Ion current calculations based on three dimensional Poisson-Nernst-Planck theory for a cyclic peptide nanotube

Ion current calculations based on Poisson-Nernst-Planck (PNP) theory are performed for a synthetic cyclic peptide nanotube that consists of eight or ten cyclo[(-L-Trp-D-Leu-)4] embedded in a lipid bilayer membrane to investigate the ion transport properties of the nanotube. To explore systems with arbitrary geometries, three-dimensional PNP theory is implemented using a finite difference method. The influence of dipolar lipid molecules on the ion currents is also examined by turning on or off the charges of the lipid dipoles in dipalmitoylphosphatidylcholine (DPPC). Comparisons between the calculated and experimentally measured ion currents show that the PNP approach agrees well with the measurements at low ion concentrations but overestimates the currents at higher concentrations. Concentration profiles reveal the selectivity of the peptide nanotube to cations, which is attributed to the negatively charged carbonyl oxygens inside the nanotube. The dominant cation and the minimum anion concentrations inside the cyclic peptide nanotube suggest that these cyclic peptide nanotubes can be employed as ion sensors. In the case of the polar DPPC bilayer, smaller currents are obtained in the calculation. The variation of current with polarity of the lipids implies that both polar and nonpolar lipid bilayer membranes can be utilized to regulate ion currents in the peptide nanotube and other ion channels. Strengths and limitations of the PNP theory are also discussed.     

Coalescence in foams and emulsions: Similarities and differences

Coalescence in emulsions and foams is far from being understood, despite many years of investigations. The phenomenon is not easy to be characterized because it is extremely rapid and coupled to several others, gravity effects, leading to vertical motion of drops/bubbles and ripening, leading to their growth. Coalescence implies the rupture of films between drops/bubbles and involves contributions from hydrodynamics, surface rheology, surface forces, and thermal fluctuations. Different coalescence scenarios were identified and are described. There are close similarities between emulsion and foam behavior, as remarked earlier by several researchers. Ivan Ivanov, to whom this article is dedicated, was one of them. He and his group pioneered parallel studies in both emulsions and foams, aiming to clarify coalescence mechanisms. As discussed in this review, such an approach proved very successful and deserves to be continued in the future.     

Boron-doped diamond electrodes for the mineralization of organic pollutants in the real wastewater

The presence of recalcitrant organic compounds in wastewater poses a serious threat to the ecosystem and human health. Electrochemical advanced oxidation processes constitute a promising way for the mineralization of persistent organic compounds. They are commonly used for the transformation of organic pollutants into more biodegradable compounds or their complete removal from water. In this review, we present the recent advances in the use of boron-doped diamond (BDD) electrodes in the anodic oxidation process for the mineralization of real wastewater. First, the characteristic properties of BDD electrodes are discussed followed by the degradation mechanism. In addition, an overview on the application of BDD electrodes for mineralization of real wastewater is provided.     

Isochoric and isobaric glass formation: Similarities and differences

Pressure-volume-temperature (PVT) studies were performed on a glass-forming polymer, poly(carbonate) (PC), under both isobaric and isochoric (constant volume) conditions. An isochoric glass transition was observed and the formation points were found to be consistent with those obtained isobarically. Although the isobaric and isochoric responses were, as expected, the same in the rubbery state, the glassy state values were found to be different and dependent upon the glass formation history. The isobaric data exhibited larger changes in going from the rubber to the glass, hence a “stronger” glass transition, than did the isochoric data. Inserting the experimental values for the thermal expansion coefficient α and isothermal compressibility β, into appropriate thermodynamic relations, measures of the strength of each transition are defined. Strength estimates based on literature values of α and β are compared to the experimental measures of the isochoric and isobaric transitions. In addition, both the isobaric and isochoric PVT results were analyzed in terms of the Fox and Flory free volume theory which assumes that the glass transition is an iso-free volume state. While the isobaric results were consistent with the Fox and Flory theory, the isochoric results were not consistent with the idea of an iso-free volume glass transition. © 1997 John Wiley & Sons, Inc. J Polym Sci B: Polym Phys 35 : 1561–1573, 1997     

Application of boron-doped diamond electrodes for electrochemical oxidation of real wastewaters

Recently, the synthesis of boron-doped diamond electrodes on different substrates and shapes have reached a promising development stage. Now, these electrodes can also be effectively used to destroy toxic or biorefractory organics in real effluents, such as municipal wastewaters effluents, hospital wastewaters, groundwater, petrochemical effluent, wastewaters from agri–food activities, and so on. The results of this mini-review show that BDD is effectively even for such real effluents, allowing the removal of pollutants under several different conditions. Nevertheless, further efforts are necessary to reach a wider market; in particular, the next stages must face the optimization of cell design and the integration of the electrochemical system with other water treatment and renewable energy sources.     

