H-ras protein in a bilayer: interaction and structure perturbation

Ras GTPases become functionally active when anchored to membranes by inserting their lipid modified side chains. Their role in cell division, development, and cancer has made them targets of extensive research efforts, yet the mechanism of membrane insertion and the structure of the resulting complex remain elusive. Recently, the structure of the full-length H-ras protein in a DMPC bilayer has been computationally characterized. Here, the atomic interactions between the H-ras membrane anchor and the DMPC bilayer are investigated in detail. We find that the palmitoylated cysteines and Met182 have dual contributions to membrane affinity: hydrogen bonding by their amides and van der Waals interaction by their hydrophobic side chains. The polar side chains help maintain the orientation of the anchor. Although the overall structure of the bilayer is similar to that of a pure DMPC, there are localized perturbations. These perturbations depend on the insertion depth and backbone localization of the anchor, which in turn is modulated by the catalytic domain and the linker. The pattern of anchor amide-DMPC phosphate/carbonyl hydrogen bonds and the flexibility of Palm184 are important in discriminating between different modes of ras-DMPC interactions. The results provide structural arguments in support of the proposed participation of ras in the organization of membrane nanoclusters.     

Calculation of partition coefficient and hydrophobic moment of the secondary structure of lysozyme

A method that permits a semiquantitative estimate of the partitioning of any solute between any two media is presented. As an example, the partition coefficients and hydrophobic moment of the secondary structure of lysozyme are calculated. Program GSCAP is written as a version of Pascal's solvent-dependent conformational analysis (SCAP) program. The dipole moments calculated for the helices are trebled with respect to that for the sheet. For helices, the main contribution to the water-accessible surface area is the hydrophobic term, while the hydrophilic part dominates in the sheet. Molecular globularity and the three studied partition coefficients differentiate between helices and sheet.     

Influence of thionin on the structure of a bilayer and on the intermembrane exchange of lipid material

It has been shown that in lipid dispersions thionin causes the formation of heterogeneous structures with the production of lipid-enriched clusters melting at elevated temperatures. This effect of thionin depends on the type of acidic lipid. It has also been established that thionin causes the aggregation and intermembrane exchange of lipid material between two populations of liposomes possessing individual thermodynamic characteristics.A. S. Sadykov Institute of Bioorganic Chemistry, Academy of Sciences of the Republic of Uzbekistan, Tashkent, Fax 627071. Brigham Young University, Provo, Utah, USA. Translated from Khimiya Prirodnykh Soedinenii, No. 1, pp. 78–82, January–February, 1994.     

Flexibility of Na,K-ATPase secondary structure upon drug-protein interaction

The enzyme Na⁺, K⁺-ATPase is an integral membrane protein which transports sodium and potassium cations against an electrochemical gradient. The transport of Na⁺ and K⁺ ions is connected to an oscillation of the enzyme between the two conformational states, the E₁ (Na⁺) and the E₂ (K⁺) conformations. The enzymatic activity of ATPase is largley affected by different ligands complexation. This review reports the effects of several drugs such as AZT (anti-AIDS), cis-Pt (antitumor), aspirin (anti-inflammatory) and vitamin C (antioxidant) on the stability and secondary structure of Na,K-ATPase in vitro. Drug-enzyme binding is mainly through H-bonding to the polypeptide C=O and C-N groups with two binding constants K_1(AZT) = 5.30 × 10⁵ M^?1 and K_2(AZT) = 9.80 × 10³ M^?1 for AZT and one binding constant for K_cis-Pt = 1.93 × 10⁴ M^?1, K_aspirin = 6.45 × 10³ M^?1 and K_ascorbate = 1.04 × 10⁴ M^?1 for cis-Pt, aspirin and ascorbic acid. The enzyme secondary structure was altered from that of α-helix 19.8% (free protein) to almost 22–26% and the β-sheet from 25.6% to 18–22%, upon drug complexation with the order of induced stability AZT > cis-Pt > ascorbate > aspirin.     

