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At least 433 records · Page 24Linked to original sources
PubMed2001

A density functional study of the reactivity and stability of mixed copper complexes. Is hardness the reason?

Mixed-ligand Cu2+ ternary complexes, formed by an aromatic diimine and a second ligand with O donor atoms, show a higher than expected stability. To understand the factors affecting the stability of these systems, we performed a density functional study of [Cu(H2O)5]2+, [Cu(N-N)(H2O)3]2+, and [Cu(N-N)(O-O)H2O] (N-N is 1,10-phenanthroline, 5-nitro-1,10-phenanthroline, or 3,4,7,8-tetramethyl-1,10-phenanthroline; and O-O is oxalate). In the present study, full geometry optimization (B3LYP/3-21G**) has been performed without symmetry constraints and a comparison with some available experimental results has been made. Bond distances, equilibrium geometries, harmonic frequencies, and net atomic charges from Mulliken populations are presented. Since the principle of hard and soft acids and bases has been widely used to explain the stability of these complexes, we also calculated and analyzed the global hardness and the local softness. The results of the global hardness do not support the commonly held idea that harder acids will preferably bind to harder ligands, while softer acids will bind to softer ligands. Interestingly, local softness and electron affinity correlate well with the formation constants of these compounds and provide an explanation of the reactivity behavior. The present results may help to rationalize the stability and reactivity of these systems.

Journal Article↗
PubMed2002

Comparison of different methods: static and dynamic headspace and solid-phase microextraction for the measurement of interactions between milk proteins and flavor compounds with an application to emulsions.

Interactions between 10 aroma compounds from different chemical classes and 5 mixtures of milk proteins have been studied using static or dynamic headspace gas chromatography and solid-phase microextraction (SPME). Static headspace analysis allows the quantification of the release of only the most abundant compounds. Dynamic headspace analysis does not allow the discrimination of flavor release from the different protein mixtures, probably due to a displacement of headspace equilibrium. By SPME analysis and quantification by GC-MS (SIM mode) all of the volatiles were quantified. This method was optimized to better discriminate aroma release from the different milk protein mixtures and then from oil/water emulsions made with these proteins. The highest difference between the release in different proteins was observed for ethyl hexanoate, which has a great affinity for beta-lactoglobulin. Ethyl hexanoate is thus less released from models and emulsions containing this protein.

Caproates↗
PubMed1986

Arginyl-tRNA synthetase from Mycobacterium smegmatis SN2: purification and kinetic mechanism.

Arginyl-tRNA synthetase [L-Arg: tRNAArg ligase (AMP forming) EC 6.1.1.19] has been purified to homogeneity from Mycobacterium smegmatis SN2. The enzyme is a monomer of molecular weight 56,000. The kinetic patterns obtained by initial velocity and product inhibition studies are consistent with a rapid equilibrium random ter ter mechanism. Polyamines stimulated the formation of arginyl-tRNA, the stimulation being more significant at sub-optimal Mg2+ concentrations. Initial velocity studies performed in the presence of sub-optimal Mg2+ and spermine also indicated that the kinetic mechanism remained sequential random. Various attempts to reveal the formation of enzyme-bound arginyl-adenylate provided no evidence for its existence. The reverse reaction, i.e., the deacylation of arginyl-tRNA, required both AMP and PPi. This observation is consistent with the mechanism proposed.

Acylation↗
PubMed2004

Evolutionary dynamics of biological games.

Darwinian dynamics based on mutation and selection form the core of mathematical models for adaptation and coevolution of biological populations. The evolutionary outcome is often not a fitness-maximizing equilibrium but can include oscillations and chaos. For studying frequency-dependent selection, game-theoretic arguments are more appropriate than optimization algorithms. Replicator and adaptive dynamics describe short- and long-term evolution in phenotype space and have found applications ranging from animal behavior and ecology to speciation, macroevolution, and human language. Evolutionary game theory is an essential component of a mathematical and computational approach to biology.

Adaptation, Biological↗
PubMed1992

Role of facilitated diffusion of calcium by calbindin in intestinal calcium absorption.

