Preparation of a boronate-functionalized affinity hybrid monolith for specific capture of glycoproteins

A novel strategy for preparation of a boronate affinity hybrid monolith was developed using a Cu(I)-catalyzed 1,3-dipolar azide–alkyne cycloaddition (CuAAC) reaction of an alkyne–boronate ligand with an azide-functionalized monolithic intermediate. An azide-functionalized hybrid monolith was first synthesized via a single-step procedure to provide reactive sites for click chemistry; then the alkyne–boronate ligands were covalently immobilized on the azide-functionalized hybrid monolith via an in-column CuAAC reaction to form a boronate affinity hybrid monolith under mild conditions. The boronate affinity monolith was characterized and evaluated by means of elemental analysis, Fourier transform infrared spectroscopy, and scanning electron microscopy. The boronate affinity hybrid monolith exhibited excellent specificity toward nucleosides and glycoproteins, which were chosen as test cis-diol-containing compounds under neutral conditions. The binding capacity of the monolith for the glycoprotein ovalbumin was 2.36 mg?·?g^-1 at pH 7.0. The practicability of the boronate affinity hybrid monolithic material was demonstrated by specific capture of the glycoproteins ovalbumin and ovotransferrin from an egg sample.

基于巯基-烯点击反应制备有机-无机杂化硼酸亲和整体柱用于糖蛋白的选择性富集

发展了以巯基-烯点击反应制备有机-无机杂化硼酸亲和整体柱的新方法。首先以四甲氧基硅烷(TMOS)和巯丙基三甲氧基硅烷(MPTMS)作为反应单体,采用溶胶-凝胶反应制备表面含巯基的硅胶整体柱。然后利用巯基-烯(thiol-ene)的点击反应在整体柱上修饰硼酸配基3-丙烯酰胺基苯硼酸(AAPBA),制成AAPBA-硅胶杂化亲和整体柱。对影响硼酸亲和整体柱性能的条件如TMOS与MPTMS的比例、聚乙二醇和甲醇的用量等进行了优化。并采用扫描电镜、红外光谱等分析仪器对整体柱形貌和机械稳定性能进行了表征。研究了AAPBA-硅胶杂化亲和整体柱的分离性能,结果表明,其在中性条件下对含有顺式二醇的生物小分子核苷具有良好的特异亲和能力,并已成功地应用于卵清蛋白、辣根过氧化物酶等糖蛋白的分离。基于巯基-烯反应的制备方法新颖、可靠,可用于制备多种不同类型的硼酸亲和整体柱,具有较大的应用前景。     

DFT calculations for the structure and properties of polychlorodibenzo-<Emphasis Type="Italic">para</Emphasis>-dioxine anion-radicals

Calculations for molecules and anion-radicals (ARs) of polychlorodibenzo-para-dioxines (PCDDs) in gas phase have been performed by Becke-Lee-Yang-Parr (B3LYP) hybrid method. The peculiarity of PCDD AR structure consists in the fact that one of C-Cl bonds is approximately by 0.75 Å longer than the other C-Cl bonds and is about 2.6 Å. A symmetric structure of 2,3,7,8-tetrachlorodibenzo-para-dioxine (TCDD) AR is the local minimum on the potential energy surface, which is higher than the absolute minimum by 2.76 kcal/mol. The electron affinity values were computed. PCDDs with one or two chlorine atoms have negative values of the electron affinity, while those with three or more chlorine atoms have positive ones.     

Competitive affinity capillary electrophoresis assay based on a "hybrid" pre-incubation/on-capillary mixing format using an enantioselective aptamer as affinity ligand

In this paper, we describe an aptamer-based competitive affinity CE (ACE) assay involving (i) the pre-incubation of the target (D-arginine) and the specific ligand (anti-D-arginine-L-RNA aptamer) before (ii) the competition with the labeled target (dansylated D-arginine) through an on-capillary mixing strategy. The effects of some critical operating parameters such as the applied voltage and the sample-aptamer mixture plug length on the assay sensitivity were investigated. The ACE assay appeared particularly dependent on the plug length of the pre-incubated sample-aptamer solution. It was shown that this "hybrid" strategy significantly improved the assay sensitivity relative to that obtained with a "full" on-capillary mixing approach.     

