取代基对木质素三聚体模型化合物醚键均裂反应影响的密度泛函理论研究

利用密度泛函理论M062X/6-31++G(d,p)方法,对27种具有不同取代基(甲基、羟甲基和甲氧基)的木质素三聚体模型化合物的Cα-O和Cβ-O键均裂解离能进行了理论计算,探究了不同位置取代基对醚键解离能的影响规律。结果表明,当R2或R3位氢原子仅有一个被甲氧基取代时,Cβ-O键解离能变化很小;当R2、R3位氢原子均被甲氧基取代时,Cβ-O键解离能明显降低;且R4、R5位甲氧基能强化R2、R3位甲氧基对Cβ-O键解离能的降低程度,而不受R1位取代基的影响。当R4、R5位氢原子相继被甲氧基取代时,Cα-O键解离能逐渐降低,且R2、R3位甲氧基也能强化R4、R5位甲氧基对Cα-O键解离能的降低程度。当R1位氢原子相继被甲基、羟甲基取代时,Cα-O键解离能逐渐升高,然而R2、R3位甲氧基会弱化R1位甲基、羟甲基对Cα-O键解离能的升高程度;R1位甲基不会影响Cβ-O键解离能,羟甲基却能明显提高Cβ-O键解离能。     

Contact conditions for the charge in the theory of the electrical double layer

In this paper, from the Born-Green-Yvon equations of the liquid-state theory, we derive a general expression for the charge-density contact value at charged interfaces. This relation is discussed, in particular, for symmetrical electrolytes. We emphasize an essential coupling between the electric properties and the density profile. Limiting behavior at small and large charges at the interface is discussed.     

On the Effect of the Aglycon Structure of Three Aryl β-D-Galactosides on the Yield and the Regioselectivity of the Transglycolytic Synthesis of N-Acetyllactosamine

ABSTRACT

We examined the effect as donors of three aryl β-D-galactosides (i.e. p-nitrophenyl β-D-galactopyranoside, o-nitrophenyl β-D-galactopyranoside and phenyl β-D-galacto-pyranoside) on the regioselectivity and the yield of the synthesis of N-acetyllactosamine obtained from the transglycosylation reaction catalyzed by a crude preparation of β-D-galactosidase from Bacillus circulans at 25 °C, 37 °C and 55 °C, respectively. Using p-nitrophenyl β-D-galactopyranoside the reaction results were fully regiospecific at all the temperatures considered: the maximum molar yield (74%) was obtained at an incubation temperature of 55 °C. Using o-nitrophenyl β-D-galactopyranoside as the donor the reaction was still highly regioselective and the maximum molar yield (50%) was achieved at an incubation temperature also of 55 °C. Using phenyl β-D-galactopyranoside transglycolytic products appear only at an incubation temperature of 55 °C but at very low molar yield (about 14%) and lower regioselectivity.     

Evidence for the isomerization and decarboxylation in the photoconversion of the red fluorescent protein DsRed

Recently, it has been shown that the red fluorescent protein DsRed undergoes photoconversion on intense irradiation, but the mechanism of the conversion has not yet been elucidated. Upon irradiation with a nanosecond-pulsed laser at 532 nm, the chromophore of DsRed absorbing at 559 nm and emitting at 583 nm (R form) converts into a super red (SR) form absorbing at 574 nm and emitting at 595 nm. This conversion leads to a significant change in the fluorescence quantum yield from 0.7 to 0.01. Here we demonstrate that the photoconversion is the result of structural changes of the chromophore and one amino acid. Absorption, fluorescence, and vibrational spectroscopy as well as mass spectrometry suggest that a cis-to-trans isomerization of the chromophore and decarboxylation of a glutamate (E215) take place upon irradiation to form SR. At the same time, another photoproduct (B) with an absorption maximum at 386 nm appears upon irradiation. This species is assigned as a protonated form of the DsRed chromophore. It might be a mixture of several protonated DsRed forms as there is at least two ways of formation. Furthermore, the photoconversion of DsRed is proven to occur through a consecutive two-photon absorption process. Our results demonstrate the importance of the chromophore conformation in the ground state on the brightness of the protein as well as the importance of the photon flux to control/avoid the photoconversion process.     