Computer simulations of transcellular Ca2+ transport in enterocytes were carried out using the simulation program SPICE. The program incorporated a negative-feedback entry of Ca2+ at the brush-border membrane that was characterized by an inhibitor constant of 0.5 microM cytosolic Ca2+ concentration ([Ca2+]). The basolateral Ca(2+)-ATPase was simulated by a four-step mechanism that resulted in Michaelis-Menten kinetics with a Michaelis constant of 0.24 microM [Ca2+]. The cytosolic diffusion of Ca2+ was simulated by dividing the cytosol into 10 slabs of equal width. Ca2+ binding to calbindin-D9K was simulated in each slab, and diffusion of free Ca2+, free calbindin, and Ca(2+)-laden calbindin was simulated between each slab. The cytosolic [Ca2+] of the simulated cells was regulated within the physiological range. Calbindin-D9K reduced the cytosolic [Ca2+] gradient, increased Ca2+ entry into the cell by removing the negative-feedback inhibition of Ca2+ entry, increased cytosolic Ca2+ flow, and increased the efflux of Ca2+ across the basolateral membrane by increasing the free [Ca2+] immediately adjacent to the pump. The enhancement of transcellular Ca2+ transport was nearly linearly dependent on calbindin-D9K concentration. The values of the dissociation constant (Kd) for calbindin-D9K were previously obtained experimentally in the presence and absence of KCl. Calbindin with the Kd obtained in the presence of KCl enhanced the simulated Ca2+ transport more than with the Kd obtained in the absence of KCl. This result suggests that the physiological Kd of calbindin is optimal for the enhancement of transcellular Ca2+ transport. The simulated Ca2+ flow was less than that predicted from the "near-equilibrium" analytic solution of the reaction-diffusion problem.

Absorption↗
PubMed1988

[Characteristics of ceruloplasmin interaction with a specific receptor of human erythrocytes].

The equilibrium binding of ([125I]ceruloplasmin) ([125I]CP) to a specific receptor of human erythrocytes was investigated. It was shown that reaching the binding equilibrium is a slow process. A strong dependence of binding on Ca2+ concentration (from 0.1 to 1 mM) was revealed; the optimal values were achieved at millimolar concentrations of Ca2+.Mg2+ do not affect the binding of [125I]CP. Under conditions of optimal binding (0.01 M Tris-HCl buffer pH 7.4 containing 158 mM NaCl and 1 mM Ca2+, 4 degrees C), the values of constants for [125I]CP binding to intact erythrocytes (Kd = 1.0 nm) and to membrane fragments (Kd = 0.8 nM) as well as the number of binding sites (16.3 X 10(-15) mol per 40,000,000 erythrocytes) were determined. No ceruloplasmin transport across the erythrocyte membrane was observed. This finding and the similarity of Kd values for ceruloplasmin binding to membrane fragments and to intact erythrocytes indicate that the effect of ceruloplasmin on human erythrocytes is due to the protein molecule interaction with membrane receptors.

Biological Transport↗
PubMed1981

Influence of contractility on myocardial water distribution during cardiopulmonary bypass.

Water equilibrium within heart muscle during cardiopulmonary bypass is an important aspect of ventricular physiology which must be considered in efforts to optimize myocardial protection. This study focuses on the influence of the inotropic state of the ventricle in determining the amount of heart water and its regional distribution within the free wall of the left ventricle. Experiments involving cardiopulmonary bypass were performed in 57 dogs. Three spontaneous levels of myocardial contractility were identified under conditions of standard preload, afterload, and heart rate. Each increase in level (grade) was associated with a significantly higher myocardial wet weight/drug weight (W/D) ratio. In addition, higher levels of contractility were associated with a marked shift in water distribution within the left ventricular wall; water tended to accumulate in the inner half of the better contracting left ventricular wall, the reverse of the distribution seen at lower levels of contractility. These three grades of contractility and myocardial water content were not associated with any significant differences in total or regional myocardial blood flow, as determined by the use off radioactive microspheres. Maintenance of low levels of contractility during cardiopulmonary bypass may be desirable in order to prevent the occurrence of subendocardial edema.

Animals↗
PubMedDate not supplied

[Role of water in the thermal instability of DNA].

We studied structural changes of DNA heated for long times at temperatures between 20 to 100 degrees C at different relative humidities (range 0--100%). DNA structure was analyzed by the following criteria: solubility changes, optical melting, ultraviolet spectroscopy, potentiometry and equilibrium dialysis. It has been found that irreversible changes in DNA secondary structure take place at around 37 degrees C, temperature optimal for the function in many living systems. These irreversible changes may be interpreted as a consequence of formation of interchain contacts (non-covalent "cross-links"). We demonstrate that the whole range of relative humidities may be divided onto three regions. For each of these regions DNA has somewhat different molecular structure and peculiarities are observed in the stabilizing and destabilizing action of water on DNA three-dimensional structure. Irreversible changes of DNA secondary structure as a function of bound water are represented by a bell-shaped curve. Similarity between this curve and a curve for the survival microorganisms is discussed.

DNA↗
PubMed1998

Solution structure of a non-palindromic 16 base-pair DNA related to the HIV-1 kappa B site: evidence for BI-BII equilibrium inducing a global dynamic curvature of the duplex.

