A Proton Magnetic Resonance Study of the Association of Lysozyme with Monosaccharide Inhibitors

It has been shown that the acetamido methyl protons of N-acetyl-d-glucosamine undergo a chemical shift to higher fields in their proton magnetic resonance spectrum when the inhibitor is bound to lysozyme. The observed chemical shift in the presence of the enzyme is different for the agr- and ß-anomeric forms of 2-acetamido-2-deoxy-d-glucopyranose indicating either a difference in the affinity of the anomeric forms for lysozyme or different magnetic environments for the methyl protons in their enzyme-bound state. That the agr- and ß-anomeric forms of GlcAc bind to lysozyme in a competitive fashion was indicated by observing the proton magnetic resonance spectra in the presence of 2-acetamido-d3-2-deoxy-agr-d-glucopyranose. The methyl glycosides, methyl-agr-GlcAc and methyl-ß-GlcAc, were also shown to bind competitively with both anomers of GlcAc. Quantitative analysis of the chemical shift data observed for the association of GlcAc with lysozyme was complicated by the mutarotation of GlcAc between its agr- and ß-anomeric forms. However, in the case of the methyl glucosides, where the conformation of each anomer is frozen, it was possible to analyze the chemical shift data in a straightforward manner, and the dissociation constant as well as the chemical shift of the acetamido methyl protons of the enzyme-inhibitor complex was determined for both anomers. The results indicate that the two anomers of methyl-GlcAc bind to lysozyme with slightly different affinities but that the acetamido methyl groups of both anomers experience identical magnetic environments in the enzyme-inhibitor complex

Modeling of secondary organic aerosol yields from laboratory chamber data

Laboratory chamber data serve as the basis for constraining models of secondary organic aerosol (SOA) formation. Current models fall into three categories: empirical two-product (Odum), product-specific, and volatility basis set. The product-specific and volatility basis set models are applied here to represent laboratory data on the ozonolysis of α-pinene under dry, dark, and low-NOx conditions in the presence of ammonium sulfate seed aerosol. Using five major identified products, the model is fit to the chamber data. From the optimal fitting, SOA oxygen-to-carbon (O/C) and hydrogen-to-carbon (H/C) ratios are modeled. The discrepancy between measured H/C ratios and those based on the oxidation products used in the model fitting suggests the potential importance of particle-phase reactions. Data fitting is also carried out using the volatility basis set, wherein oxidation products are parsed into volatility bins. The product-specific model is most likely hindered by lack of explicit inclusion of particle-phase accretion compounds. While prospects for identification of the majority of SOA products for major volatile organic compounds (VOCs) classes remain promising, for the near future empirical product or volatility basis set models remain the approaches of choice

Observation of the single-electron regime in a highly tunable silicon quantum dot

We report on low-temperature electronic transport measurements of a silicon metal-oxide-semiconductor quantum dot, with independent gate control of electron densities in the leads and the quantum dot island. This architecture allows the dot energy levels to be probed without affecting the electron density in the leads, and vice versa. Appropriate gate biasing enables the dot occupancy to be reduced to the single-electron level, as evidenced by magnetospectroscopy measurements of the ground state of the first two charge transitions. Independent gate control of the electron reservoirs also enables discrimination between excited states of the dot and density of states modulations in the leads.Comment: 4 pages, 3 figures, accepted for Applied Physics Letter

Large-Scale Structure in Brane-Induced Gravity II. Numerical Simulations

We use N-body simulations to study the nonlinear structure formation in brane-induced gravity, developing a new method that requires alternate use of Fast Fourier Transforms and relaxation. This enables us to compute the nonlinear matter power spectrum and bispectrum, the halo mass function, and the halo bias. From the simulation results, we confirm the expectations based on analytic arguments that the Vainshtein mechanism does operate as anticipated, with the density power spectrum approaching that of standard gravity within a modified background evolution in the nonlinear regime. The transition is very broad and there is no well defined Vainshtein scale, but roughly this corresponds to k_*~ 2 at redshift z=1 and k_*~ 1 at z=0. We checked that while extrinsic curvature fluctuations go nonlinear, and the dynamics of the brane-bending mode C receives important nonlinear corrections, this mode does get suppressed compared to density perturbations, effectively decoupling from the standard gravity sector. At the same time, there is no violation of the weak field limit for metric perturbations associated with C. We find good agreement between our measurements and the predictions for the nonlinear power spectrum presented in paper I, that rely on a renormalization of the linear spectrum due to nonlinearities in the modified gravity sector. A similar prediction for the mass function shows the right trends. Our simulations also confirm the induced change in the bispectrum configuration dependence predicted in paper I.Comment: 19 pages, 13 figures. v2: corrected typos, added more simulations, better test of predictions in large mass regime. v3: minor changes, published versio