Synthesis of boronate-silica hybrid affinity monolith via a one-pot process for specific capture of glycoproteins at neutral conditions

In this study, a boronate-silica hybrid affinity monolith was prepared for specific capture of glycoproteins at neutral pH condition. The monolith was synthesized via a facile one-pot procedure in a stainless steel column by concurrently mixing hydrolyzed alkoxysilanes tetramethoxysilane and vinyltrimethoxysilane, organic monomer 3-acrylamidophenylboronic acid and initiator 2,2′-azobisisobutyronitrile together. The polycondensation of alkoxysilanes and copolymerization of organic monomer and vinyl-silica monolith were carried out successively by reacting at different temperatures. After optimizing the preparation conditions, the resulting hybrid affinity monolith was systematically characterized and exhibited excellent affinity to both cis-diol-containing small molecules and glycoproteins at neutral and physiological pH, including adenosine, horseradish peroxidase, transferrin and ovalbumin. The binding capacity of ovalbumin on monolith was measured to be 2.5 mg g^?1 at pH 7.0. Furthermore, the hybrid affinity monolith was applied to the separation of transferrin from bovine serum sample at a physiological condition. Good repeatability was obtained and the relative standard deviations of retention time were 1.15 and 4.77 % (n?=?5) for run-to-run and column-to-column, respectively.     

Purification of a hybrid plasminogen activator protein

Recombinant DNA technology has been employed to produce a hybrid gene in which the kringle and serine protease domains of tissue plasminogen activator are linked to the heavy-chain Fd region of a fibrin-specific antibody. The hybrid gene is co-expressed with antibody light chains. This communication describes a purification procedure for the hybrid protein, involving affinity and ion-exchange chromatography. The purified hybrid protein has been used in vivo and in vitro clot lysis experiments and has been shown to be effective at clot dissolution.     

Energy dependence of the fragmentation of ester enolate ions

The energy dependence of the fragmentation of a selection of ester enolate ions has been studied by variable, low-energy collision-induced dissociation experiments in the quadrupole collision cell of a hybrid BEQQ mass spectrometer. The dominant fragmentation reactions observed are where ΔH₁ ? ΔH₂=PA([RCCO]^?) ? PA([?O]^?) (PA=proton affinity). The anion of lowest proton affinity is formed preferentially at low internal energies with the yield of the anion of higher proton affinity increasing with increasing internal energy. The [CH₃OCOCOCH₂]^? anion derived from methyl pyruvate forms [CH₃OCO]^? by reaction (2); this anion readily fragments to [CH₃G]^?+ CO consistent with a structure represented by a dipole-stabilized cluster of [CH₃O]^? and CO. Comparison of the 8-keV with the 50-eV collision-induced dissociation mass spectra indicated that the average internal energy of the fragmenting ions is considerably lower in the high-energy collisional experiments than it is in the low-energy collisional experiments.     

Theoretical study of PO and PO−

The diatomic systems, PO and PO^– are studied, using numerical Hartree-Fock (NHF) and coupled-cluster calculations. The latter employs a hybrid NHF and Slater orbital basis set. Highly accurate CCSD methods predict bond lengths accurate to <0.004 Å and frequencies to 60 cm^–1. In addition the electron affinity of PO is computed to be 0.89 eV compared to an experimental value of 1.09±0.01. Comparisons are made with SCF and MBPT(2) results for PO⁺ using conventional basis sets.Dedicated to Professor J. Koutecký on the occasion of his 65th birthdayGuggenheim Fellow     

Hybrid lipid bilayers in nanostructured silicon: a biomimetic mesoporous scaffold for optical detection of cholera toxin

Cholera toxin levels are optically detected by affinity capture within hybrid lipid bilayer membranes formed in the nanostructures of porous silicon photonic crystals.     

Intermodular communication in modular polyketide synthases: structural and mutational analysis of linker mediated protein-protein recognition

Modular polyketide synthases (PKSs) present an attractive scaffold for the engineered biosynthesis of novel polyketide products via recombination of naturally occurring enzyme modules with desired catalytic properties. Recent studies have highlighted the pivotal role of short intermodular "linker pairs" in the selective channeling of biosynthetic intermediates between adjacent PKS modules. Using a combination of computer modeling, NMR spectroscopy, cross-linking, and site-directed mutagenesis, we have investigated the mechanism by which a linker pair from the 6-deoxyerythronolide B synthase promotes chain transfer. Our studies support a "coiled-coil" model in which the individual peptides comprising this linker pair adopt helical conformations that associate through a combination of hydrophobic and electrostatic interactions in an antiparallel fashion. Given the important contribution of such linker pair interactions to the kinetics of chain transfer between PKS modules, the ability to rationally modulate linker pair affinity by site-directed mutagenesis could be useful in the construction of optimized hybrid PKSs.     

