In Silico and Experimental Characterization of Chimeric Bacillus thermocatenulatus Lipase with the Complete Conserved Pentapeptide of Candida rugosa Lipase

Lipases are one of the highest value commercial enzymes as they have broad applications in detergent, food, pharmaceutical, and dairy industries. To provide chimeric Bacillus thermocatenulatus lipase (BTL2), the completely conserved pentapeptide (¹¹²Ala-His-Ser-Gln-Gly¹¹⁶) was replaced with similar sequences (²⁰⁷Gly-Glu-Ser-Ala-Gly²¹¹) of Candida rugosa lipase (CLR) at the nucleophilic elbow region. For this purpose, three mutations including A112G, H113E, and Q115A were inserted in the conserved pentapeptide sequence of btl2 gene. Based on the crystal structures of 2W22, the best structure of opened form of the chimeric lipases were garnered using the MODELLER v9.10 software. The native and chimeric lipases were docked to a set of ligands, and a trial version of Molegro Virtual Docker (MVD) software was used to obtain the energy values. Docking results confirmed chimeric lipase to be better than the native lipase. Following the in silico study, cloning experiments were conducted and expression of native and chimeric btl2 gene in Pichia pastoris was performed. The native and chimeric lipases were purified, and the effect of these mutations on characteristics of chimeric lipase studied and then compared with those of native lipase. Chimeric lipase exhibited 1.6-fold higher activity than the native lipase at 55 °C. The highest percentage of both lipases activity was observed at 60 °C and pH of 8.0. The ion Ca²⁺ slightly inhibited the activity of both lipases, whereas the organic solvent enhanced the lipase stability of chimeric lipase as compared with the native lipase. According to the results, the presence of two glycine residues at the conserved pentapeptide region of this chimeric lipase (¹¹² Gly-Glu-Ser-Ala-Gly ¹¹⁶) may increase the flexibility of the nucleophilic elbow region and affect the enzyme activity level.     

Magnetic solid-phase extraction of Zineb by C18-functionalised paramagnetic nanoparticles and determination by first-derivative spectrophotometry

Fe₃O₄-SiO₂-C₁₈ paramagnetic nanoparticles have been synthesised and used as magnetic solid-phase extraction (MSPE) sorbent for the extraction of Zineb from agricultural aqueous samples under ultrasonic condition and quantified through a first-derivative spectrophotometric method. The produced magnetic nanoparticles were characterised by using scanning electron microscopy, X-ray diffraction spectroscopy, Fourier transform infrared spectroscopy and zeta potential reader. The Fe₃O₄-SiO₂-C₁₈ paramagnetic nanoparticles had spherical structures with diameters in the range of 198–201 nm. Further, MSPE was performed by dispersion of Fe₃O₄-SiO₂-C₁₈ paramagnetic nanoparticles in a buffered aqueous solution accompanied by sonication. Next, the sorbents were accumulated by applying an external magnetic field and were washed with 4-(2-pyridylazo) resorcinol-dimethyl sulfoxide solution, for the purpose of desorbing the analyte. The extraction conditions (sample pH, washing and elution solutions, amount of sorbents, time of extraction, sample volume and effect of diverse ions), as well as Zineb-PAR first-order derivative spectra, were also evaluated. The calibration curve of the method was linear in the concentration range of 0.055–24.3 mg L^?1 with a correlation coefficient of 0.991. The limit of detection and limit of quantification values were 0.022 and 0.055 mg L^?1, respectively. The precision of the method for 0.27 mg L^?1 solution of the analyte was found to be less than 3.2%. The recoveries of three different concentrations (0.27, 1.37 and 13.7 mg L^?1) obtained 98.3%, 98.5% and 96.0%, respectively. The proposed Fe₃O₄-SiO₂-C₁₈ paramagnetic nanoparticles were found to have the capability of reusing for 7.0 times.     

Chemically bonded multiwalled carbon nanotubes as efficient material for solid phase extraction of some metal ions in food samples

Multiwalled carbon nanotubes chemically functionalized with 2-((3-silylpropylimino) methyl) phenol (SPIMP-MWCNT) and successfully applied for the solid phase extraction (SPE) of some metal ions in food samples. The influences of the analytical parameters including pH, amounts of solid phase, eluent conditions (type, volume and concentrations), sample volume and interference of some metal ions on the recoveries of ions Cu²⁺, Pb²⁺, Fe²⁺, Ni²⁺ and Zn²⁺ ion were investigated. The metal ions retained on SPIMP-MWCNT was eluted using 6?mL of 4?mol?L^?1 HNO₃ solution and their content was determined by flame atomic absorption spectrometry (FAAS) with recoveries more than 95% and relative standard deviations (n?=?5) between 2.4–3.4% for both reproducibility and repeatability. The detection limit of this metal ions was between 1.0–2.6?ng?mL^?1 (3S _b , n?=?10) and their preconcentration factor was 100, while their loading capacity was above 32.9?mg?g^?1 of SPIMP-MWCNT. The proposed method was successfully applied for the preconcentration and determination of analytes in different samples.     

Synthesis and computational study of two new glycoluril clips containing benzocrown ether side walls

Two new glycoluril-derived molecular clips containing benzocrown ether side walls have been synthesized via reaction of a glycoluril scaffold with two bromomethylated benzocrown ethers. The molecular geometry of their most stable structures were investigated with density functional theory at the B3LYP level of theory using STO-3G, 6-31G, and 6-311G basis sets. Then based on the obtained computer-optimized structures, the binding properties of one clip with some 5-substituted resorcinols have been calculated.     