On the manifestation of hydrophobicity at the nanoscale

The manifestation of hydrophobicity at the nanoscale has been shown to depend on the topology of the solute. Using various nanoscopic hydrophobic plates, molecular dynamics simulation has been employed to explore the hydration and dewetting at the nanoscale. The topology of the solute regulates the behavior of nanoconfined water, resulting in any of the wet, dry, and intermittent wet-dry intersolute states. The present result reconciles apparently contrasting literature reports on how water behaves at extended hydrophobic surfaces and sheds light on the mechanism of dewetting.     

Ozonization at the vacancy defect site of the single-walled carbon nanotube

The ozonization at the vacancy defect site of the single-walled carbon nanotube has been studied by static quantum mechanics and atom-centered density matrix propagation based ab initio molecular dynamics within a two-layered ONIOM approach. Among five different reaction pathways at the vacancy defect, the reaction involving the unsaturated active carbon atom is the most probable pathway, where ozone undergoes fast dissociation at the active carbon atom at 300 K. Complementary to the experiments, our work provides a microscopic understanding of the ozonization at the vacancy defect site of the single-walled carbon nanotube.     

Measurement of the kinetic rate constants for the adsorption of superspreading trisiloxanes to an air/aqueous interface and the relevance of these measurements to the mechanism of superspreading

Super-spreading trisiloxane surfactants are a class of amphiphiles which consist of nonpolar trisiloxane headgroups ((CH3)3-Si-O)2-Si(CH3)(CH2)3-) and polar parts composed of between four and eight ethylene oxides (ethoxylates, -OCH2CH2-). Millimeter-sized aqueous drops of trisiloxane solutions at concentrations well above the critical aggregate concentration spread rapidly on very hydrophobic surfaces, completely wetting out at equilibrium. The wetting out can be understood as a consequence of the ability of the trisiloxanes at the advancing perimeter of the drop to adsorb at the air/aqueous and aqueous/hydrophobic solid interfaces and to reduce considerably the tensions of these interfaces, creating a positive spreading coefficient. The rapid spreading can be due to maintaining a positive spreading coefficient at the perimeter as the drop spreads. However, the air/aqueous and solid/aqueous interfaces at the perimeter are depleted of surfactant by interfacial expansion as the drop spreads. The spreading coefficient can remain positive if the rate of surfactant adsorption onto the solid and fluid surfaces from the spreading aqueous film at the perimeter exceeds the diluting effect due to the area expansion. This task is made more difficult by the fact that the reservoir of surfactant in the film is continually depleted by adsorption to the expanding interfaces. If the adsorption cannot keep pace with the area expansion at the perimeter, and the surface concentrations become reduced at the contact line, a negative spreading coefficient which retards the drop movement can develop. In this case, however, a Marangoni mechanism can account for the rapid spreading if the surface concentrations at the drop apex are assumed to remain high compared to the perimeter so that the drop is pulled out by the higher tension at the perimeter than at the apex. To maintain a high apex concentration, surfactant adsorption must exceed the rate of interfacial dilation at the apex due to the outward flow. This is conceivable because, unlike that at the contact line, the surfactant reservoir in the liquid at the drop center is not continually depleted by adsorption onto an expanding solid surface. In an effort to understand the rapid spreading, we measure the kinetic rate constants for adsorption of unaggregated trisiloxane surfactant from the sublayer to the air/aqueous surface. The kinetic rate of adsorption, computed assuming the bulk concentration of monomer to be uniform and undepleted, represents the fastest that surfactant monomer can adsorb onto the air/aqueous surface in the absence of direct adsorption of aggregates. The kinetic constants are obtained by measuring the dynamic tension relaxation as trisiloxanes adsorb onto a clean pendant bubble interface. We find that the rate of kinetic adsorption is only of the same order as the area expansion rates observed in superspreading, and therefore the unaggregated flux cannot maintain very high surface concentrations at the air/aqueous interface, either at the apex or at the perimeter. Hence in order to maintain either a positive spreading coefficient or a Marangoni gradient, the surfactant adsorptive flux needs to be augmented, and the direct adsorption of aggregates (which in the case of the trisiloxanes are bilayers and vesicles) is suggested as one possibility.     

