtian profiles. The spectral parameters thus obtained were further analyzed in terms of the vibronic coupling model of Schweitzer-Stenner and Bigman (Schweitzer-Stenner, R.; Bigman, D. J. Phys. Chem. B 2001, 7064-7073) to identify parameters related to electronic and vibronic perturbations of the heme macrocycle. We report that the electronic perturbation is of B(1g) symmetry and reflects the heterogeneity of the electric field at the heme, that is, the difference between the gradients along the perpendicular N-Fe-N axis of the heme core. We found that all the investigated mutations substantially increase this electronic perturbation, so that the spectral properties become similar to those of horse heart cytochrome c. Moreover, the electronic perturbation was found to correlate nonlinearly with the enthalpy changes associated with the reduction of the heme iron. Group theoretical arguments are invoked to propose a simple model which explains how a perturbation of the obtained symmetry can stabilize the reduced state of the heme iron. Finally, vibronic coupling parameters obtained from the analysis of the Q(v)-band region suggest that the investigated mutations decrease the nonplanar deformations of the heme group. This finding was reproduced by a normal mode structural decomposition (NSD) analysis of the N52V and N52VY67F heme conformations obtained from a 1 ns molecular dynamics simulation. We argue that the reduced nonplanarity contributes to the stabilization of the reduced state.     

Reactions of 1-hydroxy-1-methylethyl radicals with NO2-: time-resolved electron spin resonance

The reaction of the alpha-hydroxyalkyl radical of 2-propanol (1-hydroxy-1-methylethyl radical) with nitrite ions was characterized. A product of the reaction was assigned as the adduct nitro radical anion, [HO-C(CH(3))(2)NO(2)](*-). This radical was identified using time-resolved electron spin resonance (TRESR). The radical's magnetic parameters, the nitrogen hyperfine coupling constant (a(N) = 26.39 G), and its g-factor (2.0052) were the same as those of the nitro radical anion previously discovered in (*)OH spin-trapping experiments with the aci-anion of (CH(3))(2)CHNO(2). Production of [HO-C(CH(3))(2)NO(2)](*-) was determined to be 38% +/- 4% of the reaction of (CH(3))(2)C(*)-OH with nitrite. The reason why this fraction was less than 100% was rationalized by invoking the competitive addition at oxygen, which forms [HO-C(CH(3))(2)ONO](*-), followed by a rapid loss of (*)NO. Furthermore, by taking this mechanism into account, the bimolecular rate constant for the total reaction of (CH(3))(2)C(*)-OH with nitrite at reaction pH 7 was determined to be 1.6 x 10(6) M(-1) s(-1), using both decay traces of (CH(3))(2)C(*)-OH and growth traces of [HO-C(CH(3))(2)NO(2)](*-). This correspondence further confirms the nature of the reaction. The reaction mechanism is discussed with guidance by computations using density functional theory.     

Density functional investigation of high-spin XY (X = Cr, Mo, W and Y = C, N, O) molecules

The performance of a density functional theory approach in calculating the equilibrium bond length, dipole moment, and harmonic vibrational frequency in a series of group 6 (Cr, Mo, W) transition metal-containing diatomic molecules is evaluated. Using flexible basis sets comprised of Slater type functions, a wide range of exchange-correlation functionals is investigated. Comparing with known experimental values and published results from high-level theoretical calculations, the most suitable functional form is selected. The importance of relativistic effects is checked, and predictions are made for several unknown dipole moments. The best agreement with experimental parameters is obtained when using a general gradient approximation, while special and hybrid functional forms give less accurate results.     

Cubane and step-form structures of dilithium bis(aryloxy)phosphines

The lithium complexes RP(3,5-tBu2C6H2OLi)2(THF)4, where R = Ph or i Pr, (R[OPO]Li2)2(THF)4, synthesized by reaction of the 2-bromo-4,6-di-tert-butylphenol with BuLi and the appropriate dichlorophosphine, possess solid state structures composed of lithium oxide tetragons arranged in a step-form or face sharing half-cubane arrangements. Incorporation of excess lithium aryloxide results in the formation of complexes that display an extended step-form structure, [Ph[OPO]Li2(ArOLi)]2, or a distorted cubane arrangement of tetragons, [iPr[OPO]Li3Cl(ArOLi)](THF)3.     

Magnesium amido N-heterocyclic carbene complexes

Magnesium dications bind strongly to a tridentate anionic dicarbene ligand L = [N{CH(2)CH(2)(CNCHCHNMes)}(2)] forming dinuclear and trinuclear Mg complexes with some particularly short Mg-C bonds. Treatment of the proligand H(4)LCl(3) with three equivalents of methyl magnesium chloride or benzyl magnesium chloride affords Mg(3)(HL)Cl(6) in high yield. A suspension of in thf was heated to 80 degrees C for 2 h to afford Mg(2)(L)Cl(3), consistent with the loss of one equivalent of MgCl(2), and the deprotonation of the remaining acidic NH, lost as HCl gas. Treatment of Mg(3)(HL)Cl(6) with one equivalent of KC(8) results in deprotonation of the ligand amine NH to afford Mg(3)(L)Cl(5); treatment with a second equivalent forms the radical anion of the complex, K[Mg(3)(L)Cl(5)], which decomposes upon storage, precluding its structural characterisation. The acidic NH proton of the ligand in Mg(3)(HL)Cl(6) can also be removed by deprotonation with Li{N(SiMe(3))(2)}; additional equivalents of which also exchange the magnesium-bound chlorides for silylamido ligands, affording Mg(2)(L)Cl(2)N' and Mg(2)(L)Cl(N')(2), which have both been characterised by single-crystal X-ray diffraction studies.