Charge transfer excited-state dynamics in DNA duplexes substituted with an ethynylpyrenyldeoxyuridine electron source and a fluorodeoxyuridine electron trap

Studies of six 5-(pyren-1-yl-ethynyl)-2'-deoxyuridine (U(PY))-substituted DNA duplexes in this work test and support the conclusions reported by Gaballah et al. (J. Phys. Chem. B 2005, 109, 5927-5934) based on investigations of 5-(2-pyren-1-yl-ethylenyl)-2'-deoxyuridine (U(PE))-substituted DNA hairpins. As expected because of the rigid ethynyl linker in U(PY) (compared to the flexible ethylenyl linker in U(PE)), U(PY)-substituted duplexes do not show enhanced charge transfer (CT) emission quantum yields for duplexes with 5-fluorodeoxyuridine (U(F)) electron traps near U(PY) compared to duplexes without traps. Furthermore, the average CT lifetime and emission quantum yield of U(PY)-substituted duplexes is independent of the U(F) trap location. These new results strongly suggest that the excess electron in the PY*+/dU*- CT state of U(PY) is restrained from hopping to nearby U(F) traps due to attraction to PY*+.     

The absorption and excitation spectroscopy of matrix-isolated atomic manganese: sites of isolation in the solid rare gases

This study collects information from absorption and luminescence excitation spectra recorded for Mn atoms isolated in the solid rare gases Ar, Kr, and Xe and presents an analysis of the site occupancy, based on the polarizabilities of the rare gases and the observed spectral shifts. Two thermally stable sites of isolation exist for atomic Mn in solid Ar and Kr, while a single thermally stable site is present in Mn/Xe. Site occupancy assignments are based on the application of a polarizability model to the z (6)P(5/2)<--a (6)S(5/2); z (8)P(5/2)<--a (6)S(5/2), and y (6)P(5/2)<--a (6)S(5/2) electronic transitions of atomic Mn. From an analysis of the observed RG matrix-to-gas phase energy shifts for P<--S type transitions, this model allows the association of certain site types occupied by metal atoms in the rare gas solids. The required condition being a linear dependence of the matrix shifts with rare gas polarizability for those metal atoms "trapped" in a particular site type. Application of the polarizability model in conjunction with trends observed in site dominance, established a connection between the blue sites in Ar and Kr and the single site in Xe. Use of the known MgRG ground state bond lengths facilitated an identification of the sites of Mn atom isolation assuming the transference of the known MgRG bond lengths to the MnRG systems. Substitutional site occupancy of atomic Mn is assigned to the blue sites in Ar and Kr and the single site in Xe, while tetra-vacancy site occupancy is assigned to the red sites in Ar and Kr. Consistent with these assignments, Mn atoms in solid Ar show a preference for trapping in tetra-vacancy sites whereas in solid Kr, single substitutional sites are preferred and in Xe, this is the only site observed.     

The theaflavins of black tea

The structures, relative configurations and precursors of seven pigments isolated from the theaflavin fraction of black tea have been established by synthesis, and by NMR and mass spectrometry. The four principal pigments are the bis-flavan-substituted 1′,2′-dihydroxy-3,4-benzotropolones theaflavin, the corresponding isomeric 3- and 3′-monogallates, and the 3,3′-digallate. Collapsed spin-spin couplings and nuclear Overhauser effects in these and a range of mono-flavan-substituted model compounds are interpreted in terms of steric hindrance to rotation of flavan groups with respect to the benzotropolone ring. As a result of these steric effects, the 3-gallate and 3,3′-digallate exist in rotameric forms which are clearly distinguished in the temperature-dependent CD spectra.     

Dip-pen nanolithography of reactive alkoxysilanes on glass

The use of organofunctional silane chemistry is a flexible and general method for immobilizing biomolecules on silicon oxide surfaces, including fabricating DNA, small-molecule, and protein microarrays. The biggest hurdle in employing dip-pen nanolithography (DPN) for extending this general approach to the nanoscopic domain is the tendency of trialkoxy- and trichlorosilanes to rapidly polymerize due to hydrolysis reactions. The control of the local water concentration between the substrate surface and the scanning AFM tip is critical, both to the physical and chemical processes involved in DPN writing and to the ability to form well-defined thin layers of reactive silanes without extensive polymerization induced disorder. We found that we could control the degree of polymerization through careful choice of the alkoxysilane used as the "ink" for DPN and through control of the relative humidity during inking and writing with the coated AFM tip. As a proof-of-principle, we demonstrate that areas patterned with an alkoxysilane on glass with DPN are functional for subsequent immobilization of fluorescently labeled streptavidin via covalent attachment of biotin. This preliminary result sets the stage for the ability to capture proteins in their fully hydrated state from buffered solution, by molecular recognition onto previously written reactive nanoscopic regions on oxidized silicon and glass.     