Effect of the air-water interface on the structure of lysozyme in the presence of guanidinium chloride

We report observations of the changes in the surface structure of lysozyme adsorbed at the air-water interface produced by the chemical denaturant guanidinium chloride. A primary result is the durability of the adsorbed surface layer to denaturation, as compared to the molecule in the bulk solution. Data on the surface film were obtained from X-ray and neutron reflectivity measurements and modeled simultaneously. The behavior of lysozyme in G.HCl solutions was determined by small-angle X-ray scattering. For the air-water interface, determination of the adsorbed protein layer dimensions shows that at low to moderate denaturant concentrations (up to 2 mol L(-1)), there is no significant distortion of the protein's tertiary structure at the interface, as changes in the orientation of the protein are sufficient to model data. At higher denaturant concentrations, time-dependent multilayer formation occurred, indicating molecular aggregation at the surface. Methodologies to predict the protein orientation at the interface, based on amino acid residues' surface affinities and charge, were critiqued and validated against our experimental data.     

Alpha-helical peptides are not protonated at the N-terminus in the gas phase

DFT/AM1 ONIOM calculations using B3LY/D95** indicate that protonations of alpha-helical alaN (N = 14, 17) occur preferentially at the COOH and C=O groups near the COOH terminus of the peptides. Protonations at the N-termini lead to local helical unraveling. The preference for protonation at or near the COOH terminus increases with N. Hydration should relatively favor the N-protonated structures, but at the expense of further unraveling. Since alpha-helices in proteins often form "bundles" that are not well-hydrated, the C=O groups at the ends of these helices might be readily protonated.     

Studying the Link between the Potential of a Metal-Oxide Anode, the Current Efficiency for Chlorate, and the Current Losses for the Oxygen and Chlorine Evolution in a Wide Range of the Chlorate Electrolysis Conditions

Dependences of the current efficiency for chlorate and current losses for the oxygen evolution on the anode potential are studied. The study is performed in a cell without directed electrolyte circulation during the electrolysis of chloride–chlorate solutions of various compositions at the ORTA and ORTA-I1 anodes, at different current densities, temperatures, and solution pH. At identical temperatures, the dependences have extremums. The anode potentials corresponding to extremums coincide with critical potentials (found in a polarization study) for anodes covered with coatings containing ruthenium dioxide. The current efficiency for chlorate at ORTA-I1 is higher than that at ORTA, while the extremum region is less pronounced. The problem of how to substantially decrease the specific power consumption in the chlorate production by simultaneously increasing the anodic current density and the electrolysis temperature is considered.     

Quantum mechanical calculations on selectivity in the KcsA channel: the role of the aqueous cavity

We have carried out quantum calculations on selected residues at the intracellular side of the selectivity filter of the KcsA potassium channel, using the published X-ray coordinates as starting points. The calculations involved primarily the side chains of residues lining the aqueous cavity on the intracellular side of the selectivity filter, in addition to water molecules, plus a K+ or Na+ ion. The results showed unambiguously that Na+ significantly distorts the symmetry of the channel at the entrance to the selectivity filter (at the residue T75), while K+ does so to a much smaller extent. In all, three ion positions have been calculated: the S4 (lowest) position at the bottom of the selectivity filter, the top of the cavity, and the midpoint of the cavity; Na+ is trapped at the cavity top, while K+ is cosolvated by the selectivity filter carbonyl groups plus threonine hydroxyl groups so that it can traverse the filter. Only one water molecule remains in the K+ solvation shell at the upper position in the cavity; this solvation shell also contains four threonine (T75) hydroxyl oxygens and two backbone carbonyls, while Na+ is solvated by five molecules of water and one oxygen from threonine hydroxyls. T75 at the entrance to the selectivity filter has a key role in recognition of the alkali ion, and T74 has secondary importance. The energetic basis for the preferential bonding of potassium by these residues is briefly discussed, based on additional calculations. Taken together, the results suggest that Na+ would have difficulty entering the cavity, and if it did, it would not be able to enter the selectivity filter.     

