Excitation wavelength dependence of the proton-transfer reaction of the green fluorescent protein

Picosecond time-correlated single-photon counting was used to measure the proton-transfer rate of green fluorescent protein (GFP) excited by several wavelengths between 266 and 405 nm. When samples of GFP in water and D2O are excited at short wavelengths, lambda(ex) < 295 nm, the fluorescence properties are largely modified with respect to excitation at a wavelength around 400 nm, the peak of the absorption band of the S0 --> S1 transition of the ROH form of the chromophore. The shorter the excitation wavelength, the longer the decay time of the ROH emission band at 450 nm and the longer the rise time of the RO- emission band at 512 nm. The proton transfer is slower by an order of magnitude and about a factor of 3 when GFP in water and D2O are excited by 266 nm, respectively.     

Palladium Biosensor

In this paper we proposed a palladium(II) biosensor. The biosensor is based on determining of interactions between palladium(II) and metallothionein modified hanging mercury drop electrode by means of differential pulse voltammetry. We studied influence of two supporting electrolytes (potassium or sodium chloride) on the signals of the biosensor. Based on the results obtained we found potassium chloride (0.05 M) as the most suitable supporting electrolyte to determine palladium(II). The detection limit of the biosensor for palladium ions was evaluated as 100 nM with RSD about 10%. Moreover, we utilized the biosensor for measurement of the target molecule in the presence of human blood serum and human urine.     

Conformational dependence of intramolecular vibrational redistribution in methanol

Previous state-selected spectra of methanol in the 5nu(1) OH stretch overtone region [O. V. Boyarkin, T. R. Rizzo, and D. S. Perry, J. Chem. Phys. 110, 11346 (1999)] revealed a structure indicating an intramolecular vibrational redistribution on three time scales. Whereas in that work, methanol in the 5nu(1) bright state was prepared close to the staggered conformation, methanol in the "partially eclipsed" conformation is prepared here by double resonance excitation through a torsionally excited intermediate state. The excited molecules are detected by infrared laser assisted photofragment spectroscopy. In partially eclipsed methanol, the strong coupling of the nu(1) OH stretch to the nu(2) CH stretch becomes weaker, but the coupling responsible for the widths of the narrowest features becomes stronger.     

Comparison of High-Temperature Gradient Heart-Cutting and Comprehensive LC × LC Systems for the Separation of Phenolic Antioxidants

Natural phenolic antioxidants were separated using comprehensive 2D HPLC on a Purospher Star RP-18e column in the first dimension and on two parallel Zirconia Carbon columns working in alternating cycles in the second dimension. The combination of the two columns provides great differences in separation selectivity in each dimension and an almost orthogonal 2D system. Temperature and solvent gradients were compared for the separation of the first-dimension fraction in the stop-flow heart-cutting 2D setup. Temperature gradients provide shorter separation times in comparison with solvent gradients. However, the time required for post-run column equilibration is too long for comprehensive LC × LC. High-temperature isocratic separation was employed in the second dimension of the comprehensive setup, allowing improvement of the fraction transfer frequency between the two dimensions and shorter 2D separation time in comparison to the earlier published method. The approach was applied to the analysis of beer and wine.     

Expanding the enantioselectivity of the gas-chromatographic chiral stationary phase chirasil-val-C11 by doping it with octakis(3-O-butanoyl-2,6-di-O-n-pentyl)-gamma-cyclodextrin

Combination of the enantioselective properties of the two versatile gas-chromatographic chiral stationary phases (CSPs) octakis(3-O-butanoyl-2,6-di-O-n-pentyl)-gamma-CD (Lipodex E) 1 and L-valine-diamide-based CSP Chirasil-Val-C11 2 has been realized by doping the chiral polymer 2 with the nonpolymeric selector 1. The resulting mixed-mode CSP Chirasil-Val(gamma-Dex) 3 was found to have a greatly improved enantioselectivity toward proline and aspartic acid (as N-trifluoroacetyl ethyl or methyl esters) in comparison to the single-mode CSP 2. The presence of the CD selector in 3 extended the scope of gas-chromatographic enantioseparations achievable on 2 to underivatized alcohols, terpenes, and other chiral compounds that are exclusively enantioseparated on 1.     

A catalytic and stoichiometric approach to the synthesis of the steroid B-ring en route to estratrienes

Zirconocene catalyzed cyclization of 2-(5-methoxy-3-penten-1-yl)styrene in the presence of organomagnesium reagents was studied. The cyclization proceeded in high isolated yields (up to 84%) with excellent trans-selectivity (>98%), which is unusual for the formation of cyclohexane derivatives. Catalytic cyclization in the presence of Cp₂ZrCl₂ proceeded as well with similar results. The reaction with (R,R)-(EBTHI)₂ZrCl₂ gave a cis/trans mixture of 5 in low yield and poor ee.     