An improved renormalization group theory for real fluids

On the basis of White's theory, an improved renormalization group (RG) theory is developed for chain bonding fluids inside the critical region. Outside the critical region, the statistical associating fluid theory based on the first-order mean sphere approximation [Fluid Phase Equilibria 171, 27 (2000)] is adopted and all the microscopic parameters are taken directly from its earlier application of real fluids. Inside the critical region, the RG transformation for long-range density fluctuation is derived in the k space, which illustrates explicitly the contributions from the mean-field term, the local density fluctuation, and the nonlocal density fluctuation. The RG theory is applied to describe physical behavior of ten n alkanes (C1-C10) both near to and far from the critical point. With no additional parameters for chain bonding fluids, good results are obtained for critical specific heat and phase coexistence curves and the resulting critical exponents are in good agreement with the reported nonclassic values.     

Similarities and differences in the electron ionization-induced fragmentation of structurally related N-alkoxymethyl lactams and sultams

Unimolecular fragmentation patterns of the molecular ions of selected lactams and sultams bearing alkoxymethyl group at the nitrogen atom were studied. The main common fragmentation reaction observed for all compounds studied in this work is the elimination of an aldehyde molecule. This reaction is considered to proceed via two different mechanisms. For lactams, hydrogen rearrangement within an alkoxymethyl group is observed, which leads to the appropriate N-methyl derivatives. For sultams, transfer of the methyl group to the nitrogen and oxygen atoms, proceeding through an ion-neutral complex, dominates. Another important fragmentation channel characteristic exclusively for lactams is the loss of an alkyl radical. This process takes place within the N-alkoxymethyl moiety, yielding the appropriate protonated ion of N-formyllactams. This process is accompanied by relatively high kinetic energy release.     

Gamma radiolysis and solar photolysis of bilirubin: Similarities and differences

Biliverdin is a useful component in various aspects of biochemistry and biosynthesis, but its synthetic preparation is often long-winded. Micro-production (and subsequent isolation) by solar photolysis and gamma radiolysis of bilirubin provides rapid in vitro generation. Both methods are competitive, and this article discusses their merits and limitations for application in biosynthetic research. The investigation assumed a comparative study to evaluate the relative potential of the photolytic and radiolytic phenomena in this respect. The calculated rate of incident energy in the case of solar photolysis was roughly30.4^.10^-2 W, and about 5.70^.10^-4 W during gamma-irradiation (from a ¹³⁷Cs source). In both cases the bilirubin (40 μM) degradation was pronounced in the initial few minutes of exposure, producing respective depletion rates of approximately 6.8 μM/min and 2.4 μM/min. Overall, both applications showed declining bilirubin concentrations close to 90%, after about 30 minutes. However, the corresponding production of biliverdin was higher by about 50% in the photolytic application. To account for heat-up effects in the photolytic application, thermal effects were studied up to 65 °C, and it was found that, as a result of this, a reduction in bilirubin concentration of about 40% was encountered. The species of interest were monitored spectrophotometrically, and the composite results showed that regulated production of biliverdin is possible under certain conditions. This revised version was published online in July 2006 with corrections to the Cover Date.     

The model Lysozyme-PSSNa system for electrostatic complexation: Similarities and differences with complex coacervation

