PNA forms an i-motif

A C-rich PNA hexanucleotide, p(C5T), has been shown to form an i-motif by nanoelectrospray ionization mass spectrometry coupled with H/D exchange, to have thermal stability comparable with its DNA analogue, but to exist over a much narrower pH range.     

Supramolecular hydrogen‐bonded networks in adeninium phenylacetate phenylacetic acid monohydrate and adeninium 3‐carboxypropionate monohydrate

In the title compounds, C₅H₆N₅⁺·C₈H₇O₂⁻·C₈H₈O₂·H₂O, (I), and C₅H₆N₅⁺·C₄H₃O₄⁻·H₂O, (II), the adeninium cations form N—H...O hydrogen bonds with their anion counterparts and adeninium–adeninium self‐association base pairs with the R₂²(10) motif (Bernstein et al., 1995). A complete hydrogen‐bonding motif analysis is presented. Conventional hydrogen bonds lead to layer structures in (I) and to two‐dimensional infinite polymeric ribbons in (II). C—H...O interactions are found in both structures, while weak π–π stacking interactions are only observed in (I).     

Ir6In32S21, a polar,metal-rich semiconducting subchalcogenide

Subchalcogenides are uncommon, and their chemical bonding results from an interplay between metal–metal and metal–chalcogenide interactions. Herein, we present Ir₆In₃₂S₂₁, a novel semiconducting subchalcogenide compound that crystallizes in a new structure type in the polar P31m space group, with unit cell parameters a = 13.9378(12) Å, c = 8.2316(8) Å, α = β = 90°, γ = 120°. The compound has a large band gap of 1.48(2) eV, and photoemission and Kelvin probe measurements corroborate this semiconducting behavior with a valence band maximum (VBM) of −4.95(5) eV, conduction band minimum of −3.47(5) eV, and a photoresponse shift of the Fermi level by ∼0.2 eV in the presence of white light. X-ray absorption spectroscopy shows absorption edges for In and Ir do not indicate clear oxidation states, suggesting that the numerous coordination environments of Ir₆In₃₂S₂₁ make such assignments ambiguous. Electronic structure calculations confirm the semiconducting character with a nearly direct band gap, and electron localization function (ELF) analysis suggests that the origin of the gap is the result of electron transfer from the In atoms to the S 3p and Ir 5d orbitals. DFT calculations indicate that the average hole effective masses near the VBM (1.19m_e) are substantially smaller than the average electron masses near the CBM (2.51m_e), an unusual feature for most semiconductors. The crystal and electronic structure of Ir₆In₃₂S₂₁, along with spectroscopic data, suggest that it is neither a true intermetallic nor a classical semiconductor, but somewhere in between those two extremes.

Subchalcogenides are uncommon, and their chemical bonding results from an interplay between metal–metal and metal–chalcogenide interactions.     

THE REACTION OF SINGLET OXYGEN WITH PROTEINS, WITH SPECIAL REFERENCE TO CRYSTALLINS

Photosensitized oxidation of the eye lens proteins, the crystallins, is thought to lead to protein crosslinks and high molecular weight aggregates. Such protein modifications may be important factors in the formation of lens opacities or cataracts. We focus attention here on type 2 photo-oxidation involving the reaction of singlet oxygen (1O2) with crystallins and some "control" proteins. We find that: (1) trp residues are oxidized to N-formyl kynurenine and related products, but this in itself does not lead to the production of high molecular weight protein aggregates of the protein; (2) tyr residues react with 1O2 but we do not detect dihydroxyphenylalanine or bityrosine nor are protein crosslinks formed as a result; (3) oxidation of his residues appears necessary for high molecular weight protein covalent aggregates to form. Proteins devoid of his, e.g. melittin or bovine pancreatic trypsin inhibitor, do not form high molecular weight products upon reaction with 1O2. Prior reaction and blocking of his inhibits the crosslinking reactions. (4) The oxidized protein is seen to be more acidic than the parent and has an altered tertiary structure. (5) Among the crystallins, reactivity towards 1O2 varies in the order gamma greater than beta greater than alpha and also gamma A/E greater than gamma D greater than gamma B crystallin.     

Ab initio molecular-dynamics study of supercritical carbon dioxide

Car-Parrinello molecular-dynamics simulations of supercritical carbon dioxide (scCO(2)) have been performed at the temperature of 318.15 K and at the density of 0.703 g/cc in order to understand its microscopic structure and dynamics. Atomic pair correlation functions and structure factors have been obtained and good agreement has been found with experiments. In the supercritical state the CO(2) molecule is marginally nonlinear, and thus possesses a dipole moment. Analyses of angle distributions between near neighbor molecules reveal the existence of configurations with pairs of molecules in the distorted T-shaped geometry. The reorientational dynamics of carbon dioxide molecules, investigated through first- and second-order time correlation functions, exhibit time constants of 620 and 268 fs, respectively, in good agreement with nuclear magnetic resonance experiments. The intramolecular vibrations of CO(2) have been examined through an analysis of the velocity autocorrelation function of the atoms. These reveal a red shift in the frequency spectrum relative to that of an isolated molecule, consistent with experiments on scCO(2). The results have also been compared to classical molecular-dynamics calculations employing an empirical potential.     

