Synthesis of enantiomerically pure (purin-6-yl)phenylalanines and their nucleosides, a novel type of purine-amino acid conjugates

[Chemical reaction: See text] Enantiomerically or diastereomerically pure 4-(purin-6-yl)phenylalanines, a novel type of stable amino acid-purine conjugates, were synthesized by palladium-catalyzed cross-coupling reactions of protected 4-boronophenylalanines or 4-(trimethylstanyl)phenylalanines with diverse 6-halopurines (9-benzyl-6-halopurines and 9-(tetrahydropyran-2-yl)-6-halopurines as well as acyl- and silyl-protected 6-halopurine ribonucleosides and 2-deoxyribonucleosides). Free purine bases and nucleosides bearing (S)- or (R)-phenylalanine in position 6 were obtained after complete deprotection of the products of cross-coupling reactions. Reactivity trends for both of these cross-coupling and deprotection protocols have been compared in terms of practicability, efficiency, and stereoselectivity.     

Advanced statistical evaluation of the complex formation constants from electrophoretic data II: Diastereomeric ion-pairs of (R,S)-N-(3,5-dinitrobenzoyl)leucine and tert-butylcarbamoylquinine

Intermolecular association and ion-pair formation, respectively, between a cationic chiral selector, viz. o-9-(tert-butylcarbamoyl) quinine (CQN), and the both enantiomers of anionic N-(3,5-dinitrobenzoyl)leucine, (R)-DNB-Leu and (S)-DNB-Leu, were investigated by affinity capillary electrophoresis (ACE). Thus, binding constants of the both diastereomeric ion-pairs, (R) and (S)-DNB-Leu/CQN associates, were determined by different experimental setups and correction of nonlinear effects. A reciprocal setup was employed for the high-affinity (S)-enantiomer, and the experimental mobility data obtained for CQN at variable (S)-DNB-Leu concentrations in the background electrolyte were linearized and evaluated by advanced statistical model. A binding constant of K_S=125.1 l mol⁻¹ was afforded. The constant for the (R)-enantiomer, which is outside the range suitable for direct affinity CE, was obtained from indirect affinity CE utilizing the separation of the DNB-Leu racemate at a single appropriate CQN concentration in the BGE (resolution method) taking advantage of the known constant for the (S)-enantiomer yielding a binding constant of K_R=2.51 l mol⁻¹. Thereby, the so-called “constant time method” was adopted for the required precise measurement of the effective mobilities of the both enantiomers. A combined approach of reciprocal affinity CE with racemic DNB-Leu as additive and the resolution method confirmed the results. The resulting constants evidence excellent enantioselectivity of the tert-butylcarbamoyl derivative of the cinchona alkaloid quinine as chiral selector for N-(3,5-dinitrobenzoyl) derivatives of amino acids.     

Biocompatible hydrogels based on chitosan,cellulose/starch,PVA and PEDOT:PSS with high flexibility and high mechanical strength

Fabricating mechanically strong hydrogels that can withstand the conditions in internal tissues is a challenging task. We have designed hydrogels based on multicomponent systems by combining chitosan, starch/cellulose, PVA, and PEDOT:PSS via one-pot synthesis. The starch-based hydrogels were homogeneous, while the cellulose-based hydrogels showed the presence of cellulose micro- and nanofibers. The cellulose-based hydrogels demonstrated a swelling ratio between 121 and 156%, while the starch-based hydrogels showed higher values, from 234 to 280%. Tensile tests indicated that the presence of starch in the hydrogels provided high flexibility (strain at break?>?300%), while combination with cellulose led to the formation of stiffer hydrogels (elastic moduli 3.9–6.6 MPa). The ultimate tensile strength for both types of hydrogels was similar (2.8–3.9 MPa). The adhesion and growth of human osteoblast-like SAOS-2 cells was higher on hydrogels with cellulose than on hydrogels with starch, and was higher on hydrogels with PEDOT:PSS than on hydrogels without this polymer. The metabolic activity of cells cultivated for 3 days in the hydrogel infusions indicated that no acutely toxic compounds were released. This is promising for further possible applications of these hydrogels in tissue engineering or in wound dressings.