Changes in the structure of water deduced from the pressure dependence of the Raman OH frequency

We report on the Raman spectra of water under high temperature and pressure conditions and show a discontinuity in the pressure dependence of the OH stretching frequency. As pressure increases, the strength of hydrogen bonding increases rapidly in the pressure ranges up to 0.4+/-0.1 GPa at 25 degrees C, 1.0+/-0.1 GPa at 100 degrees C, and 1.3+/-0.1 GPa at 300 degrees C and slowly above these pressures. This finding clearly demonstrates the existence of discontinuities in the pressure response of the hydrogen bonds of water, which suggests a possible structural change under these conditions.     

Processes on aluminium on the negative side of the open-circuit potential

Cathodic current—time transients were recorded on high-purity aluminium immersed into a neutral 2 M NaCl solution, when subjected to a potential pulse from a potential around the open-circuit potential, to different negative values. Hydration of the oxide layer occurs at potentials more negative than −1700 mV vs. SCE, whereupon hydrogen is evolved at the metal—hydrated oxide interface. A linear Tafel function is obtained for the maximum current attained in that potential region with a slope of 110 mV dec⁻¹ indicating that the Volmer reaction is the rate-determining step, and the exchange current density for hydrogen evolution at aluminium is estimated at 5 × 10⁻¹¹ A cm⁻². Anodic current responses to the return of the potential to the rest values were also recorded at three different time scales. The presence of some substances, formed at the more negative potentials, other than gaseous hydrogen, was detected and their dependence on potential and cathodic pulse duration is discussed.     

Study of the rate of methyl loss and the structure of the product ion as a function of the lifetime of the molecular ion of pent-3-en-2-ol

The normalized unimolecular rate constant for loss of a methyl radical from pent-3-en-2-ol molecular ions with lifetimes ranging from 10^?11 to 10^?9 s was studied by field ionization kinetics (FIK). The normalized rate curve shows maxima at molecular ion lifetimes of 10^?10.5 and 10^?10.1 s. Based on results for deuterium and ¹³C-labelled pent-3-en-2-ol, the maximum at 10^?10.5 s is ascribed to loss of the methyl group at the 1-position by a direct cleavage reaction. The maximum at 10^?10.1 s is attributed to a 1,2-H shift-initiated rearrangement of the molecular ion, which leads to loss of the methyl group at the 5- and 1-positions. The time dependence of the processes in the form of the maxima on the normalized rate curve is discussed qualitatively in terms of a lower critical energy and a tighter transition state of the 1,2-H shift than those of the direct cleavage reaction. Collision-induced dissociation of the [C₄H₇O]⁺ product ions in combination with FIK provides evidence that at molecular ion lifetimes corresponding to the first maximum on the rate curve protonated crotonaldehyde is formed, whereas protonated methyl vinyl ketone and the butyryl cation are formed at times corresponding to the second maximum.     

Probing the effect of temperature on the backbone dynamics of the human alpha-lactalbumin molten globule

Molten globules are compact, partially folded proteins postulated to be general intermediates in protein folding. Human alpha-lactalbumin (alpha-LA) is a two-domain Ca(2+)-binding protein that partially unfolds at low pH to form a molten globule. NMR spectra of molten globules are characterized by broadened resonances due to conformational fluctuations on microsecond to millisecond time scales. These species are often studied at high temperature where NMR resonances are observed to sharpen. The effect of higher temperatures on fast time-scale backbone dynamics of molten globules has not been investigated previously. Here, 1D (15)N direct-detection and 2D indirect-detection (1)H-(15)N heteronuclear NOE experiments have been used to probe fast time-scale dynamics at low and high temperatures for three disulfide-bond variants of human alpha-LA that form molten globules. Disulfide bonds are found to have a significant effect on backbone dynamics within the beta-domain of the molten globule; within the alpha-domain, dynamics are not significantly influenced by these bonds. At 20 degrees C, backbone mobility is significantly decreased in both domains of the molten globule compared to the mobility at 40-50 degrees C. Heteronuclear NOE values determined at 20 degrees C for the alpha-domain are closely similar to those observed for native alpha-LA, indicating that the alpha-LA molten globule has even more native-like character than suggested by studies conducted at higher temperature. Our results highlight the importance of considering the temperature dependence of the molten globule ensemble when making comparisons between experimental data obtained under different conditions.     

