Hydrogen bonding in redox-modulated molecular recognition. An experimental and theoretical investigation

Two receptors, a diaminotriazine derivative (DAT) and diamidopyridine (DAP), are complementary to the electroactive naphthalimide (N) through three-point hydrogen bonding. The association constants of the two receptors were evaluated for both the fully oxidized and the radical anion forms of N. In the oxidized state, the two receptors displayed identical binding constants. Diamidopyridine, however, lowers the reduction potential of naphthalimide to a far greater extent than does diaminotriazine, indicating a greater affinity for diamidopyridine by naphthalimide in the radical anion form. This behavior was mirrored by EPR experiments that showed small deviations from the hyperfine coupling pattern of N(red) in the presence of DAT, with greater effects seen for the N(red).DAP complex. Computational simulations using the UB3LYP/6-311+G(d,p)//UHF/6-31G(d) hybrid gave theoretical hyperfine constants in good quantitative agreement with the experimental results. Using this correlation, we determined that electrostatics and hydrogen bond polarizability play key roles in controlling redox-modulated molecular recognition.     

Microwave spectra and structures of KrAuF, KrAgF, and KrAgBr; 83Kr nuclear quadrupole coupling and the nature of noble gas-noble metal halide bonding

Microwave spectra of the complexes KrAuF and KrAgBr have been measured for the first time using a cavity pulsed jet Fourier transform microwave spectrometer. The samples were prepared by laser ablation of the metal from its solid and allowing the resulting plasma to react with an appropriate precursor (Kr, plus SF6 or Br2) contained in the backing gas of the jet (usually Ar). Rotational constants; geometries; centrifugal distortion constants; vibration frequencies; and 197Au, 79Br, and 81Br nuclear quadrupole coupling constants have all been evaluated. The complexes are unusually rigid and have short Kr-Au and Kr-Ag bonds. The 197Au nuclear quadrupole coupling constant differs radically from its value in an AuF monomer. In addition 83Kr hyperfine structure has been measured for KrAuF and the previously reported complex KrAgF. The geometry of the latter has been reevaluated. Large values for the 83Kr nuclear quadrupole coupling constants have been found for both complexes. Both the 197Au and 83Kr hyperfine constants indicate a large reorganization of the electron distribution on complex formation. A thorough assessment of the nature of the noble gas-noble metal bonding in these and related complexes (NgMX; Ng is a noble gas, M is a noble metal, and X is a halogen) has been carried out. The bond lengths are compared with sums of standard atomic and ionic radii. Ab initio calculations have produced dissociation energies along with Mulliken populations and other data on the electron distributions in the complexes. The origins of the rigidity, dissociation energies, and nuclear quadrupole coupling constants are considered. It is concluded that there is strong evidence for weak noble gas-noble metal chemical bonding in the complexes.     

LC-mass spectrometry analysis of N- and C-terminal boundary sequences of polypeptide fragments by limited proteolysis

Limited proteolysis is an important and widely used method for analyzing the tertiary structure and determining the domain boundaries of proteins. Here we describe a novel method for determining the N- and C-terminal boundary amino acid sequences of products derived from limited proteolysis using semi-specific and/or non-specific enzymes, with mass spectrometry as the only analytical tool. The core of this method is founded on the recognition that cleavage of proteins with non-specific proteases is not random, but patterned. Based on this recognition, we have the ability to determine the sequence of each proteolytic fragment by extracting a common association between data sets containing multiple potential sequences derived from two or more different mass spectral molecular weight measurements. Proteolytic product sequences derived from specific and non-specific enzymes can be accurately determined without resorting to the conventional time-consuming and laborious methods of SDS-PAGE and N-terminal sequencing analysis. Because of the sensitivity of mass spectrometry, multiple transient proteolysis intermediates can also be identified and analyzed by this method, which allows the ability to monitor the progression of proteolysis and thereby gain insight into protein structures.     

DNA recognition interfaces: the influence of interfacial design on the efficiency and kinetics of hybridization

The effect of the surface chemistry of DNA recognition interfaces on DNA hybridization at a gold surface was investigated using both electrochemistry and the quartz crystal microbalance (QCM) technique. Different DNA recognition interfaces were prepared using a two-component self-assembled monolayer consisting of thiolated 20-mer probe single-stranded DNA (ss-DNA) containing either a 3'-mercaptopropyl or a 3'-mercaptohexyl linker group and an alcohol-terminated diluent layer with 2-, 6-, or 11-carbon length. The influence of the interfacial design on the hybridization efficiency, the affinity constant (Ka) describing hybridization, and the kinetics of hybridization was assessed. It was found that the further the DNA was above the surface defined by the diluent layer the higher the hybridization efficiency and Ka. The kinetics of DNA hybridization was assessed using both a QCM and an electrochemical approach to ascertain the influence of the interface on both the initial binding of target DNA to the surface and the formation of a complete duplex. These measurements showed that the length of the diluent layer has a large impact on the time taken to form a perfect duplex but no impact on the initial recognition of the target DNA by the immobilized probe DNA.     