1H and 31P NMR spectroscopy have been used together with molecular modelling to determine the fine structure of a non-palindromic 16 bp DNA containing the NF-kappa B binding site. Much emphasis has been placed upon NMR optimization of both two-dimensional 31P NMR techniques to extract structural information defining the phosphodiester backbone conformation and selective homonuclear 2D COSY experiments to determine sugar conformations. NMR data show evidence for a dynamic behaviour of steps flanking the ten base-pairs of the NF-kappa B binding site. A BI-BII equilibrium at these steps is demonstrated and two models for each extreme conformation are proposed in agreement with NMR data. In the refined BII structures, the NF-kappa B binding site exhibits an intrinsic curvature towards the major groove that is magnified by the four flanking steps in the BII conformation. Furthermore, the base-pairs are translated into the major groove. Thus, we present a novel mode of dynamic intrinsic curvature compatible with the DNA curvature observed in the X-ray structure of the p50-DNA complex.

DNA, Viral↗
PubMed1995

Pharmacokinetic optimization of the treatment of oral candidiasis with fluconazole: studies with a suspension.

An open crossover study was performed in 12 healthy subjects to investigate the pharmacokinetics in saliva and plasma of a 100 mg oral dose of fluconazole, administered as either a capsule or as a suspension, the latter being used to rinse the mouth and retained for 2 min before being swallowed. In terms of fluconazole plasma concentrations the capsule and the suspension were essentially bioequivalent. While the saliva concentrations of fluconazole after capsule administration reached their peak at 3.0 +/- 0.8 micrograms/ml 4 h after dosage, administration of the suspension resulted in a mean peak concentration of 551.1 +/- 425.6 micrograms/ml 5 min after ingestion. The saliva concentrations decreased gradually after ingestion of the suspension, but were higher for 4 h than the corresponding levels from the capsule. The area under the curve (AUC) from 0 to 96 h of fluconazole in saliva was 227.7 +/- 73.8 h micrograms/ml after the suspension, compared to 123.5 +/- 25.5 h micrograms/ml after the capsule, indicating that the total drug exposure to the oral mucosa by the salivary route was enhanced more than 80% with use of the suspension. Four h after administration of the suspension, saliva and plasma concentrations of fluconazole were in equilibrium, at a saliva: plasma ratio of around 1.2. Taken together, the present results suggest that the treatment of oral candidiasis with fluconazole may be optimized by use of an oral suspension, as this delivers pharmacologically active levels of the drug to the site of infection by both topical and systemic routes.

Adult↗
PubMed2001

Metal-metal bond length variability in Co(3)(dipyridylamide)(4)Cl(2): bond-stretch isomerism, crystal field effects, or spin transition process? A DFT study.

The unprecedented structural behavior of Co(3)(dipyridylamide)(4)Cl(2), characterized in two crystalline forms in which the tricobalt framework is either symmetric or highly nonsymmetric at room temperature is investigated by means of gradient-corrected DFT calculations. The isolated molecule is assigned a single energy minimum associated with a low-spin (doublet) electronic configuration. The optimal geometry closely reproduces the X-ray structure observed for the isomer displaying equivalent metal-metal distances. However, the ground-state potential energy surface is extremely shallow with respect to a distortion of the Co(3) framework. A "weak" distortion, similar to that observed for the unsymmetrical complex at low temperature (Deltad(Co-Co) = 0.08 A at 110 K) induces a destabilization of 1.1 kcal.mol(-1) only. The distortion observed at room temperature (Deltad(Co-Co) = 0.17 A) destabilizes the isolated complex by 4.2 kcal.mol(-1). These results are rationalized in terms of the "three-electron three-center" concept applied to the sigma-bonding electrons of the cobalt framework. A phenomenological model based upon the Heisenberg Hamiltonian successfully reproduces the calculated potential energy curve and assigns the relative stability of the symmetric structure to local forces (Pauli repulsion, ligand bite, etc.) distinct from delocalized sigma bonding. In view of these results, the two structures characterized from X-rays cannot be termed "bond-stretch isomers" according to the strict definition given by Parkin. To investigate the origin of the distorted form, an electric field was applied to the isolated molecule, but it did not shift the equilibrium position toward asymmetry, despite a strong polarization of the electron density. Finally, the quartet state of lowest energy ((4)A state) has an optimal structure that is distorted and that reproduces most of the distinctive features observed in the nonsymmetric structure. Despite the high relative energy calculated for this quartet state, we assign the occurrence of the nonsymmetric form and its extreme variability with temperature to a progressive population of this excited state as temperature increases.

Journal Article↗
PubMed1996

Control analysis of unbranched enzymatic chains in states of maximal activity.