Differential flexibility of the secondary structures of lysozyme and the structure and ordering of surrounding water molecules

We have performed an atomistic molecular dynamics simulation of an aqueous solution of hen egg-white lysozyme at room temperature with explicit water molecules. Several analyses have been carried out to explore the differential flexibility of the secondary structural segments of the protein and the structure and ordering of water around them. It is found that the overall flexibility of the protein molecule is primarily controlled by few large-amplitude bistable motions exhibited by two coils; one connecting two α-helical segments in domain-1 and the other connecting a 3(10) helix and a β-sheet in domain-2 of the protein. The heterogeneous structuring of water around the segments of the protein has been found to depend on the degree of exposure of the segments to water. The ordering of water molecules around the protein segments and their tagged potential energies have been found to be anticorrelated with each other. Some of these findings can be verified by suitable experimental studies.     

Interlayer interaction and relative vibrations of bilayer graphene

The van der Waals corrected first-principles approach (DFT-D) is for the first time applied for investigation of interlayer interaction and relative motion of graphene layers. A methodological study of the influence of parameters of calculations with the dispersion corrected and original PBE functionals on characteristics of the potential relief of the interlayer interaction energy is performed. Based on the DFT-D calculations, a new classical potential for interaction between graphene layers is developed. Molecular dynamics simulations of relative translational vibrations of graphene layers demonstrate that the choice of the classical potential considerably affects dynamic characteristics of graphene-based systems. The calculated low values of the Q-factor for these vibrations Q≈ 10-100 show that graphene should be perfect for the use in fast-responding nanorelays and nanoelectromechanical memory cells.     

Spectroscopic studies on the interaction between CdTe nanoparticles and lysozyme

Nanoparticles of cadmium telluride (CdTe) coated with thioglycolic acid (TGA) were prepared in the water phase. The interaction between CdTe nanoparticles (NPs) and lysozyme (Lyz) was investigated by fluorescence and circular dichroism (CD) spectroscopy at pH 7.40. It was proved that the fluorescence quenching of Lyz by CdTe NPs was mainly a result of the formation of CdTe-Lyz complex. By the fluorescence quenching results, the Stern-Volmer quenching constant (K(SV)), binding constant (Ka) and binding sites (n) were calculated. The binding distance (r) between Lyz (the donor) and CdTe NPs (the acceptor) was obtained according to fluorescence resonance energy transfer (FRET). Gradual addition of CdTe NPs to the solution of Lyz led to a marked increase in fluorescence polarization (P) of Lyz, which indicated that CdTe NPs were located in a restricted environment of Lyz. The effect of CdTe NPs on the conformation of Lyz has been analyzed by means of synchronous fluorescence spectra and CD spectra, which provided the evidence that the secondary structure of Lyz has been changed by the interaction of CdTe NPs with Lyz.     

Physicochemical characterization of a PEGylated liposomal drug formulation using capillary electrophoresis

In this work, the applicability of using CE to perform a physicochemical characterization of a PEGylated liposomal drug formulation of the anti-cancer agent oxaliplatin was examined. Characterization of the liposomal drug formulation using CE instrumentation encompassed: determination of the electrophoretic mobilities, size determination by Taylor dispersion analysis and interaction studies. Electrophoretic mobilities determined by CE were compared with the results obtained by laser Doppler electrophoresis, which were found to be subject to larger variation. Average hydrodynamic diameters of the liposome preparations, as determined by Taylor dispersion analysis, were in the range of 61-84 nm and were compared with the results obtained by dynamic light scattering. Interactions between oxaliplatin (and paracetamol) and the PEGylated liposome were non-detectable by CE frontal analysis as well as by liposome electrokinetic chromatography. In contrast, for the more lipophilic compound propranolol, apparent liposome-aqueous phase distribution coefficients (D(lip) ) were successfully determined by both electrokinetic chromatography (log?D(lip) =2.10) and by CE frontal analysis (log?D(lip) =2.14). It is envisioned that CE and capillary-based techniques, including Taylor dispersion analysis, will be useful tools for the characterization of nanoparticulate (e.g. liposomal) drug formulations.     

