Major histocompatibility complex (MHC) protein analysis by optimised two-dimensional electrophoretic methods

Human histocompatibility molecules HLA-Class I and Class II (DR, DQ, DP) were analysed using three two-dimensional protocols: nonequilibrium pH gradient electrophoresis (NEPHGE), isoelectric focusing-acidic gradient (IEF-AG) and isoelectric focusing-basic gradient (IEF-BG). The three methods differ in their carrier ampholyte combinations and electrophoretic conditions. They provide different pH gradients and therefore different electrofocusing profiles. The NEPHGE protocol was adequate for separating proteins across a broad range of pI mobilities, i.e. 4.4 pH units between the acidic and the basic end. In contrast, the IEF-AG and the IEF-BG protocols gave a separation power across a narrow pH range, 1.9 and 1.7 pH units respectively. Thus, whereas the NEPHGE protocol provides a tool for a global major histocompatibility complex (MHC) antigen profile analysis, the IEF-AG and -BG allows one to investigate subcomponents of the individual MHC chains. For example, NEPHGE analysis of the HLA Class I heavy chain revealed a single spot. However, IEF-BG revealed the presence of six equidistantly spaced spots spanning a short pH gradient with identical molecular weight. Similar improved resolution was seen for the HLA-DR, DQ, and DP molecules. The IEF acidic gradient was adequate for separating the alpha chain; the IEF basic gradient gave better resolution of the beta chains. This data provides a baseline set of conditions for both analytical and preparative MHC protein studies prior to amino acid sequencing.     

Accurate intermolecular ground state potential of the Ne-N2 van der Waals complex

Ab initio ground state potential energy surfaces are obtained from interaction energies calculated with the coupled cluster singles and doubles model including connected triples corrections [CCSD(T)] and the aug-cc-pVXZ (X=5,Q,T,D) basis sets augmented with two different sets of midbond functions (denoted 33221 and 33211). The aug-cc-pV5Z-33221 surface is characterized by a T-shaped 49.5 cm(-1) minimum at Re=3.38 Angstroms and a linear saddle point at 3.95 Angstroms with De=36.6 cm(-1). These results agree well with the values provided by the accurate semiempirical potentials available. The rovibronic spectroscopic properties are determined and compared to the available experimental data and previous theoretical results. We study the basis set convergence of the intermolecular potentials and the rotational frequencies. The aug-cc-pVTZ basis sets provide reasonable binding parameters, but seem not to be converged enough for the evaluation of the microwave spectra. The aug-cc-pVQZ basis sets considerably improve the triple zeta results. The differences between the results obtained with the aug-cc-pVTZ-33221 basis set surface and those with the aug-cc-pVQZ-33221 are smaller than those of the corresponding bases with the set of 33211 midbond functions. The aug-cc-pVQZ surfaces are close to the aug-cc-pV5Z, that are expected to be close to convergence. With our best surfaces the errors in the frequencies with respect to the accurate experimental results go down to 0.6%.     

Hydrolytic protein cleavage mediated by unusual mononuclear copper(II) complexes: X-ray structures and solution studies

The crystal structures and redox and UV-vis/EPR spectroscopic properties of two new mononuclear copper(II) complexes, [Cu(HL1)Cl2] (1) and [Cu(L1)Cl] (2), prepared through the reaction between copper(II) chloride and the ligand 2-[(bis(pyridylmethyl)amino)methyl]-4-methyl-6-formylphenol (HL1) under distinct base conditions, are reported along with solution studies. Also, we demonstrate that these CuII complexes are able to cleave unactivated peptide bonds from bovine serum albumin (BSA) and the thermostable enzyme Taq DNA polymerase at micromolar concentration, under mild pH and temperature conditions. The cleavage activity seems to be specific with defined proteolytic fragments appearing after protein treatment. The location of the specific cleavage sites was tentatively assigned to solvent-accessible portions of the protein. These are two of the most active Cu(II) complexes described to date, since their cleavage activity is detected in minutes and evidence is here presented for a hydrolytic mechanism mediating protein cleavage by these complexes.     

Nitrite catalyzes reductive nitrosylation of the water-soluble Ferri-Heme model FeIII(TPPS) to FeII(TPPS)(NO)

Quantitative investigation of the reaction of the ferri-heme model compound Fe(III)(TPPS)(H(2)O)(2) (1) to give Fe(II)(TPPS)(NO) (2) (TPPS = tetra(4-sulfonato-phenyl)porphinato) in buffered aqueous solution demonstrates a slow pH-independent reductive nitrosylation pathway in the pH range 4-6. The rate of this reaction is subject to modest general base catalysis. In the course of this study, a surprising catalytic pathway whereby nitrite ion (NO(2)(-)) strongly catalyzes the reduction of 1 to 2 under reductive nitrosylation conditions was demonstrated.     