It is shown that optimized states of metabolic systems are characterized by special distributions of control coefficients. Maximization of the steady-state flux through unbranched chains leads, under the constraint of fixed total amount of enzymes within the pathway, to a proportionality between control coefficients and enzyme concentrations. A detailed analysis is presented for two types of systems involving (a) reactions with linear kinetics and (b) reactions with Michaelis kinetics, respectively. In the first case one obtains for reactions with equilibrium constants larger than unity a monotonic decrease of enzyme concentrations and of control coefficients from the upper end to the lower end of the chain. In the second case optimization is performed by optimizing the intrinsic parameters (elementary rate constants) as well as the amounts of the enzymes. In contrast to systems with linear kinetics the results for reactions with Michaelis-Menten kinetics are dependent on the concentrations of the external reactants.

Animals↗
PubMed2004

Enhanced apoptotic activity of a structurally optimized form of galectin-1.

Galectin-1 is a homodimeric protein with potent anti-inflammatory properties due to its ability to induce apoptosis in thymocytes and T cells. The galectin-1 subunits are not covalently linked but the monomers are in a dynamic equilibrium with the dimeric form. Since the affinity of the monomers for each other is rather low (in the range of 10(-5)M), the in vivo efficacy of galectin-1 is limited because the equilibrium is shifted towards the inactive monomeric form at lower concentrations. In order to overcome this problem, we designed a covalently linked form of the dimer based on the galectin-1 crystal structure. Here we show that this irreversibly dimeric form of galectin-1 is a potent inducer of apoptosis in murine thymocytes as well as murine mature T cells at concentrations 10-fold lower than wild-type galectin-1. This structurally optimized form of galectin-1 may therefore be a potentially powerful tool to treat chronic inflammatory diseases.

Amino Acid Sequence↗
PubMed2002

Arsenic adsorption onto pillared clays and iron oxides.

Arsenic adsorption was carried out on simple materials such as goethite and amorphous iron hydroxide, and more complex matrices such as clay pillared with titanium(IV), iron(III), and aluminum(III). These matrices were synthesized from a bentonite whose montmorillonitic fraction was pillared according to optimized parameters. These sorbents were characterized by various methods: XRD, FTIR, BET, DTA/TGA, surface acidity, and zetametry. Elimination of arsenite and arsenate as a function of pH was studied. Arsenate elimination was favored at acidic pH, whereas optimal arsenite elimination was obtained at 4<pH<9. For pH values above 10, the pillared clays were damaged and elimination decreased. Equilibrium time and adsorption isotherms were also determined for arsenite and arsenate at each matrix auto-equilibrium pH. Amorphous iron hydroxide had the highest adsorption capacities both towards arsenate and arsenite. Adsorption capacities of goethite and iron- and titanium-pillared clays toward arsenate were similar, but those toward arsenite were different. Desorption experiments from the various matrices were carried out. Iron- and titanium-pillared clays showed a desorption capacity above 95% and around 40% respectively, but no desorption rate could be obtained for iron (hydr)oxides as they were damaged during the process.

Adsorption↗
PubMed1997

Fourfold Clusters of Rovibrational Energies in H2Po Studied with an ab Initio Potential Energy Function

We report here an ab initio investigation of the cluster effect (i.e., the formation of four-member groups of nearly degenerate rotation-vibration energy levels at higher J and Ka values) in the H2Po molecule. The potential energy function has been calculated ab initio for a total of 143 molecular geometries by means of the CCSD(T) method, using an averaged relativistic effective potential for Po in conjunction with a newly optimized basis set. The values of the potential energy function obtained cover the region up to around 5000 cm-1 above the equilibrium energy. On the basis of the ab initio potential, the rotation-vibration energies of H2209Po have been calculated with the MORBID (Morse oscillator rigid bender internal dynamics) Hamiltonian and computer program. In particular, we have calculated the rotational energy manifolds for J </= 40 in the vibrational ground state. We find that the formation of fourfold clusters in H2Po is very similar to that in H2Te. Copyright 1997 Academic Press. Copyright 1997Academic Press

Journal Article↗
PubMed1988

A game-theoretic approach to donor kidney sharing.

Graft survival in renal transplantation is a function, amongst other things, of the degree of histocompatibility lymphocyte-A (HLA) tissue matching achieved between donor and recipient. Yet a donor procured at centre A might match a transplant candidate at centre B and vice versa. This raises the question of whether, and under what circumstances, surgeons will offer and exchange donor kidneys and gain from such trade in terms of graft survival. We analyse the problem in a game-theoretic framework where the choice of strategy 'to offer or not?' is evaluated in the context of the uncertainty of reciprocation by the other player(s) in the game. The equilibrium solution to a number of variations of the game is predicted to be non-cooperation resulting in collectively sub-optimal graft survival rates. Some policy options for improving cooperation are considered including exchange incentives and coercive measures.

Cooperative Behavior↗