Solubility of proteins

Structural, functional, molecular docking analysis of a hypothetical protein from Talaromyces marneffei and its molecular dynamic simulation: an in-silico approach

Telaromyces marneffei (formerly Penicillium marneffei) is an endemic pathogenic fungus in Southern China and Southeast Asia. It can cause disease in patients with travel-related exposure to this organism and high morbidity and mortality in acquired immune deficiency syndrome (AIDS). In this study, we analyzed the structure and function of a hypothetical protein from T. marneffei using several bioinformatics tools and servers to unveil novel pharmacological targets and design a peptide vaccine against specific epitopes. A total of seven functional epitopes were screened on the protein, and 'STGVDMWSV' was the most antigenic, non-allergenic and non-toxic. Molecular docking showed stronger affinity between the CTL epitope 'STGVDMWSV' and the MHC I allele HLA-A*02:01, a higher docking score -234.98 kcal/mol, revealed stable interactions during a 100 ns molecular dynamic simulation. Overall, the results of this study revealed that this hypothetical protein is crucial for comprehending biochemical, physiological pathways and identifying novel therapeutic targets for human health. Communicated by Ramaswamy H. Sarma.

Interaction Mechanisms and Predictions of the Biofouling of Polymer Films: A Combined Atomic Force Microscopy and Quartz Crystal Microbalance with Dissipation Monitoring Study

Biofouling of polymeric membranes is a severe problem in water desalination and treatment applications. A fundamental understanding of biofouling mechanisms is necessary to control biofouling and develop more efficient mitigation strategies. To shed light on the type of forces that govern the interactions between biofoulants and membranes, biofoulant-coated colloidal AFM probes were employed to investigate the biofouling mechanisms of two model biofoulants, BSA and HA, toward an array of polymer films commonly used in membrane synthesis, which included CA, PVC, PVDF, and PS. These experiments were combined with quartz crystal microbalance with dissipation monitoring (QCM-D) measurements. The Derjaguin, Landau, Verwey, and Overbeek (DLVO) and the extended-DLVO (XDLVO) theoretical models were applied to decouple the overall adhesion interactions between the biofoulants and the polymer films into their component interactions, i.e., electrostatic (El), Lifshitz-van der Waals (LW), and Lewis acid-base (AB) interactions. The XDLVO model was found to predict better the AFM colloidal probe adhesion data and the QCM-D adsorption behavior of BSA onto the polymer films than the DLVO model. The ranking of the polymer films' adhesion strengths and adsorption quantities was inversely proportional to their γ- values. Higher normalized adhesion forces were quantified for the BSA-coated colloidal probes with the polymer films than the HA-coated colloidal probes. Similarly, in QCM-D measurements, BSA was found to cause larger adsorption mass shifts, faster adsorption rates, and more condensed fouling layers than HA. A linear correlation (R2 = 0.96) was obtained between the adsorption standard free energy changes (ΔGads°) estimated for BSA from the equilibrium QCM-D adsorption experiments and the AFM normalized adhesion energies (WAFM/R) estimated for BSA from the AFM colloidal probe measurements. Eventually, an indirect approach was presented to calculate the surface energy components of biofoulants characterized by high porosities from Hansen dissolution tests to perform the DLVO/XDLVO analyses.

Development of a Method for Fast Assessment of Protein Solubility Based on Ultrasonic Dispersion and Differential Centrifugation Technology

Protein solubility is very important for protein crystallization, bioprocess development, and protein application. In this study, a method based on the stability of a protein dispersion system is proposed for fast assessment of protein solubility, which mainly involves ultrasonic dispersion, differential centrifugation, and spectral measurement (UDDCS) and curvature estimation. The appropriate ultrasonic time and centrifugal time were experimentally determined at first. The results show that the relationship between the standard deviation and the protein concentrations originally added accords with the modified exponential equation, and the corresponding concentration of the maximum curvature point is defined as the solubility of the protein. Lysozyme solubility data in NaCl aqueous solutions and zein solubility data in ethanol aqueous solutions are selected to verify the UDDCS method by comparing the data obtained by the UDDCS method and the results from references, and the results indicate that the UDDCS method is reliable, universal, and time-saving. Finally, measurements of zein solubility in NaOH solution and casein solubility in urea aqueous solution were conducted as test cases by the UDDCS method.