A liposomal dispersion formulation of propofol: formulation, pharmacokinetics, stability, and identification of an oxidative degradant

Propofol is a common and highly effective anesthetic. Commercially available formulations of propofol, which is only sparingly soluble in aqueous systems, utilize emulsion technology. A liposome based dispersion formulation of propofol has been produced which exhibits good long term colloidal and chemical stability and pharmacokinetcs indistinguishable from the emulsion systems. Inclusion of 0.01% ascorbic acid in the final formulation arrests the growth of an oxidative degradant of propofol both during production and on stability. This degradant is identified as being the dimer 4,4′-dihydroxy-3,3′, 5,5′-tetraisopropylbiphenyl by mass spectroscopy and comparison of the infrared spectrum of the purified degradant to predicted spectra generated using density functional theory.     

亚精胺对溶菌酶构象及催化性能的影响

聚乙烯亚胺是典型的聚阳离子基因载体材料,但是具有一定的细胞毒性,以小分子多胺为基础制备易降解的高分子材料是降低聚乙烯亚胺类基因载体材料的细胞毒性和提高基因转染效率的重要方法。为深入了解聚乙烯亚胺类基因载体材料与生物大分子的相互作用,本文综合应用吸收光谱、共振瑞利散射、圆二色谱和荧光光谱研究典型小分子多胺化合物亚精胺与溶菌酶的相互作用及其对酶的构象、催化活性和催化动力学的影响和机理。亚精胺是两亲性分子,其氨基基团易于质子化而具有较强的静电结合和氢键形成能力,亚甲基基团则具有一定的疏水性。亚精胺较小的分子尺寸和两亲性使其可以穿透进入溶菌酶的疏水核心,与溶菌酶肽链的非特异性结合导致溶菌酶二级结构由α-螺旋向β-折叠和β-转角转变,并导致溶菌酶表面疏水性略微增强。亚精胺与溶菌酶的结合降低了溶菌酶对底物溶壁微球菌的亲和力和最大反应速率,低浓度的亚精胺对溶菌酶的活性具有显著的抑制作用。     

硫醇－磷脂混合双层膜的电化学性质及其与蜂毒素的相互 作用研究

报道了硫醇－磷脂混合双层膜的循环伏安和电化学交流阻抗行为研究,并用电化学方法考察了蜂毒素与其相互作用,实验中通过冷冻表面沾有磷脂溶液的硫醇单层膜制备混合双层膜,研究表明双层膜在电极表面形成致密的绝缘层,阻碍了电极表面的电子传递,在双层膜体系上引入的蜂毒素可在膜表面上形成孔洞,破坏膜的绝缘性,降低膜电阻,增加膜电容,使带负电的探针Fe(CN)6^3-的氧化还原反应速度加快。     

Study on the interaction of puerarin with lysozyme by spectroscopic methods

The interaction between lysozyme (LYSO) and puerarin has been studied at three temperatures (294, 302 and 310K) through/using fluorescence spectroscopy and circular dichroism (CD). The LYSO fluorescence was quenched by the binding of puerarin to LYSO. The binding constants and the number of binding sites can be calculated from the data obtained from fluorescence quenching experiments. According to the van't Hoff equation, the standard enthalpy change (DeltaH degrees ) and standard entropy change (DeltaS degrees ) for the reaction were calculated to be 17.47kJ/mol and 163.5J/molK. It indicated that the hydrophobic interactions play a main role in the binding of puerarin to LYSO. In addition, the distance between puerarin (acceptor) and tryptophan residues of LYSO (donor) was estimated to be 1.47nm on the basis of fluorescence energy transfer. The changes of LYSO secondary structure in the presence of puerarin were observed from CD spectroscopy.     

