Intramolecular dimers: a new design strategy for fluorescence-quenched probes

Fluorogenic probes dual-labeled with reporter and quencher dyes use a change in fluorescence to monitor biochemical events (e.g., substrate binding or enzyme digestion). Such events change the reporter-quencher distance, which affects fluorescence. Recently, it is has been shown that static quenching through intramolecular dimers is an important mechanism that can sometimes be more efficient than F?rster resonance energy transfer (FRET).     

Ab initio calculations of small hydrides including electron correlation

Five different structures of CH₅ ⁺ and one structure of CH₅ ^– are calculated using a gaussian basis both in the SCF approximation and with the inclusion of electron correlation in the independent electron pair approximation (IEPA). While on SCF level the C _sstructure of CH₅ ⁺ has to lowest energy, the energy difference between the C _sand C _2vstructures becomes negligible if correlation is included. In contrast to this the approach of a proton to CH₄ at large and intermediate distances is most favorable towards a corner of the CH₄ tetrahedron which means a structure. The decomposition of CH₅ ⁺ into CH₃ ⁺ and H₂ requires 20kcal/mol on SCF level and 40 kcal/mol if correlation is included.     

Kinetic studies of nickel speciation in model solutions of a well-characterized humic acid using the competing ligand exchange method

Publications on the binding characteristics of metals with humic acid (HA) are sparse. Here we investigated the release of nickel from Ni(II)-HA complexes using model solutions of three different [Ni(II)]/[HA] mole ratios at three different pH values; we also compared the results with those of [Ni(II)]/[FA] complexes from previous work in this laboratory. Ligand exchange kinetics using the competing ligand exchange method (CLEM) were studied using two different techniques: graphite furnace atomic absorption spectrometry (GFAAS) with Chelex 100 resin as the competing ligand, and adsorptive cathodic stripping voltammetry (AdCSV) with dimethylglyoxime as the competing ligand to measure the rate of dissociation of Ni(II)-HA complexes. The results of the kinetic studies showed that as the [Ni(II)]/[HA] mole ratio was decreased, the rate of dissociation of Ni(II)-HA complexes decreased, and the proportion of free Ni²⁺ ions plus very labile nickel complexes decreased while the proportion of the less labile kinetically distinguishable components increased. Generally, the rate of dissociation of Ni(II)-HA complexes was slower than that of Ni(II)-FA complexes. Studies on the validity of the kinetic model showed that the concentrations of chemical species varied in a reasonable way with pH and the [Ni(II)]/[HA] mole ratios, indicating that the kinetically distinguishable components have chemical significance and the kinetic model is valid.     

A new method for the direct calculation of resonance parameters with application to the quasibound states of the H2X1Σ g + system

A new method for the direct calculation of resonance parameters is presented. It is based upon searching for poles of the scattering matrix at complex energies. This search is expedited by the use of analytic derivatives of the scattering matrix with respect to the total energy. This procedure is applied initially to a single channel problem, but is generalizable to more complicated systems. Using the most accurate available potential energy data, we calculate resonance parameters for all of the physically important quasibound states of the ground electronic state of the hydrogen molecule. Corrections to the Born-Oppenheimer potential are included and assessed. The new method has no difficulty locating resonances with widths greater than about 1×10^–7 cm^–1. It is easier to find narrow resonances by monitoring the dependence of the imaginary part of the reactance matrix on the real part of a complex energy than to monitor the dependence of the eigenphase sum on energy at real energies.     

A comparative quantum-chemical analysis of electronic structures and spectroscopic parameters of cycloalkanes and cyclopolysilanes

A comparative quantum-chemical analysis of the electronic structures and spectroscopic parameters of the cycloalkanes C₃H₆, C₄H₈, C₅H₁₀, and C₆H₁₂ and their silicon analogs Si₃H₆, Si₄H₈, Si₅H₁₀ and Si₆H₁₂ was performed in the framework of the SCF MO LCAO method in the INDO approximation. Qualitative interpretation of “abnormal” ionization potentials and energies of electronic absorption spectra of cyclopolysilanes has been given. Translated fromIzvestiya Akademii Nauk. Seriya Khimicheskaya, No. 6, pp. 1105–1108, June, 1997.     