Stability of nucleic acid base pairs in organic solvents: molecular dynamics, molecular dynamics/quenching, and correlated ab initio study

The dynamic structure and potential energy surface of adenine...thymine and guanine...cytosine base pairs and their methylated analogues interacting with a small number (from 1 to 16 molecules) of organic solvents (methanol, dimethylsulfoxide, and chloroform) were investigated by various theoretical approaches starting from simple empirical methods employing the Cornell et al. force field to highly accurate ab initio quantum chemical calculations (MP2 and particularly CCSD(T) methods). After the simple molecular dynamics simulation, the molecular dynamics in combination with quenching technique was also used. The molecular dynamics simulations presented here have confirmed previous experimental and theoretical results from the bulk solvents showing that, whereas in chloroform the base pairs create hydrogen-bonded structures, in methanol, stacked structures are preferred. While methanol (like water) can stabilize the stacked structures of the base pairs by a higher number of hydrogen bonds than is possible in hydrogen-bonded pairs, the chloroform molecule lacks such a property, and the hydrogen-bonded structures are preferred in this solvent. The large volume of the dimethylsulfoxide molecule is an obstacle for the creation of very stable hydrogen-bonded and stacked systems, and a preference for T-shaped structures, especially for complexes of methylated adenine...thymine base pairs, was observed. These results provide clear evidence that the preference of either the stacked or the hydrogen-bonded structures of the base pairs in the solvent is not determined only by bulk properties or the solvent polarity but rather by specific interactions of the base pair with a small number of the solvent molecules. These conclusions obtained at the empirical level were verified also by high-level ab initio correlated calculations.     

Capillary ion chromatography of inorganic anions on octadecyl silica monolith modified with an amphoteric surfactant

A reversed-phase monolithic silica based capillary column (Onyx C(18), 150 mm x 0.1 mm) was modified with the amphoteric surfactant, N-dodecyl-N,N-(dimethylammonio)undecanoate (DDMAU) and evaluated for the separation and determination of inorganic anions using on-column capacitively coupled contactless conductivity detection (C(4)D). The chromatographic performance of the column was evaluated and under optimal conditions separation efficiencies of 56,200 plates per meter or 7025 plates per column (at detection point) were observed (for iodide). Direct plumbing of the capillary column to the micro-injector and on-column detection eliminated extra-column band broadening, thus allowing accurate analysis of van Deemter curves obtained for the monolithic capillary column. The calculated value for the C-term in the obtained van Deemter curve was between 3 and 4 ms for inorganic anions, allowing for the utilisation of relatively high flow rates without significant losses in efficiency. The performance of the C(4)D detector was investigated and compared for detection on an open tubular capillary column and on the modified monolithic silica capillary column. The on-column detection approach did not result in any significant decrease in peak sensitivity for the monolith compared to responses recorded for open tubular capillary columns, and in addition meant the system could be applied to rapid separations by simple variation in apparent column length. The proposed chromatographic system allowed for detection of common anions at sub-ppm level with a 10 nL injection volume. Additionally, on-column detection allowed visualisation of the development of the separation at any point in time and evaluation of the longitudinal uniformity of the ion-exchange coating.     

Hydrogen-bonded nucleic acid base pairs containing unusual base tautomers: complete basis set calculations at the MP2 and CCSD(T) levels

The total interaction energies of altogether 15 hydrogen-bonded nucleic acid base pairs containing unusual base tautomers were calculated. The geometry properties of all selected adenine-thymine and guanine-cytosine hydrogen-bonded base pairs enable their incorporation into DNA. Unusual base pairing patterns were compared with Watson-Crick H-bonded structures of the adenine-thymine and guanine-cytosine pairs. The complete basis set (CBS) limit of the MP2 interaction energy and the CCSD(T) correction term, determined as the difference between the CCSD(T) and MP2 interaction energies, was evaluated. Extrapolation to the MP2 CBS limit was done using the aug-cc-pVDZ and aug-cc-pVTZ results, and the CCSD(T) correction term was determined with the 6-31G*(0.25) basis set. Final interaction energies were corrected while taking into account both tautomeric penalization determined at the CBS level and solvation/desolvation free energies. The situation for the adenine-thymine pairs is straightforward, and tautomeric pairs are significantly less stable than the Watson-Crick pair consisting of the canonical forms. In the case of the guanine-cytosine pair, the Watson-Crick structure made by canonical forms is again the most stable. The other two structures are, however, energetically rather similar (by 5 and 6 kcal/mol), which provides a very small but non-negligible chance of detecting these structures in the DNA double helix (1:5000). Due to the fact that DNA bases and base pairs incorporated into DNA are solvated less favorably than in isolated systems, this probability represents the very upper limit. The results clearly show how precisely the canonical building blocks of DNA molecules were chosen and how well their stability is maintained.     

Synthesis and characterization of difluoromethylene-homo[60]fullerene, C60(CF2)

Refluxing of the o-DCB solution of C60 with CF2ClCOONa and 18-crown-6 leads to formation of C60(CF2)n (n = 1-3); the monoadduct C60(CF2) has been found to consist of the main [6,6]- and minor [5,6]-isomers, both having an open structure.