Scalar Wave Falloff in Asymptotically Anti-de Sitter Backgrounds

Conformally invariant scalar waves in black hole spacetimes which are asymptotically anti-de Sitter are investigated. We consider both the $(2+1)$-dimensional black hole and $(3+1)$-dimensional Schwarzschild-anti-de Sitter spacetime as backgrounds. Analytical and numerical methods show that the waves decay exponentially in the $(2+1)$ dimensional black hole background. However the falloff pattern of the conformal scalar waves in the Schwarzschild-anti-de Sitter background is generally neither exponential nor an inverse power rate, although the approximate falloff of the maximal peak is weakly exponential. We discuss the implications of these results for mass inflation.Comment: 34 pages, Latex, 26 figures, uses psfi

Mapping of serotype-specific, immunodominant epitopes in the NS-4 region of hepatitis C virus (HCV):use of type-specific peptides to serologically differentiate infections with HCV types 1, 2, and 3

The effect of sequence variability between different types of hepatitis C virus (HCV) on the antigenicity of the NS-4 protein was investigated by epitope mapping and by enzyme-linked immunosorbent assay with branched oligopeptides. Epitope mapping of the region between amino acid residues 1679 and 1768 in the HCV polyprotein revealed two major antigenic regions (1961 to 1708 and 1710 to 1728) that were recognized by antibody elicited upon natural infection of HCV. The antigenic regions were highly variable between variants of HCV, with only 50 to 60% amino acid sequence similarity between types 1, 2, and 3. Although limited serological cross-reactivity between HCV types was detected between peptides, particularly in the first antigenic region of NS-4, type-specific reactivity formed the principal component of the natural humoral immune response to NS-4. Type-specific antibody to particular HCV types was detected in 89% of the samples from anti-HCV-positive blood donors and correlated almost exactly with genotypic analysis of HCV sequences amplified from the samples by polymerase chain reaction. Whereas almost all blood donors appeared to be infected with a single virus type (97%), a higher proportion of samples (40%) from hemophiliacs infected from transfusion of non-heat-inactivated clotting factor contained antibody to two or even all three HCV types, providing evidence that long-term exposure may lead to multiple infection with different variants of HCV

Rotating Black Holes at Future Colliders. III. Determination of Black Hole Evolution

TeV scale gravity scenario predicts that the black hole production dominates over all other interactions above the scale and that the Large Hadron Collider will be a black hole factory. Such higher dimensional black holes mainly decay into the standard model fields via the Hawking radiation whose spectrum can be computed from the greybody factor. Here we complete the series of our work by showing the greybody factors and the resultant spectra for the brane localized spinor and vector field emissions for arbitrary frequencies. Combining these results with the previous works, we determine the complete radiation spectra and the subsequent time evolution of the black hole. We find that, for a typical event, well more than half a black hole mass is emitted when the hole is still highly rotating, confirming our previous claim that it is important to take into account the angular momentum of black holes.Comment: typoes in eqs(82)-(84) corrected; version to appear in Phys. Rev. D; references and a footnote added; same manuscript with high resolution embedded figures available on http://www.gakushuin.ac.jp/univ/sci/phys/ida/paper

Entropy of Rotating Misner String Spacetimes

Using a boundary counterterm prescription motivated by the AdS/CFT conjecture, I evaluate the energy, entropy and angular momentum of the class of Kerr-NUT/bolt-AdS spacetimes. As in the non-rotating case, when the NUT charge is nonzero the entropy is no longer equal to one-quarter of the area due to the presence of the Misner string. When the cosmological constant is also non-zero, the entropy is bounded from above.Comment: Revtex, 9 pages, 3 figure

Density fluctuations in κ\kappa-deformed inflationary universe

We study the spectrum of metric fluctuation in $\kappa$-deformed inflationary universe. We write the theory of scalar metric fluctuations in the $\kappa-$deformed Robertson-Walker space, which is represented as a non-local theory in the conventional Robertson-Walker space. One important consequence of the deformation is that the mode generation time is naturally determined by the structure of the $\kappa-$deformation. We expand the non-local action in $H^2/\kappa^2$, with $H$ being the Hubble parameter and $\kappa$ the deformation parameter, and then compute the power spectra of scalar metric fluctuations both for the cases of exponential and power law inflations up to the first order in $H^2/\kappa^2$. We show that the power spectra of the metric fluctuation have non-trivial corrections on the time dependence and on the momentum dependence compared to the commutative space results. Especially for the power law inflation case, the power spectrum for UV modes is weakly blue shifted early in the inflation and its strength decreases in time. The power spectrum of far-IR modes has cutoff proportional to $k^3$ which may explain the low CMB quadrupole moment.Comment: final revision; 19 pages, 3 figures; to appear in Phys. Rev.