Direct breath figure formation on PMMA and superhydrophobic surface using in situ perfluoro-modified silica nanoparticles

Breath figure formation was carried out directly on the surface of poly(methylmethacrylate) using a mixture of a good solvent, tetrahydrofuran, and a nonsolvent, water. Direct breath figure formation was coined for this method and a mechanism was proposed to describe the figure formation by the method based on hypothesizes available for the normal breath figure formation. The proposed mechanism is such that the sonication effect, immersion time, and water content on characteristics of the obtained figures can be explained. The figured surface was then made superhydrophobic with a water contact angle of 175° using in situ growing of perfluoro modified silica nanoparticles inside the figure cell by one-pot method. The spherical modified silica nanoparticles were detected being trapped by figure features providing a mechanical entrapment of the low-surface energy nanoparticles. © 2013 Wiley Periodicals, Inc. J Polym Sci Part B: Polym Phys, 2013     

“Grafting through” approach for synthesis of polystyrene/silica aerogel nanocomposites by in situ reversible addition-fragmentation chain transfer polymerization

Aerogel/polystyrene nanocomposites with mixed free and aerogel-attached polystyrene chains were synthesized using reversible addition-fragmentation chain transfer (RAFT) polymerization. 3-methacryloxypropyldimethylchlorosilane containing a double bond, which could be incorporated into polystyrene chains by a “grafting through” approach, was used as an aerogel modifier. Kinetics of RAFT polymerization of styrene in the presence of modified silica aerogel was studied by monitoring conversion and molar mass values. To further study, attached polymers were detached and their molecular characteristics were compared to free chains. According to results, the presence of silica aerogel particles has a sensible influence on polymerization kinetic and more aerogels result in decreased polymerization rate and conversion. The dispersity (Ð) of polymer chains increased by the addition of silica aerogel. In the case of aerogel-attached polystyrene chains, number-averaged molar mass values were slightly lower than that of free chains. Also, thermal gravimetric analysis (TGA) and differential scanning calorimetry (DSC) techniques were used to observe the effect of loading on thermal properties of synthesized nanocomposites.     

A heterogeneous and reusable nanopolymer-supported palladium catalyst for the copper- and phosphine-free Sonogashira coupling reaction under aerobic conditions in water

We report here the synthesis of a nanopolymer-supported palladium(II) complex catalyst, [PS-tet-Pd(II)] using a simple protocol. The catalyst was characterized by X-ray diffraction (XRD), scanning electron microscopy (SEM), FT-IR, and energy dispersive X-ray spectroscopy (EDS). PS-tet-Pd(II) proves to be a useful heterogeneous catalyst in the copper- and phosphine-free Sonogashira coupling reaction in water. The catalyst can be recovered from the reaction mixture by simple filtration and reused several times without any significant loss of catalytic activity.     

A highly diastereoselective five-component synthesis of 1-(alkylimino)-5,5-dicyano-3a-aryloctahydro-3-oxacyclobuta[cd]pentalene-1a,2,5a,5b(2H,3aH)-tetracarboxylates

A novel one-pot, five-component synthesis of 1-(alkylimino)-5,5-dicyano-3a-aryloctahydro-3-oxacyclobuta[cd]pentalene-1a,2,5a,5b(2H,3aH)-tetracarboxylates is described. A mixture of phenacyl bromide, malononitrile, isocyanide, and two equivalents of a dialkyl acetylenedicarboxylate undergoes a novel 1:1:1:2 addition reaction at ambient temperature in absolute ethanol to produce diastereoselectively the title compounds in good yields.     

Nanofluid in Hydrophilic State for EOR Implication Through Carbonate Reservoir

More than 50% of oil is trapped in petroleum reservoirs after applying primary and secondary recovery methods for removal. Thus, to produce more crude oils from these reservoirs, different enhanced oil recovery (EOR) approaches should be performed. In this research, the effect of hydrophilic nanoparticles of SiO₂ at 12 nm size, in (EOR) from carbonate reservoir is systematically investigated. Using this nanoparticle, we can increase viscosity of the injection fluid and then lower the mobility ratio between oil and nanofluid in carbonate reservoirs. To this end, a core flooding apparatus was used to determine the effectiveness and robustness of nanosilica for EOR from carbonate reservoirs. These experiments are applied on the reservoir carbonate core samples, which are saturated with brine and oil that was injected with nanoparticles of SiO₂ at various concentrations. The output results depict that, with increasing nanoparticle concentration, the viscosity of the injection fluid increases and results in decreased mobility ratio between oil and nanofluid. The results confirm that using the nanoparticle increases the recovery. Also, increasing the nanoparticle concentration up to 0.6% increases the ultimate recovery (%OOIP), but a further increase to 1.0 does not have a significant effect.     

Novel modified carbon nanotubes as a selective sorbent for preconcentration and determination of trace copper ions in fruit samples

In this work, multiwalled carbon nanotubes were reacted with N‐[3‐(triet‐hoxysilyl)propyl]isonicotinamide to prepare pyridine‐functionalized carbon nanotubes. This novel sorbent was characterized by infrared spectroscopy, thermal and elemental analysis, and scanning electron microscopy. Functionalized carbon nanotubes were applied for the preconcentration and determination of copper ions using flame atomic absorption spectrometry. Various parameters such as sample pH, flow rate, eluent type and concentration, and its volume were optimized. Under optimal experimental conditions, the limit of detection, the relative standard deviation, and the recovery of the method were 0.65 ng/mL, 3.2% and 99.4%, respectively. After validating the method using standard reference materials, the new sorbent was applied for the extraction and determination of trace copper(II) ions in fruit samples.