Caprylic acid-induced impurity precipitation from protein A capture column elution pool to enable a two-chromatography-step process for monoclonal antibody purification

This article presents the use of caprylic acid (CA) to precipitate impurities from the protein A capture column elution pool for the purification of monoclonal antibodies (mAbs) with the objective of developing a two chromatography step antibody purification process. A CA-induced impurity precipitation in the protein A column elution pool was evaluated as an alternative method to polishing chromatography techniques for use in the purification of mAbs. Parameters including pH, CA concentrations, mixing time, mAb concentrations, buffer systems, and incubation temperatures were evaluated on their impacts on the impurity removal, high-molecular weight (HMW) formation and precipitation step yield. Both pH and CA concentration, but not mAb concentrations and buffer systems, are key parameters that can affect host-cell proteins (HCPs) clearance, HMW species, and yield. CA precipitation removes HCPs and some HMW species to the acceptable levels under the optimal conditions. The CA precipitation process is robust at 15-25°C. For all five mAbs tested in this study, the optimal CA concentration range is 0.5-1.0%, while the pH range is from 5.0 to 6.0. A purification process using two chromatography steps (protein A capture column and ion exchange polishing column) in combination with CA-based impurity precipitation step can be used as a robust downstream process for mAb molecules with a broad range of isoelectric points. Residual CA can be effectively removed by the subsequent polishing cation exchange chromatography.

Immunoglobulin purification by caprylic acid

At laboratory scale, several methods for the purification of immunoglobulins from plasma or serum are available. However, not all of them are equally applicable when the scale-up to the level of the pharmaceutical industry is intended. In this case, among other factors, it must be taken into account the performance and the cost and quality of the end product. Here we present a method of purification based on the differential precipitation of plasma proteins with caprylic acid in a single step that is simple and cheap and can be easily scaled up. This methodology has been successfully applied to the development and production of pharmaceutical product, such as therapeutic antisera where immunoglobulin fraction is the unique active pharmaceutical ingredient.

Alginate block fractions and their effects on membrane fouling

Alginate has been commonly used as a model foulant in studies of membrane organic fouling. As a complex polymer, alginate is composed of two different monomers, namely M ((1 → 4) linked β-D-mannopyranuronic acid) and G ((1 → 4) linked α-L-gulopyranuronic acid) which are randomly arranged into MG-, MM- and GG-blocks. So far, little information is available about fouling propensity of each block in microfiltration. In this study, microfiltration experiments were conducted respectively with MG-, MM- and GG-blocks separated from alginate under defined conditions. Results showed the severest fouling in the filtration of MG-block, and the least flux decline in the filtration of MM-block. The initial pore blocking was found to be responsible for the fouling observed in MG-block filtration, while the cake layer formed on membrane surface during the MM-block filtration could serve as a pre-filter that prevented membrane from further pore blocking. In order to look into fouling mechanisms, the effects of transparent exopolymeric particles (TEP) on membrane fouling were also studied. TEP were found to form through aggregation or cross-link of alginate blocks. As TEP were bigger than original alginate blocks, they could facilitate the formation of cake layer on membrane surface. It was observed that more TEP were produced from MM-blocks than from MG-blocks in solutions. This in turn explained why cake resistance was dominant in the filtration of MM-blocks as compared to MG-blocks. The analysis by the extended Derjaguin-Landau-Verwey-Overbeek (XDLVO) theory further revealed that MM-blocks had lowest cohesive interaction energy among all three alginate blocks, which favoured aggregation of MM-blocks, and ultimately leading to the formation of more TEP. This study provided insights into the roles of different alginate blocks in development of membrane fouling, and suggested that the membrane fouling would be related to molecular structure of alginate.

Glycosylation improves α-chymotrypsin stability upon encapsulation in poly(lactic-co-glycolic)acid microspheres

Enhancing protein stability upon encapsulation and release from polymers is a key issue in sustained release applications. In addition, optimum drug dispersion in the polymer particles is critical for achieving release profiles with low unwanted initial “burst” release. Herein, we address both issues by formulating the model enzyme α-chymotrypsin (α-CT) as nanoparticles to improve drug dispersion and by covalently modifying it with glycans to afford improved stability during encapsulation in poly(lactic-co-glycolic) acid (PLGA) microspheres. α-CT was chemically modified with activated lactose (500 Da) to achieve molar ratios of 4.5 and 7.1 lactose-to-protein. The bioconjugates were co-lyophilized with methyl-β-cyclodextrin followed by suspension in ethyl acetate to afford nanoparticles. Nanoparticle formation did not significantly impact protein stability; less than 5% of the protein was aggregated and the residual activity remained above 90% for all formulations. Using a solid-in-oil-in-water (s/o/w) methodology developed in our laboratory for nanoparticles, we obtained a maximum encapsulation efficiency of 61%. Glycosylation completely prevented otherwise substantial protein aggregation and activity loss during encapsulation of the non-modified enzyme. Moreover, in vitro protein release was improved for glycosylated formulations. These results highlight the potential of chemical glycosylation to improve the stability of pharmaceutical proteins in sustained release applications.