Molecular and supramolecular dynamics of hybrid organic-inorganic interfaces for the rational construction of advanced hybrid nanomaterials

Today the capability to rationally design and construct hybrid materials utilizing a performance-property driven methodology is strongly dependent on our ability to control the structure and the dynamics of hybrid interfaces. This control needs a deep knowledge of their molecular and supramolecular dynamics that must be evaluated in situ, in the soft matter or colloidal states. For this purpose the use of modern methodologies of characterization such as time resolved synchrotron experiments and advanced pulsed field gradient NMR methods (DOSY) is particularly relevant. In this critical review, two important examples are discussed. They concern, first, the study of surface capping organic components' affinity towards nanoparticle surfaces by DOSY NMR. The knowledge and therefore the tuning of this affinity is paramount because it controls solubility, transferability and stability of colloidal dispersions of nanoparticles (NPs). In the second part, the mechanism of micellar templated formation of hybrid mesophases will be discussed in the frame of the main results obtained via in situ SAXS (107 references).     

Complex-Emulsion synthesis of organo-inorganic amphiphilic sorbents with specific affinity for glucose

Granular organo-inorganic amphiphilic sorbents with specific affinity for glucose were synthesized with the aim of developing selective hemosorbents for efferent therapy of hyperglycemia. The sorbents were prepared in oil/water/oil complex emulsions by copolymerization of 2-hydroxyethyl methacrylate and ethylene glycol dimethacrylate on the surface of selenium nanoparticles stabilized with polyvinylpyrrolidone. The phases were stabilized with excess selenium/polyvinylpyrrolidone nanocomplexes. Optimum synthesis conditions ensuring formation of hybrid sorbents with the physicochemical properties required for performing efficient preparative hemosorption and plasma adsorption processes were found. The specific affinity for glucose was reached by modification of these sorbents via imprinting with template glucose molecules in the surface polymer layer and via introduction of boric acid as an affine ligand into the hybrid matrices.     

Synthesis of boronate‐functionalized organic‐inorganic hybrid monolithic column for the separation of cis‐diol containing compounds at low pH

In this work, an organic‐inorganic hybrid boronate affinity monolithic column was prepared via “one‐pot” process using 4‐vinylphenylboronic acid as organic monomer and divinylbenzene as cross‐linker. The effects of reaction temperature, solvents and composition of organic monomers on the column properties (e.g. morphology, permeability, and mechanical stability) were investigated. A series of test compounds including small neutral molecules, aromatic amines, and cis‐diol compounds were used to evaluate the retention behaviors of the prepared hybrid monolithic column. The results demonstrated that the prepared hybrid monolith exhibited mixed‐interactions including hydrophilicity, cation exchange, and boronate affinity interaction. The run‐to‐run, day‐to‐day and batch‐to‐batch reproducibilities of the prepared hybrid monolith for thiourea's retention time were satisfactory with the relative standard deviations (RSDs) less than 0.09, 1.45 and 4.05% (n = 3), respectively, indicating the effectiveness and practicability of the proposed method.     

Anion-binding behavior of hybrid calixpyrroles

Hybrid calixpyrrole systems are calixpyrrole-like macrocycles that are based on more than one type of small molecule building block. Structurally, these "mixed-breed" macrocycles differ from calixpyrroles in that some pyrrolic units in the latter are replaced by other hetereocyclic units such as furan, thiophene, bipyrrole, and bithiophene. Although several such systems have been reported in recent years, only a few have been studied as possible anion receptors. In this paper, the results of detailed anion binding studies involving several prototypic systems are reported. Taken in concert, these results highlight the fact that some hybrid systems, including compounds 2-5, display anion affinities that are considerably weaker than those of the parent system 1. On the other hand, they also show that compounds 6-8 are good receptors for "Y-shaped" anions, such as carboxylates, and that they bind these species with high affinity. These findings are strongly supported by solid-state structural studies, which reveal an interesting "cross binding mode" for the binding of carboxylate anions by the bis-thiophene, bis-pyrrole system 7.     