Investigation of the interaction between chlorophenols and lysozyme in solution

The binding interactions of lysozyme with 2-chlorophenol, 2,4-dichlorophenol, 2,4,6-trichlorophenol and pentachlorophenol were investigated by UV-vis absorption, CD, fluorescence, synchronous fluorescence, and three-dimensional fluorescence spectra techniques under physiological pH 7.40. The binding constants, quenching mechanism, and the number of binding sites were determined by the quenching of lysozyme fluorescence in presence of chlorophenols. H-bonds and hydrophobic interactions played major roles in stabilizing the chlorophenols-lysozyme complex. The distances r between chlorophenols and lysozyme were calculated to be 1.94nm, 2.75nm, 3.54nm, and 3.76nm for 2-CP, 2,4-DCP, 2,4,6-TCP, and PCP, respectively. The effects of chlorophenols on the conformation of lysozyme were analyzed using CD, synchronous fluorescence and three-dimensional fluorescence spectra.     

Topical use of liposomal copper palmitate formulation blocks porphyrin-induced photosensitivity in rats

Photodynamic therapy (PDT) is a new treatment modality that uses porphyrin derivatives and visible light, especially for the treatment of cancer. However, PDT with certain photosensitisers can cause prolonged skin photosensitization. This is particularly true for Photofrin II (Photofrin)-mediated PDT where patients are required to avoid direct exposure to sunlight for a period of 4-6 weeks. This is the only long-term adverse reaction to the drug. Recent studies have shown that topical copper treatment avoids this type of inflammatory reaction. In this study, we have tested the efficiency of the liposomal formulation of copper palmitate on porphyrin-photosensitized rats. Initially, adult male Sprague-Dawley rats were rendered photosensitive either by administration of Photofrin or aminolevulinic acid (ALA), a precursor of protoporphyrin IX (PpIX). Prior to this, their dorsal skin was shaved and treated topically with a cream consisting of either empty or copper palmitate-encapsulated liposomal formulation. After being kept in a dimmed light environment, the rats were exposed to visible light, and inflammatory responses were inspected. Histological studies revealed that no inflammatory cells were present at the skin sites treated with liposomal cream containing copper palmitate in the Photofrin-sensitized group while no reduction in the number of inflammatory cells was observed at the skin samples treated with the empty liposomes. In conclusion, the data demonstrate the significant protective effect of topically-applied liposome-encapsulated copper palmitate against both Photofrin and ALA-induced PpIX photosensitivity.     

Influence of nanotopography on phospholipid bilayer formation on silicon dioxide

We have investigated the effect of well-defined nanoscale topography on the 1-palmitoyl-2-oleoyl-sn-glycero-3-phosphocholine (POPC) lipid vesicle adsorption and supported phospholipid bilayer (SPB) formation on SiO2 surfaces using a quartz crystal microbalance with dissipation monitoring (QCM-D) and atomic force microscopy (AFM). Unilamellar lipid vesicles with two different sizes, 30 and 100 nm, were adsorbed on pitted surfaces with two different pit diameters, 110 and 190 nm, as produced by colloidal lithography, and the behavior was compared to results obtained on flat surfaces. In all cases, complete bilayer formation was observed after a critical coverage of adsorbed vesicles had been reached. However, the kinetics of the vesicle-to-bilayer transformation, including the critical coverage, was significantly altered by surface topography for both vesicle sizes. Surface topography hampered the overall bilayer formation kinetics for the smaller vesicles, but promoted SPB formation for the larger vesicles. Depending on vesicle size, we propose two modifications of the precursor-mediated vesicle-to-bilayer transformation mechanism used to describe supported lipid bilayer formation on the corresponding flat surface. Our results may have important implications for various lipid-membrane-based applications using rough or topographically structured surfaces.     