Molecular connectivity methods for the characterization of surface energetics of liquids and polymers

In the topological approach to structure-property relationships, the molecular structure is described in terms of appropriate weighted graphs to which suitable topological parameters, usually known as molecular connectivity indices, can be associated. Molecular connectivity indices are here applied to the prediction of surface free energy and Good-van Oss-Chaudhury acid-base components of organic compounds. To this aim, some quantitative structure-property relationships (QSPRs) are determined, involving both topological indices and group indicator variables of the customary functional group theory. The semiempirical models obtained to appear satisfactory and show significant advantages with respect to the models based on the purely functional group approach.

On the molecular basis of fouling resistance

This paper presents a review of models used to describe the properties of fouling resistant surfaces, i.e. the relationship between molecular structure and resistance to adsorption/adhesion of biological moieties. In particular, the well established 'physical' school of thought, mostly based on ideas stemming from the Alexander--De Gennes theory of polymer interfaces, which appears especially suitable for the modeling of resistance to bio-adhesion in terms of entropic effects, is compared to approaches that call into play the role of interfacial forces based on hydrogen bonding and molecular conformations. It is underlined that the presently prevailing view based on 'steric' stabilization effects is based on models that do not take into account some of the most fundamental aspects of water-soluble polymers and that, within this approximation, repulsive forces resulting from the 'compression' of tethered layers is the only possible explanation. When effects typical of water, such as hydrogen bonding, are considered, different pictures arise, even if their quantification poses several analytical challenges and new theoretical problems.

Solubility of recombinant human tissue factor pathway inhibitor

Study of recombinant human tissue factor pathway inhibitor (rhTFPI) solubility shows (1) an inverted bell-shaped pH-solubility profile with a broad solubility minimum between pH 5 and 10 such that the solubility minimum midpoint is 2-3 pH units away from its isoelectric point; (2) a negative temperature-solubility coefficient; (3) a strong dependence of solubility on the valence of electrolytes, with both multivalent cations and anions enhancing this effect; and (4) a significant increase of solubility in the presence of charged polymers. At pH 6-7, rhTFPI solubility-salt profiles display typical salting-in and salting-out biphasic effects. At a slightly lower pH (pH 5), a third phase in addition to the salting-in and salting-out phases was observed at low ionic strength conditions (5 to 50 mM) where rhTFPI solubility increased as salt concentration decreased. The salting-out constant for rhTFPI in NaCl is 1.04 M(-1) and is independent of the pH of the solution. Resolubilization of rhTFPI precipitates revealed that "insolubility precipitates" (seen during buffer exchanges) resulted from protein solute saturation and could be redissolved by "native" solvent conditions. On the other hand, "instability precipitates" (typically seen after exposure to elevated temperatures or extended storage periods) were caused by insoluble protein aggregate formation and required strongly denaturing conditions to redissolve.

Bacterial adhesion to polymer surfaces: a critical review of surface thermodynamic approaches

This paper presents a review of the theories based on wetting measurements/interfacial thermodynamics most frequently used to explain bacterial adhesion to solid surfaces. The physical meaning of data stemming from the application of the different theories is discussed and compared with current knowledge on interactions between components of matter. It is underlined that existing theories are either in disagreement with accepted knowledge on interfacial interactions or yield conflicting results from a quantitative point of view. It is concluded that, according to the present state of the art, no completely satisfactory theory exists, and that theoretical and experimental difficulties still hinder the understanding of the relationship between surface/interface free energy and bacterial adhesion to solid substrates. The recognition of existing shortcomings should be the first step towards a more satisfactory state of the art.