Graphical abstract

     

Application of a contactless conductometric detector for the simultaneous determination of small anions and cations by capillary electrophoresis with dual-opposite end injection

A contactless conductometric detection (CCD) system for capillary electrophoresis (CE) with a flexible detection cell was applied for the simultaneous determination of small anions and/or cations in rain, surface and drainage water samples. The applied frequency, the amplitude of the input signal, the electrolyte conductivity and electrode distance were found to be the most significant factors affecting the detection sensitivity. 2-(N-Morpholino)ethanesulfonic acid/histidine-based (MES/His) electrolytes were used for direct conductivity detection of anions and cations, while ammonium acetate was selected for indirect conductivity determination of alkylammonium salts. For the simultaneous separation procedure, involving dual-opposite end injection, an electrolyte consisting of 20 mM MES/His, 1.5 mM 18-crown-6 and 20 microM cetyltrimethylammonium bromide provided baseline separation of 13 anions and cations in less than 6 min. The detection limits achieved were 7-30 micrograms/l for direct conductometric detection of various common inorganic cations and anions, excluding F- (62 micrograms/l) and H2PO4- (250 micrograms/l), and 35-178 micrograms/l for indirect conductometric detection of alkyl ammonium cations. The developed electrophoretic method with conductometric detection was compared to ion chromatography.     

Artificial neural network modification of simulation-based fitting: application to a protein-lipid system

Simulation-based fitting has been applied to data analysis and parameter determination of complex experimental systems in many areas of chemistry and biophysics. However, this method is limited because of the time costs of the calculations. In this paper it is proposed to approximate and substitute a simulation model by an artificial neural network during the fitting procedure. Such a substitution significantly speeds up the parameter determination. This approach is tested on a model of fluorescence resonance energy transfer (FRET) within a system of site-directed fluorescence labeled M13 major coat protein mutants incorporated into a lipid bilayer. It is demonstrated that in our case the application of a trained artificial neural network for the substitution of the simulation model results in a significant gain in computing time by a factor of 5 x 10(4). Moreover, an artificial neural network produces a smooth approximation of the noisy results of a stochastic simulation.     

Determination of radiation yields of ionogenic products of two-phase water-tributylphosphate and water-di-(2-ethylhexyl)-phosphoric acid systems by capillary isotachophoresis

It was found that the main ionogenic radiolytical degradation products of tributylphosphate were monobutylphosphate dibutylphosphate, phosphoric acid, formic, acetic, propionic and butyric acids as the result of gamma-irradiation of two-phase water-tributylphosphate system. In the case of irradiation of two-phase water-di(2-ethylhexyl)-phosphoric acid system, the main radiolytic degradation products are 2-ethylhexylphosphoric acid and phosphoric acid. All products were determined using isotachophoresis. According two-phase theory the total and partial radiation yields of products were calculated from the results.Dedicated to 65th birthday of prof. L. T. Bugaenko     

Capillary electrophoretic studies of acid-base properties of sanguinarine and chelerythrine alkaloids

Capillary zone electrophoresis with UV detection was used for determination of dissociation constants of alkaloids sanguinarine and chelerythrine. Despite the limited solubility of the uncharged forms of the alkaloids resulting in insufficient analytical signal at higher pH the reliable dissociation constants were obtained when acidified samples containing low amount of the alkaloid were injected into the capillary. The precipitation of the alkaloid in the capillary induced by injecting sample of low pH into the background electrolyte of higher pH does not affect the mobility of the alkaloid if its concentration injected exceeds the solubility only to a small extent. Dissociation constants (pK(R+)) of sanguinarine and chelerythrine calculated to 8.3 +/- 0.1 and 9.2 +/- 0.1, respectively, are relevant to Good buffers of ionic strength of 30 mM.     