We review, based on structural information, the mechanisms involved when putting in contact two nano-objects of opposite electrical charge, in the case of one negatively charged polyion, and a compact charged one. The central case is mixtures of PSS, a strong flexible polyanion (the salt of a strong acid, and with high linear charge density), and Lysozyme, a globular protein with a global positive charge. A wide accurate and consistent set of information in different situations is available on the structure at local scales (5-1000?), due to the possibility of matching, the reproducibility of the system, its well-defined electrostatics features, and the well-defined structures obtained. We have related these structures to the observations at macroscopic scale of the phase behavior, and to the expected mechanisms of coacervation. On the one hand, PSS/Lysozyme mixtures show accurately many of what is expected in PEL/protein complexation, and phase separation, as reviewed by de Kruif: under certain conditions some well-defined complexes are formed before any phase separation, they are close to neutral; even in excess of one species, complexes are only modestly charged (surface charges in PEL excess). Neutral cores are attracting each other, to form larger objects responsible for large turbidity. They should lead the system to phase separation; this is observed in the more dilute samples, while in more concentrated ones the lack of separation in turbid samples is explained by locking effects between fractal aggregates. On the other hand, although some of the features just listed are the same required for coacervation, this phase transition is not really obtained. The phase separation has all the macroscopic aspects of a fluid (undifferentiated liquid/gas phase) - solid transition, not of a fluid-fluid (liquid-liquid) one, which would correspond to real coacervation). The origin of this can be found in the interaction potential between primary complexes formed (globules), which agrees qualitatively with a potential shape of the type repulsive long range attractive very short range. Finally we have considered two other systems with accurate structural information, to see whether other situations can be found. For Pectin, the same situation as PSS can be found, as well as other states, without solid precipitation, but possibly with incomplete coacervation, corresponding to differences in the globular structure. It is understandable that these systems show smoother interaction potential between the complexes (globules) likely to produce liquid-liquid transition. Finally, we briefly recall new results on Hyaluronan/Lysozyme, which present clear signs of coacervation in two liquid phases, and at the same time the existence of non-globular complexes, of specific geometry (thin rods) before any phase separation. These mixtures fulfill many of the requirements for complex coacervation, while other theories should also be checked like the one of Shklovskii et al.     

Ion flux through membrane channels--an enhanced algorithm for the Poisson-Nernst-Planck model

A novel algorithmic scheme for numerical solution of the 3D Poisson-Nernst-Planck model is proposed. The algorithmic improvements are universal and independent of the detailed physical model. They include three major steps: an adjustable gradient-based step value, an adjustable relaxation coefficient, and an optimized segmentation of the modeled space. The enhanced algorithm significantly accelerates the speed of computation and reduces the computational demands. The theoretical model was tested on a regular artificial channel and validated on a real protein channel-alpha-hemolysin, proving its efficiency.     

Effects of various boundary conditions on the response of Poisson-Nernst-Planck impedance spectroscopy analysis models and comparison with a continuous-time random-walk model

Various electrode reaction rate boundary conditions suitable for mean-field Poisson-Nernst-Planck (PNP) mobile charge frequency response continuum models are defined and incorporated in the resulting Chang-Jaffe (CJ) CJPNP model, the ohmic OHPNP one, and a simplified GPNP one in order to generalize from full to partial blocking of mobile charges at the two plane parallel electrodes. Model responses using exact synthetic PNP data involving only mobile negative charges are discussed and compared for a wide range of CJ dimensionless reaction rate values. The CJPNP and OHPNP ones are shown to be fully equivalent, except possibly for the analysis of nanomaterial structures. The dielectric strengths associated with the CJPNP diffuse double layers at the electrodes were found to decrease toward 0 as the reaction rate increased, consistent with fewer blocked charges and more reacting ones. Parameter estimates from GPNP fits of CJPNP data were shown to lead to accurate calculated values of the CJ reaction rate and of some other CJPNP parameters. Best fits of CaCu(3)Ti(4)O(12) (CCTO) single-crystal data, an electronic conductor, at 80 and 140 K, required the anomalous diffusion model, CJPNPA, and led to medium-size rate estimates of about 0.12 and 0.03, respectively, as well as good estimates of the values of other important CJPNPA parameters such as the independently verified concentration of neutral dissociable centers. These continuum-fit results were found to be only somewhat comparable to those obtained from a composite continuous-time random-walk hopping/trapping semiuniversal UN model.     

Shear and extensional rheology of entangled polymer melts: Similarities and differences

This work extends our previous understanding concerning the nonlinear responses of entangled polymer solutions and melts to large external deformation in both simple shear and uniaxial extension. Many similarities have recently been identified for both step strain and startup continuous deformation, including elastic yielding, i.e., chain disentanglement after cessation of shear or extension, and emergence of a yield point during startup deformation that involves a deformation rate in excess of the dominant molecular relaxation rate. At a sufficiently high constant Hencky rate, uniaxial extension of an entangled melt is known to produce window-glass-like rupture. The present study provides evidence against the speculation that chain entanglements tie up into dead knots in constant-rate extension because of the exponentially growing chain stretching with time. In particular, it is shown that even Instron-style tensile stretching, i.e., extending a specimen by applying a constant velocity on both ends, results in rupture. Yet, in the same rate range, the same entangled melt only yields in simple shear, and the resulting shear banding is clearly not a characteristic of rupture. Thus, we conclude that chain entanglements respond to simple shear in the manner of yielding whereas uniaxial extension is rather effective in causing some entanglements to lock up, making it impossible for the entanglement network to yield at high rates.     