Staphylococcus epidermidis adhesion to films deposited from hydroxyethylmethacrylate plasma

The adhesion of S. epidermidis ATCC 35984 strain on polystyrene (PS) disks coated by films deposited from hydroxyethylmethacrylate (HEMA) plasma was evaluated and compared to adhesion on untreated PS and oxygen-plasma-treated PS. Films were deposited keeping constant the monomer flow rate while the discharge power ranged from 40-100 W in order to obtain coating with different surface properties. Surface chemistry, energetics, and morphology were evaluated by Electron Spectroscopy for Chemical Analysis (ESCA), contact angle measurement, and Atomic Force Microscopy (AFM), respectively. Bacteria adhered more to the plasma-deposited or plasma-treated surfaces than to untreated PS, but no significant difference was recorded among the samples obtained using different deposition conditions. According to the surface energetic analysis, plasma-deposited and plasma-treated surfaces bear a strong Lewis-base character, so it is possible to hypothesize a marked contribution of electron donor-electron acceptor interactions to the mechanism(s) controlling adhesion between synthetic and bacterial surfaces.

Surface field of forces and protein adsorption behavior of poly(hydroxyethylmethacrylate) films deposited from plasma

Polymeric films were deposited from hydroxyethylmethacrylate (HEMA) plasma on non-woven poly(butyleneterephtalate) (PBT) filter materials. To test the effect of deposition conditions on surface properties, film were deposited using a constant monomer flow rate and a discharge power ranging from 40-100 W. Surface composition and surface energetics were evaluated by Electron Spectroscopy for Chemical Analysis (ESCA) and contact angle measurement, respectively. Albumin (Alb) and fibrinogen (Fg) adsorption from single protein solutions to the plasma-coated filters was measured. Results illustrate the marked effects of the deposition condition on the surface composition, the surface field of forces, and the protein adsorption behavior. The latter is modeled by the application of the Good-van Oss-Chaudhury theory of Lewis acid-base contribution to interfacial energetics. Materials endowed with widely different properties are obtained from the same monomer and different deposition conditions, a result that must be taken into account both in the production step, to assure constant quality, and in the development of specifically tailored materials.

Modelling of protein adsorption on polymeric surfaces

A new method of calculation of protein adsorption on polymeric surfaces is presented. The method considers the thermodynamic equilibrium of a three-component system--water, protein, and polymer surface--and describes the protein concentration profile based on the interaction energy parameters for protein-polymer, water-polymer, and protein-water contacts. Calculation of these parameters calls for introduction of the energies arising from the dispersive forces, the hydrophobic effect, and the Drago et al. (1971) electron donor-acceptor interactions. Comparison with experimental results of protein adsorption on various polymeric surfaces gave satisfactory agreement.

Surface properties of fibrinogen and fibrin

By contact angle measurements on layers of fibrinogen and fibrin, it can be shown that the transformation from fibrinogen to fibrin is accompanied by a change in surface properties from very hydrophilic (fibrinogen) to moderately but definitely hydrophobic (fibrin). It is also shown that, contrary to serum albumin and gamma globulin, fibrinogen does not become more hydrophobic upon drying.

On the mechanism of the cold ethanol precipitation method of plasma protein fractionation

Given the negligible difference in the value of the dielectric constant of water at 20 degrees C and that of ethanol solutions at low temperatures, the often advanced explanation for the precipitation of plasma proteins by the cold ethanol process, as being due to a reduction of the dielectric constant and the resulting increase in interprotein charge interactions, is not tenable. It is shown by a surface-thermodynamic approach that, upon dehydration by ethanol, isoelectric serum albumin molecules as well as isoelectric serum gamma globulin molecules will attract each other to a sufficient degree by van der Waals forces to become insoluble in the ethanol-water mixtures used.

Energetics of cell-cell and cell-biopolymer interactions

The energy vs distance balance of cell suspensions (in the presence and in the absence of extracellular biopolymer solutions) is studied, not only in the light of the classical Derjaguin-Landau-Verwey-Overbeek (DLVO) theory (which considered just the electrostatic (EL) and Lifshitz-van der Waals (LW) interactions), but also by taking electron-acceptor/electron-donor, or Lewis acid-base (AB) and osmotic (OS) interactions into account. Since cell surfaces, as well as many biopolymers tend to have strong monopolar electron-donor properties, they are able to engage in a strong mutual AB repulsion when immersed in a polar liquid such as water. The effects of that repulsion have been observed earlier in the guise of hydration pressure. The AB repulsion is, at close range, typically one or two orders of magnitude stronger than the EL repulsion, but its rate of decay is much steeper. In most cases, AB interactions are quantitatively the dominant factor in cell stability (when repulsive) and in "hydrophobic interactions" (when attractive). OS interactions exerted by extracellularly dissolved biopolymers are weak, but their rate of decay is very gradual, so OS repulsions engendered by biopolymer solutions may be of importance in certain long-range interactions. OS interactions exerted by biopolymers attached to cells or particles (e.g., by glycocalix glycoproteins), are very short-ranged and usually are negligibly small in comparison with the other interaction forces, in aqueous media.