Solid state coordination chemistry of copper(II)/α-hydroxycarboxylato/2,2′-bipyridine systems

Four new two-ligand complexes of copper(II) with 2,2′-bipyridine and one of three different α-hydroxycarboxylic acids (lactic, H₂LACO; 2-methyllactic, H₂MLACO; and mandelic, H₂MANO) were prepared. Complexes 1–3 of general formula [Cu(HL)₂(bipy)]·nH₂O (HL=monodeprotonated acid), were characterized by elemental analysis, IR, electronic and EPR spectroscopy, magnetic measurements and thermogravimetric analysis. Complexes 1 (HL=HLACO, n=2), 2 (HL=HMLACO, n=1) and 3a (the result of attempted recrystallization of 3, of formula [Cu(HMANO)(bipy)₂](HMANO)·H₂MANO·CH₃CN were studied by X-ray diffractometry. The copper atom is in an elongated, tetragonally distorted octahedral environment in 1 and 2 and in 3a has a coordination polyhedron intermediate between a square pyramid and a trigonal bipyramid, as evaluated in terms of the parameter τ. In 1 and 2 the α-hydroxycarboxylato ligand is bidentate and monoanionic but in 3a there are three forms: a monodentate monoanion, a monoanionic counterion, and a neutral molecule.     

Accurate intermolecular ground state potential of the Ne-HCl van der Waals complex

From an accurate ground state intermolecular potential energy surface we evaluate the rovibrational spectrum of the Ne-HCl van der Waals complex. The intermolecular potential is obtained by fitting a considerable number of interaction energies obtained at the coupled cluster singles and doubles including connected triple excitations level and with the augmented correlation consistent polarized valence quintuple zeta basis set extended with a set of 3s3p2d1f1g midbond functions. This basis set is selected after a systematic basis set study carried out at geometries close to those of the three main surface stationary points. The surface is characterized by two linear minima, i.e. Ne-ClH and Ne-HCl, with distances from the Ne atom to the HCl center of mass of 3.398 and 3.833 angstroms, respectively; and binding energies of -65.10 and -66.85 cm(-1), respectively. These results agree well with the experimental data available in contrast to previous theoretical results. The rovibrational spectra calculated for the different isotopic species are also compared to the experiments.     

Perchlorate interchange during the redox process of PPy/PVS films in an acetonitrile medium. a voltammetric and EDX study

Polypyrrole/poly(vinyl sulfonate) (PPy/PVS) films in acetonitrile containing 0.1 M LiClO4 were studied by cyclic voltammetry. Consecutive voltammograms pointed to a continuous increase in the charge involved in the process, suggesting a rise in the number of the electroactive participants involved in the redox process. However, voltammograms obtained for the PPy/ClO4 films in analogous conditions pointed to a steady-state behavior from the very early cycles. Theoretical studies based on the Nernst and Butler-Volmer equations indicated that perchlorate ions are involved during the oxidation/reduction process of the PPy/PVS films when the steady state is reached. This result was confirmed by "ex situ" energy-dispersive X-ray analysis of the films. In this regard, the electrochemical behavior of PPy/PVS polymers was similar to that of PPy/ClO4 films when a high number of cycles were carried out. The exchange of ClO4- during the redox reaction of the PPy/PVS films made it necessary to incorporate Li+ cations inside the polymer during the initial voltammetric cycles to compensate for the negative charges of PVS polyanions. Li+ cations are mainly stabilized inside the polymer by the ion pairs formed with the sulfonated groups of the PVS. An increase and shift of the voltammetric cycles indicated a restructuring of the polymeric chains with consecutive scans.     

Molecular mechanics (MM2) and conformational analysis of compounds with N?C?O units. Parametrization of the force field and anomeric effect

A molecular mechanics force field was developed for systems bearing the N? C? O unit on the basis of 6-31G* and 4-21G “ab initio” calculations with full optimization of the geometry and experimental heats of formation. The parameters used, which implicitly included the anomeric effect, provided good geometric and energetic results, both for the compounds on which the parametrization was based and for others on which the validity of the predictions was checked.     

99Ru Mössbauer spectra of quaternary ruthenium(V) oxides with the hexagonal barium titanate structure

⁹⁹Ru Mössbauer spectra have been recorded at 4.2 K for the quaternary oxides Ba₃Ru₂MO₉ (M = Mg, Ca, Sr; Co, Ni, Cu, Zn; and Cd), all of which crystallize with the hexagonal barium titanate structure. The Ca, Sr, and Cd compounds give sharp symmetrical singlets with chemical isomer shifts typical of ruthenium in the +5 oxidation state. The absence of magnetic hyperfine splitting is consistent with the published interpretation of magnetic susceptibility data in terms of binuclear intracluster spin pairing which leads to an S = 0 ground state. In contrast, magnetic hyperfine splitting is seen for the Mg, Zn, Co, Ni, and Cu compounds; this can be interpreted only in terms of long-range magnetic order and the absence of such an S = 0 ground state at 4.2 K. This differs from the published interpretation of the magnetic susceptibility data for Ba₃Ru₂MgO₉ in the low-temperature region. The magnetic flux densities at the ruthenium nuclei in the magnetically ordered compounds (32.5–51.6 T) are lower than those normally associated with ruthenium(V), and the spectra cannot be curve fitted satisfactorily with single hyperfine patterns having the natural linewidth. Possible reasons for these observations are discussed.