A Study on the Adsorption Isotherms in the Vicinity of the Critical Temperature

Adsorption data of nitrogen and methane on micro-porous activated carbon and on meso-porous silica gel were measured near the critical temperature. It was found that the values of the compressibility factor (z) exerted a significant effect on the behavior of isotherms. Selection of reliable z-values is very important for the analysis of experimental results obtained near the critical temperature. The isotherms on activated carbon always show type-I features at sub- and supercritical temperatures, but those on silica gel remarkably show a change from type-II at sub-critical temperatures to type-I at supercritical temperatures. The critical temperature appears to be shifted up in some case.     

On the variation of the structure of liquid deuterium fluoride with temperature

The structure of liquid deuterium fluoride has been measured using pulsed neutron diffraction and high energy x-ray diffraction techniques as a function of temperature. The neutron experiments were performed at T=296+/-2 K, 246+/-2 K, and 193+/-2 K and the x-ray measurements carried out at 296+/-2 K and 195+/-2 K. The x-ray pair correlation functions, which are dominated by fluorine-fluorine interactions, show the first peak at approximately 2.53+/-0.05 A remains very nearly invariant with decreasing temperature. Peaks around 4.5 and 5.0 A also appear at both temperatures in the x-ray data. In contrast, the intermolecular peaks in the total neutron pair correlation function show that significant systematic local structural changes occur as the temperature is lowered. The first intermolecular peak position shortens from 1.64+/-0.05 A at 296 K to 1.56+/-0.05 A at 195 K. Although there are overlapping contributions from the intermolecular hydrogen-fluorine and hydrogen-hydrogen correlations, it is clear that the temperature dependent structural changes are largely due to a rearrangement of the deuterium atom positions in the fluid. By comparison with partial structure factor data the hydrogen bonds appear to become more linear at lower temperatures.     

On the conformational memory in the photodissociation of formic acid

The photodissociation of formic acid at 248 and 193 nm was investigated by classical trajectory and RRKM calculations using an interpolated potential energy surface, iteratively constructed using the B3LYP/aug-cc-pVDZ level of calculation. Several sampling schemes in the ground electronic state were employed to explore the possibility of conformational memory in formic acid. The CO/CO2 branching ratios obtained from trajectories initiated at the cis and at the trans conformers are almost identical to each other and in very good accordance with the RRKM results. In addition, when a specific initial excitation that simulates more rigorously the internal conversion process is used, the calculated branching ratio does not vary with respect to those obtained from cis and trans initializations. This result is at odds with the idea of conformational memory in the ground state proposed recently for the interpretation of the experimental results. It was also found that the calculated CO vibrational distributions after dissociation of the parent molecule at 248 nm are in agreement with the experimental available data.     

Determination of the absolute configuration of the asymmetric center at C11 in the eudesmanolides

It has been shown that it is possible to use the method of circular dichroism to determine the absolute configuration of the asymmetric center at C₁₁ in the eudesmanolides. The orientations of the hydroxy group at C₁ and of the methyl group at C₄ in arabsin have been established.Institute of the Chemistry of Plant Substances, Academy of Sciences of the Uzbek SSR, Tashkent. Translated from Khimiya Prirodnykh Soedinenii, No. 3, pp. 343–346, May–June, 1980.     

The influence of pressure on the structure of aqueous solutions of NaCl over the pressure range 0.1–1000 MPa according to the integral equation method

The influence of pressure (0.1–1000 MPa) on the structure of aqueous solutions of NaCl (1.91–3.08 m) at constant temperatures of 298 and 623 K was studied by the integral equation method. The most substantial structural rearrangement was found to occur at pressures exceeding 150 MPa. Solution structure formation at 298 K was characterized by a substantial decrease in interparticle distances and a baric distortion of the tetrahedral network of water, which resulted in an increase in the hydration of ions and a decrease in the fraction of ion pairs. Structure changes under compression conditions at 623 K were similar to those observed at 298 K, but the network of water H-bonds was already destroyed in solutions at the higher temperature, and hydration-separated ion pairs did not form over the whole pressure range studied. Ions partially dehydrated at 623 K virtually fully restored the hydration spheres they had at 298 K as the pressure increased to 1000 MPa.