Anomalous dielectric relaxation of water molecules at the surface of an aqueous micelle

Dielectric relaxation of aqueous solutions of micelles, proteins, and many complex systems shows an anomalous dispersion at frequencies intermediate between those corresponding to the rotational motion of bulk water and that of the organized assembly or macromolecule. The precise origin of this anomalous dispersion is not well-understood. In this work we employ large scale atomistic molecular dynamics simulations to investigate the dielectric relaxation (DR) of water molecules in an aqueous micellar solution of cesium pentadecafluorooctanoate. The simulations clearly show the presence of a slow component in the moment-moment time correlation function [PhiMW(t)] of water molecules, with a time constant of about 40 ps, in contrast to only 9 ps for bulk water. Interestingly, the orientational time correlation function [Cmu(t)] of individual water molecules at the surface exhibits a component with a time constant of about 19 ps. We show that these two time constants can be related by the well-known micro-macrorelations of statistical mechanics. In addition, the reorientation of surface water molecules exhibits a very slow component that decays with a time constant of about 500 ps. An analysis of hydrogen bond lifetime and of the rotational relaxation in the coordinate frame fixed on the micellar body seems to suggest that the 500 ps component owes its origin to the existence of an extended hydrogen bond network of water molecules at the surface. However, this ultraslow component is not found in the total moment-moment time correlation function of water molecules in the solution. The slow DR of hydration water is found to be well correlated with the slow solvation dynamics of cesium ions at the water-micelle interface.     

Reaction of Au(55)(PPh(3))(12)Cl(6) with thiols yields thiolate monolayer protected Au(75) clusters

This paper describes the reaction of the phosphine-protected Au nanoparticle Au(55)(PPh(3))(12)Cl(6) (1, "Au55") with hexanethiol (2) and other thiols. The voltammetry of the reaction product 2 displays a well-defined pattern of peaks qualitatively reminiscent of Au(38) nanoparticles, but with quite different spacing (0.74 +/- 0.01 V) between the potentials of initial oxidation and reduction steps (electrochemical gap). Correction of this "molecule-like" gap for charging energy indicates a HOMO-LUMO gap energy of about 0.47 V. Voltammetry of the products (3 and 4) of reaction of 1 with C(3)H(7)SH and PhC(2)H(4)SH, respectively, is similar. Laser desorption/ionization mass spectrometry (LDI-MS) shows that 2 contains a high proportion of a core mass in the 14-15 kDa range, which is proposed to be Au(75). UV-vis spectra of 2-4 are relatively featureless, similar to previous reports of thiolate-protected Au(75) nanoparticles. HPLC analysis of 2 shows a Au(75) content of ca. 73%; the electrochemical purity estimate is also high, about 55%. Combining the mass spectrometric result with thermogravimetric analysis of 2 leads to a preliminary formulation Au(75)(SC(6)H(13))(40). This Au(75) synthesis complements a previous Brust-type synthesis and is unusual in the apparent provocation in the reaction of an increase in core size.     

Graph edge colorings and their chemical applications

A general method is outlined to enumerate the edge-colorings of graphs under group action. The symmetry group of the graph acting on the vertices induces permutation of the edges. The edge-colorings are enumerated using the edge-permutation group. A number of chemical applications especially to multiple quantum NMR spectroscopy, statistical mechanics, enumeration of unsaturated isomers, etc. are considered.Alfred P. Sloan fellow; Camille and Henry Dreyfus teacher-scholar     

Electro-initiated polymerization of acrylonitrile in aqueous acetic acid containing Mn(OAc)2·4H2O and CNCH2COOH

The electro-initiated polymerization of acrylonitrile initiated by the anodic oxidation of an aqueous acid solution (80% HOAc + 20% H₂O) containing Mn(OAc)₂ · 4H₂O/CNCH₂COOH has been investigated in the 30–40°C temperature range. The kinetics and mechanism of the process has been investigated as a function of variables and a suitable mechanism proposed. From the experimental observations the rate of polymerization is seen to be proportional to [An]^1.5I^0.5[Mn⁺²]^0.5 and [CAA]^0.5. The rate of polymerization gradually decreases at a higher applied current. The rate was independent of [CAA]^0.5. The rate of polymerization gradually decreases at a higher applied current. The rate was independent of CAA at high concentration. The average degrees of polymerization (P _n) increases with increasing AN and decreasing [CAA], [Mn⁺²] and applied current, I. The initiation is due to the anodic oxidation of Mn⁺²–CNCH₂COOH complex. Both the initiation of polymerization by the primary radical, viz., CN? C?? COOH as well as the oxidation of the primary radical at the electrode are equally significant reactions and neither can be neglected in comparison with the other. Predominant mutual termination accounts for all the observed data.     

In situ FLUORESCENCE SPECTROSCOPIC STUDIES ON BOVINE CORNEA

Abstract— The cornea is a transparent ocular tissue and its transparency is thought to be a result of intramolecular interactions and the supramolecular organization of its protein constituents. We have studied the intrinsic fluorescence properties of intact bovine corneas and compared these with that of the opaque sclera. It was observed that with increasing excitation wavelengths the emission maxima shifted toward the red edge exhibiting the phenomenon of red edge excitation shift, which is indicative of immobilization of the constituent fluorophores. The magnitude of the shift increased after photodamage by irradiation at 295 nm. Many of the spectral characteristics of the cornea are shown to be due to its proteoglycans, which show surprisingly significant red edge excitation shift in solution.