Orientation of the water molecules of hydration of human serum albumin

Through contact-angle measurements with a number of liquids, on layers of hydrated human serum albumin (HSA), built on anisotropic ultrafilter membranes, the apolar, Lifshitz-van der Waals surface tension component, as well as the polar, electron-acceptor and electron-donor parameters of the hydrated layers could be determined. From these data, it was found that the degree of orientation of the water molecules of hydration of HSA is approximately 98% in the first layer of hydration and approximately 30% of the second layer. The water molecules of hydration are oriented with the H atoms closest to, and the O atoms farthest from, the protein surface.

Monopolar surfaces

Following the development of a methodology for determining the apolar components as well as the electron donor and the electron acceptor parameters of the surface tension of polar surfaces, surfaces of a number of quite common materials were found to manifest virtually only electron donor properties and no, or hardly, any electron acceptor properties. Such materials may be called monopolar; they can strongly interact with bipolar materials (e.g., with polar liquids such as water); but one single polar parameter of a monopolar material cannot contribute to its energy of cohesion. Monopolar materials manifesting only electron acceptor properties also may exist, but they do not appear to occur in as great an abundance. Among the electron donor monopolar materials are: polymethylmethacrylate, polyvinylalcohol, polyethyleneglycol, proteins, many polysaccharides, phospholipids, nonionic surfactants, cellulose esters, etc. Strongly monopolar materials of the same sign repel each other when immersed or dissolved in water or other polar liquids. The interfacial tension between strongly monopolar surfaces and water has a negative value. This leads to a tendency for water to penetrate between facing surfaces of a monopolar substance and hence, to repulsion between the molecules or particles of such a monopolar material, when immersed in water, and thus to pronounced solubility or dispersibility. Monopolar repulsion energies can far outweigh Lifshitz-van der Waals attractions as well as electrostatic and "steric" repulsions. In aqueous systems the commonly observed stabilization effects, which usually are ascribed to "steric" stabilization, may in many instances be attributed to monopolar repulsion between nonionic stabilizing molecules. The repulsion between monopolar molecules of the same sign can also lead to phase separation in aqueous solutions (or suspensions), where not only two, but multiple phases are possible. Negative interfacial tensions between monopolar surfactants and the brine phase can be the driving force for the formation of microemulsions; such negative interfacial tensions ultimately decay and stabilize at a value very close to zero. Strongly monopolar macromolecules or particles surrounded by oriented water molecules of hydration can still repel each other, albeit to an attenuated degree. This repulsion was earlier perceived as caused by "hydration pressure". A few of the relevant colloid and surface phenomena are reviewed and re-examined in the light of the influence of surface monopolarity on these phenomena.

Mechanism of DNA (Southern) and protein (Western) blotting on cellulose nitrate and other membranes

The transfer of DNA fractions from hydrophilic gels to nitrocellulose membranes (Southern blotting) which was soon followed by the description of an analogous procedure for RNA (Northern blotting), and somewhat later for proteins (Western blotting), has rapidly become an important separation and characterization method in molecular biology, genetic engineering, and immunological detection. Surface tension measurements have shown that the interfacial attraction between DNA and cellulose esters (-delta G132) in aqueous media can be considerable. The weaker binding energy of proteins to cellulose nitrate and to cellulose acetate may be compared to hydrophobic interaction chromatography, as on account of the somewhat lower [-delta G132] values, it often is necessary to "fix" them more tightly onto nitrocellulose by using high salt concentrations. The binding energy of RNA to both cellulose esters also is rather low. In addition to the effect of high ionic strength, the effect of adding methanol, and the effects of denaturation, heating and drying on the energy of attachment of the biopolymers to cellulose esters, have been studied. Cationized nylon membranes have been advocated recently, especially for electrophoretic transfer of nucleic acids (in which process high salt concentrations cannot easily be used). With positively charged nylon membranes, the attachment mainly occurs through the electrostatic attraction between the strongly negatively charged nucleic acids (or proteins) and the positively charged membrane. Also, more apolar membranes (of polyvinyl difluoride) have been proposed, which manifest a strong interfacial (hydrophobic) attraction to all the above biopolymers (regardless of their electrostatic charge). However, with these two novel membrane types it is no longer possible to exploit the large difference in binding energy between DNA and RNA, which makes cellulose nitrate membranes so uniquely suited for RNA-DNA hybridization assays.