Modulation of lysozyme charge influences interaction with phospholipid vesicles

Lysozyme is a globular protein which is known to bind to negatively charged phospholipid vesicles. In order to study the relationship between charge state of the protein and its interaction with negatively charged phospholipid membranes chemical modifications of the proteins were carried out. Succinylation and carbodiimide modification was used to shift the isoelectric point of lysozyme to lower and higher pH values, respectively. The binding of the modified lysozyme to phospholipid vesicles prepared from phosphatidic acid (PA) was determined using microelectrophoresis and ultracentrifugation. At acidic pH of the solution all lysozyme species reduced the surface charges of PA vesicles. Succinylated lysozyme (succ lysozyme) reduced the electrophoretic mobility (EPM) to nearly zero, whereas native lysozyme and carboxylated lysozyme (carbo lysozyme) changed the surface charge to positive values. At neutral pH, the reduction of surface charges was less for carbo lysozyme and unmodified lysozyme. Succ lysozyme did not change the EPM. Unmodified and carbo lysozyme decreased the magnitude of EPM, but the whole complex was still negatively charged. The bound fraction of all modified lysozyme to PA vesicles at high lysozyme/PA ratios was nearly constant at acidic pH. At low lysozyme/PA ratios the extent of bound lysozyme is changed in the order carbo>unmodified>succ lysozyme. Increasing the pH, the extent of bound lysozyme to PA large unilamellar vesicles (LUV) is reduced, at pH 9.0 only 35% of carbo lysozyme, 23% of unmodified lysozyme is bound, whereas succ lysozyme does not bind at pH 7.4 and 9.0. At low pH, addition of all lysozyme species resulted in a massive aggregation of PA liposomes, at neutral pH aggregation occurs at much higher lysozyme/PA ratios. Lysozyme binding to PA vesicles is accompanied by the penetration of lysozyme into the phospholipid membrane as measured by monolayer techniques. The penetration of lysozyme into the monolayer was modulated by pH and ionic strengths. The interaction of lysozyme with negatively charged vesicles leads to a decrease of the phospholipid vesicle surface hydration as measured by the shift of the maximum of the fluorescence signal of a headgroup labeled phospholipid. The binding of bis-ANS as an additional indicator for the change of surface hydrophobicity is increased at low pH after addition of lysozyme to the vesicles. More hydrophobic patches of the lysozyme-PA complex are exposed at low pH. At low pH the binding process of lysozyme to PA vesicles is followed by an extensive intermixing of phospholipids between the aggregated vesicles, accompanied by a massive leakage of the vesicle aqueous content. The extent of lysozyme interaction with PA LUV at neutral and acidic pH is in the order carbo lysozyme>lysozyme>succ lysozyme.     

Encapsulation of essential oils within a polymeric liposomal formulation for enhancement of antimicrobial efficacy

Essential oils and their constituents are known to possess antimicrobial activity; however, their inherent volatility is a limiting factor. In order to exploit the antimicrobial efficacy of essential oils, encapsulation within polymeric liposomal systems was undertaken. The liposomes were subsequently polymer-coated in order to further enhance the stability of the formulations. Essential oils distilled from Artemisia afra, Eucalyptus globulus and Melaleuca alternifolia were encapsulated into diastearoyl phosphatidylcholine and diastearoyl phosphatidylethanolamine liposomes employing a reverse phase evaporation methodology. A polyelectrolyte coating was then applied via the layer-by-layer self-deposition technique. A batch of the liposomes was polymer-coated with a 0.15%w/v chitosan solution. Using the minimum inhibitory concentration assay, the liposome-encapsulated, unencapsulated and polymer-coated liposome-encapsulated essential oils were compared in order to observe whether the antimicrobial efficacy was improved with encapsulation and polymer coating. Fractional inhibitory concentrations (FICs) were calculated in order to determine the antimicrobial interactions amongst the lipoid components, polymer coating and essential oils (synergistic, additive, indifferent and antagonistic interactions). With the exception of A. afra, microbial growth was inhibited at lower concentrations for the encapsulated formulations in comparison with the nonencapsulated oils. Synergistic to additive interactions were noted for encapsulated E. globulus (sigmaFIC values 0.25-0.45) and M alternifolia (sigmaFIC values 0.26-0.52) formulations. The addition of the polymer coating did not enhance antimicrobial activity, but owing to their positive effects on membrane stability, its presence is important as a means of extending the shelf life of these formulations. Additionally, the presence of the polymeric coating availed the essential oil at a slower rate. This investigation is a stepping stone towards the promotion of the antimicrobial use of essential oils. The added benefits are that essential oils not only provide effective antimicrobial efficacy, but also promote a "greener" consumerism. Within liposomes, they will enhance dermato-cosmetic properties and increase the marketing image of the final product.     