Evidence for selectivity of absorption of volatile organic compounds by a polydimethylsiloxane solid-phase microextraction fibre

Solid-phase microextraction using a 30 microns polydimethylsiloxane fibre has been used to sample the volatile organic compounds from standard mixtures and from mixtures produced by the decomposition of organic compounds. This method of sampling has been compared with the direct injection of an aliquot of headspace gas and shows an enrichment factor of approximately 100 over a 1 ml gas injection for organosulphur gases such as dimethyldisulphide. The performance of the fibre has been evaluated with respect to accuracy and precision at several concentrations in representing the composition of multicomponent mixtures. It was found that the presence of a second component in a gas sample reduced the capacity of the fibre to absorb the primary component. The selectivity of the fibre for various volatile compounds with differing functionality was also studied. It was found that the non-polar polydimethylsiloxane fibre preferentially absorbed the non-polar components of a mixture, e.g. nonane and, correspondingly, under reported the more polar components, e.g. ethanol. Hence, the fibre discriminates in favour of non-polar and against polar components in a mixture in comparison with direct analysis of a headspace sample. Thus, quantitation of a component in a multi-component mixture is liable to error from competitive interference from other components. A major advantage of the technique, however, is that it does not absorb, and therefore introduce, water into the analytical system.     

Element-selective detection using capillary gas chromatography with atomic emission detection

Capillary GC coupled to an atomic emission detector (AED) provides a powerful new hyphenated technique for the separation and characterization of complex mixtures and compounds. The AED provides simultaneous and truly specific multi-element detection. The specificity of detection reduces the need for the complex sample pretreatment procedures which are necessary to reduce the interference from co-eluted substances which is experienced with detectors such as the FID and the ECD. A range of environmentally significant problems has been studied, including PCB analysis, the characterization of the reaction products of a novel waste treatment process, and the profiling of sulfur-containing species formed by the pyrolysis of various types of coal.     

Kinetics and mechanisms of the reactions of OH with some oxygenated compounds of importance in tropospheric chemistry

The kinetics of the reactions have been studied in a discharge flow system under pseudo-first-order conditions. The OH concentration was monitored by laser induced fluorescence and helium was used as the carrier gas. Values of k₁ = (8.1 ± 1.7) × 10^?13, k₂ = (1.31 ± 0.26) × 10^?11, k₃ = (2.6 ± 0.5) × 10^?11, and k₄ = (2.5 ± 0.4) × 10^?11 cm³ molecule^?1 s^?1, at 298 K and 1 torr total pressure, were obtained. To validate the newly constructed system the rate constant for the reaction was determined in a similar manner. The value of k₅ = (6.7 ± 0.9) × 10^?12 cm³ molecule^?1 s^?1 at 298 K and 1 torr total pressure is in very good agreement with other literature values. The mechanisms for the atmospheric degradation of these compounds have been constructed to allow their incorporation in a photochemical trajectory computer model, to assess their impact on photochemical ozone creation in the troposphere. © 1994 John Wiley & Sons, Inc.     

Observations on the hydrogen peroxide-iodic acid-manganese(II)-organic species oscillating system

The effect of acidity and manganese (II) concentration on the title reaction has been examined for acetone and malonic acid as the organic species. Cerium (III) has been shown to replace manganese (II) without loss of the oscillatory behavior. Some mechanistic details are given.

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Был исследован эффект кислотности и концентрации марганца (II) в заглавной реакции на примере ацетона и малоновой кислоты, как органических компонентов. Было обнаружено, что замена марганца (II) на церий (III) не приводит к исчезновению осциллирующего поведения. Приводятся некоторые детали механистической модели.

     

Competing Effects of Chlorination on the Strength of Te⋅⋅⋅O Chalcogen Bonds Select the Structure of Mixed Supramolecular Macrocyclic Aggregates of Iso-Tellurazole N-Oxides

Chlorination of 3-methyl-5-phenyl-1,2-tellurazole-2-oxide yielded the λ⁴Te dichloro derivative. Its crystal structure demonstrates that the heterocycle retains its ability to autoassociate by chalcogen bonding (ChB) forming macrocyclic tetramers. The corresponding Te⋅⋅⋅O ChB distances are 2.062 Å, the shortest observed to date in aggregates of this type. DFT−D3 calculations indicate that while the halogenated molecule is stronger as a ChB donor it also is a weaker ChB acceptor; the overall effect is that the ChBs in the chlorinated homotetramer are not significantly stronger. However, partial halogenation or scrambling selectively yield the 2 : 2 heterotetramer with alternating λ⁴Te and λ²Te centers, which calculations identified as the thermodynamically preferred arrangement.