Adiabatic approximations to internal rotation

A number of subtle and confusing issues are addressed concerning large amplitude motion (LAM) coordinates (chi) for internal molecular motions, using the methyl rotation in acetaldehyde (CH(3)CHO) as a model problem. If the LAM coordinate is chosen to be one of the H-C-C-O dihedral angles rho(1), rho(2), or rho(3), it lacks the required 2pi3 periodicity, and its use is thus undesirable. An excellent local internal coordinate for this model problem is tau(3)=13(rho(1)+rho(2)+rho(3)-2pi). A similarly good but nonlocal coordinate for the adiabatic approximation of internal rotation is provided by the intrinsic reaction coordinate s. Comparison of the mass-independent V(0)(tau(3)) and the mass-dependent V(0)(s) internal rotation curves shows that the two are virtually identical for the parent isotopolog of acetaldehyde. A unified internal coordinate projection scheme for determining complementary vibrational frequencies and subsequently V(ZPVE)(chi) along a path for LAM has been formulated, where V(ZPVE)(chi) is the zero-point vibrational energy correction to the internal rotation curve. In addition to its simplicity, the projection scheme developed for a distinguished reaction path generated by constrained optimizations is appealing because the vibrational frequencies along the LAM path are invariant to chemically meaningful choices of the internal coordinates for the complementary modes.     

Ellipsometry of silica nanoparticulate Langmuir-Blodgett films for the verification of the validity of effective medium approximations

The validity of various effective medium approximations (EMAs) (Bruggeman, Maxwell-Garnett) was studied for nanostructured systems, where the scale of inhomogeneities is comparable to the wavelength. Langmuir-Blodgett (LB) layers of St?ber silica nanospheres of diameters between 40 and 129 nm are excellent model structures for the experimental verification of the validity of the EMA methods in spectroscopic ellipsometry (SE) evaluation. Nanostructured mono- and multilayered silica films were investigated by SE and reflectance spectroscopy. The effective refractive index and film thickness were determined from the results of multiparameter fitting of SE spectra in the 300-759 nm wavelength region. The distribution of the effective refractive index in the particulate films was calculated assuming an ideal close-packed arrangement of particles. The average deviation from such a structure was deduced from the corrected model by introducing a "fill factor". In the EMA approximation, the spherical shape of the silica particle determines the optical behavior, rather than the "depth distribution" of silica or porosity. Therefore, the shape of particles has a dominant effect on the optical properties of nanoparticulate LB films.     

Ionen-Cyclotron-Resonanz-Messungen von Ion/Molekül-Reaktionen bei Chinonen

At a pressure of 10^?6 Torr the ion cyclotron resonance spectra of p-benzoquinone, methyl-p-benzoquinone, tetramethyl-p-benzoquinone and tetrafluoro-p-benzoquinone are identical to the normal mass spectra. Above 10^?5 Torr the spectra show a variety of signals for product ions. From double resonance measurements it was shown that all the product ions are formed by addition of the molecular ion or of a fragment ion to a neutral quinone molecule. In most cases the addition is accompanied by the elimination of carbon monoxide.     

Complete Proton Transfer Cycle in GFP and Its T203V and S205V Mutants

Proton transfer is critical in many important biochemical reactions. The unique three‐step excited‐state proton transfer in avGFP allows observations of protein proton transport in real‐time. In this work we exploit femtosecond to microsecond transient IR spectroscopy to record, in D₂O, the complete proton transfer photocycle of avGFP, and two mutants (T203V and S205V) which modify the structure of the proton wire. Striking differences and similarities are observed among the three mutants yielding novel information on proton transfer mechanism, rates, isotope effects, H‐bond strength and proton wire stability. These data provide a detailed picture of the dynamics of long‐range proton transfer in a protein against which calculations may be compared.     

Determination of vitamin B5 in a range of fortified food products by reversed-phase liquid chromatography-mass spectrometry with electrospray ionisation

Methods for Vitamin B5 determination in food products remain limited by their low sensitivity and poor selectivity. Here, we have developed a liquid chromatography-mass spectrometry (LC-MS) method for Vitamin B5 determination in wide range of fortified food products. Vitamin B5 was extracted from food samples by heat treatment and analysed by LC-MS in the positive mode using electrospray ionisation (ESI). Vitamin B5 was quantified using hopantenic acid (HOPA) as internal standard after their separation on a C18 narrow-bore column with a gradient of mobile phase made of water/acetonitrile and trifluoroacetic acid (TFA) 0.025%. MS with single ion monitoring mode at mass m/z 220 was used for Vitamin B5 quantification. Calibration curve between 0.5 and 10 microg/ml of Vitamin B5 was linear (r2=0.9993) and the detection limit was determined to be 800 pg. The overall quantitative efficiency of the method was evaluated using Nestle reference sample (infant formula). The intra-assay RSD was 4.8% (n=8), the inter-assay RSD 6.4% (n=4) and the recoveries of the spiked samples were above 95%. Application of the LC-MS method to Vitamin B5 determination in wide range of fortified food products including three US National Institute of Standards and Technology (NIST) reference samples (RM 8435, RM 8415 and SRM 1546) shows consistent results with those obtained by microbiology and recoveries of Vitamin B5 between 93 and 104% for the spiked samples.     