Problems of higher and secondary school interaction

Conventional methods and techniques of effective interaction between higher and secondary school have been analyzed. This effective interaction has developed successfully until present and has ensured teaching continuity from school to university. It has been shown that introduction of the External Independent Evaluation (EIE) in 2007 led to revolutionary-evolutionary losses of the connection between secondary and higher school. Therefore, a possibility to teach high quality professionals capable of solving non-standard problems and accumulating new ideas has deteriorated significantly. Ways to restore the relationship between higher and secondary school have been proposed in order to save the high scientific potential of the country. These options included introduction of a general chemistry course in higher educational institutions, preservation of chemistry as a natural science subject in secondary schools, and renewal of universities’ work with applicants based on their positive experience in the past.     

Effect of pH on the interaction of baicalein with lysozyme by spectroscopic approaches

The interaction mechanism of baicalein and lysozyme (Lys) has been characterized by fluorescence, synchronous fluorescence, ultraviolet-vis absorbance, and three-dimensional (3D) fluorescence. The structural characteristics of baicalein and Lys were probed, and their binding affinities were determined under different pH conditions (pH 7.4, 4.5, and 2.5). The results showed that the binding abilities of the drug to Lys increased under lower pH conditions (pH 4.5 and 2.5) due to the alterations of the protein secondary and tertiary structures or the structural change of baicalein. The effect of baicalein on the conformation of Lys was analyzed using UV, synchronous fluorescence and three-dimensional (3D) fluorescence under different pH conditions. These results indicate that the binding of baicalein to Lys causes apparent change in the secondary and tertiary structure of Lys. In the presence of Cu(2+), the decrease of the binding constant in buffer solution of pH 2.5 may result from the competition of the metal ion and baicalein binding to Lys. In addition, the presence of Cu(2+) increased the binding constants of baicalein-Lys complex under higher pH conditions (pH 7.4 and 4.5). The possible site of binding of baicalein to Lys has been proposed to explain these observations.     

Charge-transfer interaction of some pyridinium salts with hen egg-white lysozyme

The charge-transfer interaction of pyridinium salts with lysozyme and L-tryptophan has been investigated by visible absorption, circular dichroism and fluorescence spectroscopy. Four quaternized and substituted pyridinium salts were used as electron acceptors. L-tryptophan was used as a model compound of electron donor for the purpose of the comparison with lysozyme. The binding constants obtained from absorption and circular dichroism spectra were 2.0–13 M^–1 and the sequence of the magnitude was found as EPCl(1-ethylpyridinium chloride) < MPCl(1-methylpyridinium chloride) < MNCl(1-methylnicotinamide chloride) < MNMCl(1-methyl-3-carbomethoxypyridinium chloride), which could be explained by the electron affinity of the pyridinium salt. The fluorescence spectra of lysozyme and L-tryptophan in the absence and presence of pyridinium salts were interpreted by Stern-Volmer plot. The static constants thus determined were in agreement with the binding constants obtained by other methods.