Statistical models in the polarization radiation theory

The survey is devoted to general results for polarization free–free and free–bound radiative transitions in collisions of charged particles with heavy atoms and ions following from statistical atomic models. The atomic plasma model results for dynamic atomic polarizabilities are presented. Polarization Bremsstrahlung in collisions of fast and moderate energy electrons with Thomas–Fermi atoms is analyzed in details. A new polarization electron-heavy ions recombination channel is considered and compared with known radiative recombination channel. It is shown that recombination channels can be compared or even dominates over standards static radiation channels. Polarization radiation of fast multicharged ions in condensed media is also under consideration.     

Similarities and differences between the "relativistic" triad gold, platinum, and mercury in catalysis

Relativistic effects in the valence shell of the elements reach a maximum in the triad Pt-Au-Hg and determine their catalytic activity in organic reactions. In this Review we examine the catalytic activity of Pt, Au, and Hg compounds for some representative reactions, and discuss the respective benefits and disadvantages along with other relevant properties, such as toxicity, price, and availability. For the reactions considered, gold catalysts are generally more active than mercury or platinum catalysts.     

Validation of doubling exponent models for the impedance of well-aligned MWCNT array electrodes

The capacitive and faradaic responses of well-aligned MWCNT array electrodes were determined by cyclic voltammetry and impedance spectroscopy. The impedance responses of the array electrodes were modeled by transition line models.     

One parameter friction theory models for viscosity

In this work the friction theory (f-theory) for viscosity modeling is used in conjunction with the SRK, PR and PRSV cubic equations of state in order to develop three one parameter general models for viscosity prediction. The models are considered one parameter models because they only require a characteristic critical velocity, which is a parameter normally not tabulated. The models use these rather simple cubic equations of state as a basis to obtain accurate modeling of the viscosity of fluids for wide ranges of temperature and pressure. The general models presented in this work are based on the viscosity behavior of n-alkanes from methane to n-octadecane. Although best performance is obtained for the considered n-alkanes, a good model performance is also obtained for other systems. Thus, recommended characteristic critical viscosity values for several systems are also reported in this work. However, in the case of n-alkanes, an empirical equation for the characteristic critical viscosity is provided so that no additional parameters are required. In addition, with the use of simple mixing rules, the viscosity of several binary to quaternary n-alkane mixtures can also be predicted with a satisfactory accuracy.     

Nonstationary mathematical models of the electrochemical processes in volumetric porous flow electrodes

Model representations of the nonstationary processes caused by the nonstationary electrolysis regimes on three-dimensional flow electrodes (TFEs) were developed. A change in the electrode and electrolyte parameters with time was taken into account. As an illustration of the efficiency of a model of two-dimensional electrochemical system, co-electrodeposition of two metals with hydrogen evolution on TFE was considered for the case of mutually perpendicular directions of current and electrolyte flow.     

Charge reversal in real colloids: Experiments, theory and simulations

In the last years, the inclusion of ionic short-range correlations in the study of colloidal stability has led to significant disagreements with the predictions obtained from classical treatments. An example of these discrepancies is the occurrence of charge reversal of charged particles. In order to shed light on this issue, the charge reversal of latex particles in the presence of asymmetric electrolytes has been investigated through Monte Carlo (MC) simulations. In particular, experimental results concerning electrophoretic mobility reversals and the Hyper-Netted-Chain/Mean-Spherical-Approximation (HNC/MSA) predictions have been compared with simulations in which two alternative methods for evaluating energies have been applied. A realistic hydrated ion size is used in the HNC/MSA calculations and simulations. In this way, the existence of a reversal in the electrophoretic mobility due to ion size correlations and without requiring specific counterion adsorption is probed. Moreover, the simulations appears as a useful tool for explaining those results in which the HNC/MSA does not reproduce the experimental trends.     

Resonance theory for discrete models: methodology and isolated resonances

We here consider open quantum systems defined on discretized space, motivated by experimental and theoretical interest in the electronic conduction through nanoscale devices such as molecular junctions and quantum dots. We particularly focus on effects of resonances on the conductance through the systems. We develop a method of calculating the conductance with the use of Green's function expansion with respect to the eigenstates of the effective Hamiltonian for the open quantum systems. Unlike previous methodologies where one can treat only narrow resonances far from the band edges in a satisfactory manner with a Lorentzian profile, our method provides a novel resonance profile which can be used to describe any isolated resonance in the spectrum even close to the band edges.