Electron hopping through the 15 A triple tryptophan molecular wire in DNA photolyase occurs within 30 ps

DNA photolyase is a photoactive flavoprotein that contains three tryptophan residues between the FAD cofactor and the protein surface, the solvent-exposed Trp being located 14.8 A from the flavin. Photoreduction of the neutral radical FADH. form to the catalytically active FADH- form occurs via electron transfer through this chain. The first step in this chain takes 30 ps, the second less than 4 ps. Using a combination of site-directed mutagenesis and femtosecond polarization spectroscopy to discriminate the spectroscopically indistinguishable Trp residues, we show that the third step occurs in less than 30 ps. This implies that the first photoreduction step is rate limiting and that the Trp chain effectively acts as molecular "wire" ensuring rapid and directed long-range charge translocation across the protein. This finding is important for the functioning of the large class of cryptochrome blue-light receptors, where the Trp chain is conserved. In DNA photolyase we make use of the natural photoactivation of the process, but more generally chains of aromatic amino acids may allow very fast long-range electron transfer also in nonphotoactive proteins.     

Influence of ion pairing on the oxidation of iodide by MLCT excited states

The oxidation of iodide to diiodide, I(2)˙(-), by the metal-to-ligand charge-transfer (MLCT) excited state of [Ru(deeb)(3)](2+), where deeb is 4,4'-(CO(2)CH(2)CH(3))(2)-2,2'-bipyridine, was quantified in acetonitrile and dichloromethane solution at room temperature. The redox and excited state properties of [Ru(deeb)(3)](2+) were similar in the two solvents; however, the mechanisms for excited state quenching by iodide were found to differ significantly. In acetonitrile, reaction of [Ru(deeb)(3)](2+*) and iodide was dynamic (lifetime quenching) with kinetics that followed the Stern-Volmer model (K(D) = 1.0 ± 0.01 × 10(5) M(-1), k(q) = 4.8 × 10(10) M(-1) s(-1)). Excited state reactivity was observed to be the result of reductive quenching that yielded the reduced ruthenium compound, [Ru(deeb(-))(deeb)(2)](+), and the iodine atom, I˙. In dichloromethane, excited state quenching was primarily static (photoluminescence amplitude quenching) and [Ru(deeb(-))(deeb)(2)](+) formed within 10 ns, consistent with the formation of ion pairs in the ground state that react rapidly upon visible light absorption. In both solvents the appearance of I(2)˙(-) could be time resolved. In acetonitrile, the rate constant for I(2)˙(-) growth, 2.2 ± 0.2 × 10(10) M(-1) s(-1), was found to be about a factor of two slower than the formation of [Ru(deeb(-))(deeb)(2)](+), indicating it was a secondary photoproduct. The delayed appearance of I(2)˙(-) was attributed to the reaction of iodine atoms with iodide. In dichloromethane, the growth of I(2)˙(-), 1.3 ± 0.4 × 10(10) M(-1) s(-1), was similar to that in acetonitrile, yet resulted from iodine atoms formed within the laser pulse. These results are discussed within the context of solar energy conversion by dye-sensitized solar cells and storage via chemical bond formation.     

Adamantanes as spherical nanosondes in adducts with a chiral dirhodium complex-discriminating enantiomers and probing spatial proximities

Three different kinds of substituted chiral adamantane molecules—adamantanones, dioxolanoadamantanes and dithiolano—adamantanes—were studied in the dirhodium experiment (NMR measurement with 1:1 molar mixtures with Rh^(II)₂[(R)‐(+)‐MTPA]₄ in CDCl₃). Their different behavior in adduct formation is described, and the possibility of determining enantiomeric purities and absolute configurations is explored. Detailed inspection of one‐ and two‐dimensional NMR experiments allowed for an interpretation of steric and electronic intra‐adduct interaction showing that the phenyl groups of Rh* tend to enwrap the bound adamantane ligand so that through‐space effects over a range of 6–7 Å away from the binding rhodium atom can be observed. Even slight differences in the relative orientation of phenyl groups can be monitored when comparing diastereomeric adducts via NMR signal dispersion. Copyright © 2011 John Wiley & Sons, Ltd.     

Highly sensitive label-free in vitro detection of aflatoxin B1 in an aptamer assay using optical planar waveguide operating as a polarization interferometer

Analytical and Bioanalytical Chemistry - This work reports on further development of an optical biosensor for the in vitro detection of mycotoxins (in particular, aflatoxin B1) using a highly...