Eigenmobilities in background electrolytes for capillary zone electrophoresis: IV. Computer program PeakMaster

We are introducing a computer implementation of the mathematical model of zone electrophoresis (CZE) described in Stedry, M., Jaros, M., Hruska, V., Gas, B., Electrophoresis 2004, 25, 3071-3079 program PeakMaster. The computer model calculates eigenmobilities, which are the eigenvalues of the matrix tied to the linearized continuity equations, and which are responsible for the presence of system eigenzones (system zones, system peaks). The model also calculates other parameters of the background electrolyte (BGE)-pH, conductivity, buffer capacity, ionic strength, etc., and parameters of the separated analytes--effective mobility, transfer ratio, molar conductivity detection response, and relative velocity slope. This allows the assessment of the indirect detection, conductivity detection and peak broadening (peak distortion) due to electromigration dispersion. The computer model requires the input of the BGE composition, the list of analytes to be separated, and the system instrumental configuration. The output parameters of the model are directly comparable with experiments; the model also simulates electropherograms in a user-friendly way. We demonstrate a successful application of PeakMaster for inspection of BGEs having no stationary injection zone.     

Cadmium(II) and nickel(II) complexes of benziporphyrins. A study of weak intramolecular metal-arene interactions

Weak metal-arene interactions have been investigated in Zn, Cd, Hg, and Ni complexes of meso-tetraaryl m- and p-benziporphyrin (1 and 2) and of the new compound, m-benziporphodimethene (3). Compounds 1-3 incorporate the phenylene moiety into a macrocyclic structure so as to facilitate the interaction between the arene and coordinated metal ion. X-ray studies performed on Cd(II) and Ni(II) complexes show that the arene fragment approaches the ion at a distance much shorter than the sum of van der Waals radii. In chloronickel(II) m-benziporphyrin, a weak agostic bond is actually formed. In the NMR spectra of the Cd(II) and Hg(II) species, unusual (1)H-M and (13)C-M scalar couplings have been observed that are transmitted directly between the metal and the arene. DFT calculations performed for two Cd(II) species and subsequent AIM analysis show that the accumulation of electron density between the metal and arene necessary to induce these couplings is fairly small and the interaction is steric in nature. In the paramagnetic Ni(II) complexes of 1 and 3, the agostic proton of the m-phenylene exhibits large downfield (1)H NMR shifts (386 and 208 ppm at 298 K, respectively). An agostic mechanism of spin density transfer is proposed to explain these shifts as resulting from electron donation from the CH bond to the metal. In chloronickel(II) p-benziporphyrin, the inner protons of the p-phenylene have a contrastingly small shift (0.0 ppm at 298 K), indicating that in this case the agostic interaction is inefficient, in agreement with the X-ray data.     

Concentration dependencies of NaCl salting of lysozyme by calorimetric methods

Concentration dependence of NaCl salting of lysozyme was investigated in the range of 0.5-9 mM lysozyme concentration in 0.1 M sodium acetate buffer, pH=4.25and the concentration of NaCl up to 0.1 M. Calorimetric experiments were performed with the use of a titration ITC Omega MicroCal calorimeter. It was found that the estimated number of bonding sites depended on the lysozyme concentration. For infinitely diluted lysozyme solution, the number of binding sites could be roughly estimated to ∼50. In the range of 2-9 mM protein concentration, the number of weakly binding (K=2.7±0.8 M⁻¹) sites on the protein surface was estimated to 35±7. McMillan and Mayer’s approach reduced to the third order virial coefficients demonstrates that besides the dominating effect of the protein—salt interaction (a₁₁) the coefficient describing the lysozyme aggregation upon salt addition (a₁₂) is statistically significant.     

Synthesis of alkylphenanthrenes from naphthylalkylidenemalonodinitriles. A route to 1-methyl-, 2-methyl-, and 1,2-dimethylphenanthrene

The study has been carried out to evaluate the feasibility of synthesis of 1-methyl-, 2-methyl-, 1,2-dimethyl-, and 1-ethyl-2-methylphenanthrene through the annulation of the naphthalene system with the exploitation of the dicyanovinyl moiety of 2-naphthylalkylidenemalonodinitriles as an active electrophile in cold solutions of concentrated sulfuric acid. 2-(2-Naphthyl)propanal (3), 1-(2-naphthyl)propan-2-one (9), 3-(2-naphthyl)butan-2-one (14), and 3-(2-naphthyl)pentan-2-one (19) had been condensed with malonodinitrile to afford 2-naphthylalkylidenemalonodinitriles which were then cyclised to give 4-amino-1-methylphenanthrene-3-carbonitrile (5), 4-amino-2-methylphenanthrene-3-carbonitrile (11), 4-amino-1,2-dimethylphenanthrene-3-carbonitrile (16), and 4-amino-1-ethyl-2-metylphenanthrene-3-carbonitrile (21). The nitrile function has been removed from the aminonitriles, with the exception of 21, through hydrolysis and decarboxylation in alkaline ethanolic solutions under elevated pressure (∼3 MPa) and temperature 220-230°C to give the respective 4-amino-methylphenanthrenes. Diazotisation of the phenanthreneamines and the reaction with hypophosphorus acid has lead to the methylphenanthrenes in moderate yields (50-52%).     

The comparative molecular surface analysis (COMSA)--a nongrid 3D QSAR method by a coupled neural network and PLS system: predicting pK(a) values of benzoic and alkanoic acids

A self-organizing neural network was used to design a novel method capable of the quantitative prediction of molecular properties. The method is based on the comparison of molecular surfaces performed by the coupled neural network and PLS system. Unlike CoMFA and related methods it does not compare the properties describing a discrete set of points but the average property values calculated for a certain area of the molecular surface. It has been found that the results of the PLS analysis of the series of the comparative matrices of the molecular electrostatic potential (MEP) are quite stable. Also the results only slightly depend on such parameters as the number of points sampled at the molecular surface (D) or a winning distance (MD) of the self-organizing neurons. The influence of these parameters for modeling the effects limited by steric and electronic effects was determined and the pK(a) values of the ortho-, meta-, and para- (o-, m-, p-) analogues of benzoic acid and selected alkanoic acids were predicted. We generally found that for the series analyzed CoMSA gave better models than CoMFA.