Polyimide-silica sol–gel membranes from a novel alkoxysilane functionalized polyimide: preparation,characterization and gas separation properties

Novel polyimide-organosilicate hybrid films were prepared by sol–gel process from a novel functionalized polyimide with alkoxysilanes as pendant groups that increase the affinity between inorganic and organic phases. The synthesis of this functionalized polyimide was carried out by an esterification reaction of a copolyimide containing carboxylic acid groups with allyl alcohol and subsequent hydrosililation. Tetraethoxysilane was used as precursor of silica in different amounts to obtain hybrid membranes with a silica content of 5, 10 and 20 %. The polymers and hybrid membranes were structural, mechanical and thermally characterized. The ²⁹Si-NMR solid state spectroscopy confirmed that silica was covalently bonded to the polyimide. SEM pictures showed a good dispersion of the silica particles and an amorphous morphology was observed by WAXS. DSC analyses revealed an increase in rigidity with the increase in silica content. The mechanical strength of the hybrid membranes decreased with the silica amount, exhibiting a brittle behavior. The evaluation of the gas permeation properties revealed that the film with the lowest silica content showed the highest permeability coefficients for O₂, N₂, CH₄, and CO₂ with 34, 8, 6, and 128 barrers respectively, while all hybrid membranes showed similar permselectivities around 4 and 22 for O₂/N₂ and CO₂/CH₄ respectively. The fractional free volume of hybrid membranes determined by positron annihilation lifetime spectroscopy followed the same trend that permeability coefficients, confirming that the gas transport properties are mainly governed by the free volume elements.     

Substrate turnover and inhibitor binding as selection parameters in directed evolution of blood coagulation factor Xa

A library of blood coagulation factor Xa (FXa)-trypsin hybrid proteases was generated and displayed on phage for selection of derivatives with the domain "architecture" of trypsin and the specificity of FXa. Selection based on binding to soybean trypsin inhibitor only provided enzymatically inactive derivatives, due to a specific mutation of serine 195 of the catalytic triad to a glycine, revealing a significant selection pressure for proteolytic inactive derivatives. By including a FXa peptide substrate in the selection mixture, the majority of the clones had retained serine at position 195 and were enzymatically active after selection. Further, with the inclusion of bovine pancreatic trypsin inhibitor, in addition to the peptide substrate, the selected clones also retained FXa specificity after selection. This demonstrates that affinity selection combined with appropriate deselection provides a simple strategy for selection of enzyme derivatives that catalyse a specific reaction.     

Design and synthesis of thiazoline-thiazole hybrid macrocycles possessing strong binding affinity to Pb2+ and Cd2+

Thiazoline-thiazole hybrid macrocycles were synthesized via head-to-tail cyclooligomerization. The macrocycle consisting of eight heterocyclic subunits displays high binding affinity to the heavy metal toxins Pb(2+) and Cd(2+).     

Ni~(2+)-PAA Adsorbent for Purifying 6His-OmpTS Recombinant Protein

One of the most versatile purification methods utilizing affinity tags containing six consecutive histidine residues (6 His) engineered into recombinant proteins, and Ni2+ ions immobilized on commercially available nitrilotriacetic acid-agarose (Agarose-NTA-Ni2+) were widely used as affinity matrix1-4. However, the preparation procedure of Agarose-NTA-Ni2+ is a cumbersome one5 and agarose is notoriously mildew, the cost of purification is quite expensive. Here we describe the application…     

Calculation of absolute ligand binding free energy to a ribosome-targeting protein as a function of solvent model

A comparative analysis is provided of the effect of different solvent models on the calculation of a potential of mean force (PMF) for determining the absolute binding affinity of the small molecule inhibitor pteroic acid bound to ricin toxin A-chain (RTA). Solvent models include the distance-dependent dielectric constant, several different generalized Born (GB) approximations, and a hybrid explicit/GB-based implicit solvent model. We found that the simpler approximation of dielectric screening and a GB model, with Born radii fitted to a switching-window dielectric-boundary surface Poisson solvent model, severely overpredicted the binding affinity as compared to the experimental value, estimated to range from -4.4 to -6.0 kcal/mol. In contrast, GB models that are parametrized to fit the Lee-Richards molecular surface performed much better, predicting binding free energy within 1-3 kcal/mol of experimental estimates. However, the predicted free-energy profiles of these GB models displayed alternative binding modes not observed in the crystal structure. Finally, the most rigorous and computationally costly approach in this work, which used a hybrid explicit/implicit solvent model, correctly determined a binding funnel in the PMF near the crystallographic bound state and predicted an absolute binding affinity that was 2 kcal/mol more favorable than the estimated experimental binding affinity.