Luminescence spectroscopy of matrix-isolated atomic manganese: excitation of the "forbidden" a6D(J)<-->a6S transitions

Laser-induced excitation spectra recorded for the electric-quadrupole 3d(6)4s a6D(J)<--3d(5)4s2a6S(5/2) transitions of atomic Mn, allow assignment of the red emission features, previously observed in Mn/RG (RG=Ar, Kr and Xe) matrices with resonance 3d(5)4s4pz6P(5/2)<--3d(5)4s2 a6S(5/2) excitation, to the metastable a6D(9/2) state. Narrow excitation bands recorded for the red site in the Mn/Kr system allow identification of all five spin-orbit levels (J=1/2, 3/2, 5/2, 7/2 and 9/2) in the a6D state. The coincidence of the lowest energy excitation band and the observed 585.75 nm (17,072 cm(-1)) emission band of atomic Mn in Kr matrices, yielded a definitive assignment of this emission to a transition from the J=9/2 spin-orbit level. Temperature dependent emission scans lead to the identification of the zero phonon line for the a6D(9/2)-->a6S(5/2) transition at 585.75 nm. The identified matrix-shift of +20 cm(-1) allows an assessment of the extent of the ground state stabilization in the red (secondary) site of atomic Mn isolation in solid Kr. Emission produced with direct a6D state excitation yielded both the 585.75 and 626 nm features. The former band arises for Mn atoms occupying the red site--the latter from blue site occupancy in solid Kr. The excitation linewidths recorded for these two sites differ greatly, with the blue site yielding a broad featureless profile, in contrast to the narrow, structured features of the red site. The corresponding red site a6D(J)<-->a6S(5/2) transitions in Ar and Xe matrices are broader than in Kr--a difference considered to originate from the site sizes available in these hosts and the interatomic Mn x RG potentials. The millisecond decay times recorded for the red emission bands in the Mn/RG systems are all much shorter than the 3 s value predicted for the gas phase a6D(9/2)-->a6S(5/2) transition. This enhancement allows optical pumping of the forbidden a6D(J)<-->a6S transitions with low laser powers when atomic manganese is isolated in the solid state. However all the emission decays are complex, exhibiting triple exponential decays. This behavior may be related to the dependence of the excitation linewidths on the J value, indicating removal of the J degeneracy due to weak matrix-induced, crystal field splitting.     

Crystal structure oftrans-tetrachlorobis[2-(2-1H-imidazolyl)-1H-imidazolium]cadmium(II), [Cd(H3biim)2Cl4]

The reaction between cadmium(II) chloride and 2,2'-bi-1H-imidazole (H₂biim) in an acidic solution affords [Cd(H₃biim)₂Cl₄] (H₃biim=2-(2-1H-imidazolyl)-1H-imidazolium) in 63% yield. The compound crystallizes in the triclinic space groupP1, wherea=8.072(2),b=8.100(2),c=8.593(2) Å, =75.89(2), =62.94(2), =63.29(1)°,V=446.4(2) ų, andZ=1. The central Cd atom exhibits an octahedral geometry composed of a Cl₄N₂ core. The Cd-N bond distance is 2.392(2) Å. Cd–Cl distances are 2.5919(9) and 2.671(1) Å.     

Characterization of partially transesterified poly(beta-hydroxyalkanoate)s using matrix-assisted laser desorption/ionization time-of-flight mass spectrometry

Matrix-assisted laser desorption/ionization time-of-flight mass spectrometry (MALDI-TOFMS) was used for the characterization of a partially transesterified poly(beta-hydroxyalkanoate), PHA, polymer produced by the bacterial strain Alcaligenes eutrophus using saponified vegetable oils as the sole carbon sources. The transesterification was carried out separately under acidic and basic conditions to obtain PHA oligomers weighing less than 10 kDa. The intact oligomers were detected in their cationized [M + Na](+) and [M + K](+) forms by MALDI-TOFMS. A composition analysis, using the MALDI-TOF spectra, indicate that the oligomers obtained via acid catalysis were terminated with a methyl 3-hydroxybutyrate end group, and those obtained by base catalysis had a methyl crotonate (olefinic) termination. In addition to HB (hydroxy butyrate), the oligomers were found to contain a small percentage of HV (hydroxy valerate). This was independently confirmed using gas chromatography/mass spectrometry (GC/MS). In comparison, the analysis of a commercial PHA polymer, transesterified under identical conditions, only showed the presence of HB, i.e. a pure PHB homopolymer. Copyright 1999 John Wiley & Sons, Ltd.     

Enhanced para-xylene selectivity in the toluene alkylation reaction at ultralow contact time

Dramatic improvements in the para-xylene selectivity of the toluene alkylation reaction can be effected by operating the catalytic reaction at ultralow contact time. Unexpectedly, the rate of alkylation is sustained, while unwanted side reactions are suppressed. By demonstrating that contact time directly influences the fate of para-xylene, which is known to form and diffuse preferentially within the zeolite catalyst, we conclude that external mass transfer is a key parameter in controlling selectivity. Even non-optimized catalysts can be made to achieve near-perfect selectivity, without sacrificing conversion.