Molecular caps for full quantum mechanical computation of peptide-water interaction energy

We present a systematic study of numerical accuracy of various forms of molecular caps that are employed in a recently developed molecular fractionation scheme for full quantum mechanical computation of protein-molecule interaction energy. A previously studied pentapeptide (Gly-Ser-Ala-Asp-Val) or P5 interacting with a water molecule is used as a benchmark system for numerical testing. One-dimensional potential energy curves are generated for a number of peptide-water interaction pathways. Our study shows that various forms of caps all give consistently accurate energies compared to the corresponding full system calculation with only small deviations. We also tested the accuracy of cutting peptide backbone at different positions and comparisons of results are presented.     

The delocalisation energy of benzene and the non-empirical MO theory

Algebraic expressions for the vertical Delocalisation Energy (DE) of benzene are derived from non-empirical MO theory. For comparison with early work in the π-electron approximation, and ultimately with Hückel theory, the results are formulated in terms of a core resonance integral,β, and π-electronic repulsion integrals. All integral values are inferred from the results ofab initio SCF calculations. Two expressions are derived, which refer to two ways of forming the localised π MOs: one where three pairs of adjacent atomic orbitals are selected from a set of six orthogonalised orbitals; and another where a non-orthogonal set of atomic orbitals is used. The first expression is formally similar to an expression originally derived by Pople from a different point of view and with many approximations. This expression gives too large a magnitude for DE when used with anab initio value ofβ. The second expression gives a result much closer to an empirical value of DE and shows that the main reason for DE being about 50% of 2β rather than 2β is the stabilising effect of overlap in the localised structure, and that the less important factor is the inclusion of electronic repulsion.     

A conformational analysis method for understanding the energy landscapes of clusters.

A newly developed unbiased structural optimization method, named dynamic lattice searching (DLS), is proposed as an approach for conformational analysis of atomic/molecular clusters and used in understanding the energy landscape of large clusters. The structures of clusters are described in terms of the number of basic tetrahedron (BT) units they contain. We found that the hit numbers of different structural motifs in DLS runs is proportional to the number of BTs. A parameter T(max) is defined to limit the maximal number of atoms moved in a structural transition. Results show that T(max) is a key parameter for modulating the efficiency of the DLS method and has a great influence on the hit number of different motifs in DLS runs. Finally, the effect of potential range on the conformational distribution of the (Morse)(98) cluster is also discussed with different potential-range parameters.     

Hydride generation atomic absorption spectrometry with insitu graphite tube trapping for the determination of Se (IV) and Se (VI) in baltic sea water samples

This paper reports the results of an optimisation study for a procedure to determine the total selenium and its inorganic species, Se(IV) and Se(VI) using atomic absorption spectrometry combined with hydride generation and in-situ trapping of the analyte on the inner walls of the graphite tube. With the use of the proposed modification, a detection limit (3σ) of 0.018 ng/ml is achieved. This paper presents exemplary results, according to the proposed procedure, for selenium determination in samples of marine water. The concentrations of selenium in the samples ranged from <0.02 ng/ml to 0.16ng/ml of Se(IV) and from <0.02 ng/ml to 0.10 ng/ml of Se(VI).     

流动注射在线阴离子树脂预富集火焰原子吸收测定痕量铜

研究了以阴离子交换树脂作吸附剂的流动注射在线微柱预富集火焰原子吸收测定铜的新方法。在最佳条件下富集１５０ｓ，富集２３倍，检出限０．２μｇ／Ｌ，ＲＳＤ为１．６％，分析速度２０次／ｈ。天然水样中可能存在的离子不干扰铜的测定。所建立的方法已用于水样中痕量铜的测定。