A multireference coupled-cluster potential energy surface of diazomethane, CH(2)N(2)

The intrinsically multireference dissociation of the C-N bond in ground-state diazomethane (CH(2)N(2)) at different angles has been studied with the multireference Brillouin-Wigner coupled-cluster singles and doubles (MRBWCCSD) method. The morphology of the calculated potential energy surface (PES) in C(s)() symmetry is similar to a multireference perturbational (CASPT3) PES. The MRBWCCSD/cc-pVTZ H(2)C-N(2) dissociation energy with respect to the asymptotic CH(2)(?(1)A(1)) + N(2)(X(1)Sigma(g)(+)) products is D(e) = 35.9 kcal/mol, or a zero-point corrected D(0) = 21.4 kcal/mol with respect to the ground-state CH(2)(X(3)B(1)) + N(2)(X(1)Sigma(g)(+)) fragments.     

On geometries of stacked and H-bonded nucleic acid base pairs determined at various DFT, MP2, and CCSD(T) levels up to the CCSD(T)/complete basis set limit level

The geometries and interaction energies of stacked and hydrogen-bonded uracil dimers and a stacked adeninecdots, three dots, centeredthymine pair were studied by means of high-level quantum chemical calculations. Specifically, standard as well as counterpoise-corrected optimizations were performed at second-order Moller-Plesset (MP2) and coupled cluster level of theory with single, double, and perturbative triple excitations [CCSD(T)] levels with various basis sets up to the complete basis set limit. The results can be summarized as follows: (i) standard geometry optimization with small basis set (e.g., 6-31G(*)) provides fairly reasonable intermolecular separation; (ii) geometry optimization with extended basis sets at the MP2 level underestimates the intermolecular distances compared to the reference CCSD(T) results, whereas the MP2/cc-pVTZ counterpoise-corrected optimization agrees well with the reference geometries and, therefore, is recommended as a next step for improving MP2/cc-pVTZ geometries; (iii) the stabilization energy of stacked nucleic acids base pairs depends considerably on the method used for geometry optimization, so the use of reliable geometries, such as counterpoise-corrected MP2/cc-pVTZ ones, is recommended; (iv) the density functional theory methods fail completely in locating the energy minima for stacked structures and when the geometries from MP2 calculations are used, the resulting stabilization energies are strongly underestimated; (v) the self-consistent charges-density functional tight binding method, with inclusion of the empirical dispersion energy, accurately reproduces interaction energies and geometries of dispersion-bonded (stacked) complexes; this method can thus be recommended for prescanning the potential energy surfaces of van der Waals complexes.     

Theoretical investigation of CO interaction with copper sites in zeolites: periodic DFT and hybrid quantum mechanical/interatomic potential function study

Periodic DFT and combined quantum mechanics/interatomic potential function (QM-pot) models were used to describe the interaction of CO with the Cu+ sites in FER. The CO stretching frequencies were calculated using omega(CO)(CCSD(T))/r(CO)(DFT) scaling method relating frequencies determined using a high-level quantum-chemical (coupled clusters) method for simple model carbonyls to CO bond lengths calculated using periodic DFT and QM-pot methods for the Cu+-zeolite system. Both periodic DFT and QM-pot models together with omega(CO)/r(CO) scaling describe the CO stretching dynamics with the "near spectroscopic accuracy", giving nu(CO) = 2156 cm(-1) in excellent agreement with experimental data. Calculations for various Cu+ sites in FER show that both types of Cu+ sites in FER (channel-wall sites and intersection sites) have the same CO stretching frequencies. Thus, the CO stretching frequencies are not site-specific in the CO/Cu+/FER system. The convergence of the results with respect to the model size was analyzed. When the same exchange-correlation functional is used the adsorption energies from periodic DFT and QM-pot are in good agreement (about 2 kcal/mol difference) but substantially larger than those of the experiment. The adsorption energy calculated with the B3LYP functional agrees with available experimental data. The overestimation of the adsorption energy in DFT calculations (periodic or QM-pot) is related to a red-shift of the CO stretching mode, both result from an underestimation of the HOMO(5sigma)-LUMO(2pi) gap of CO and the consequent overestimation of the Cu(+)(d)-CO(2pi*) back-donation. For the adsorption energy, this can be overcome by the use of hybrid B3LYP exchange-correlation functional. For the frequency calculations, the DFT problem can be overcome by the use of the omega(CO)(CCSD(T))/r(CO)(DFT) correlation.