Resonant 2-photon ionization study of the conformation and the binding of water molecules to 2-phenylethanethiol (PhCH2CH2SH)

The structures of 2-phenylethanethiol (PET, PhCH(2)CH(2)SH) and its 1:1 water clusters have been studied using resonant two-photon ionization spectroscopy including band contour analysis and UV-UV holeburning, combined with extensive ab initio calculations on ground and excited states. The most populated conformer, labeled Ggpi, has a gauche arrangement about the SCCC and HSCC bonds that permits a stabilizing SH...dpi type of hydrogen bond. The other observed conformer, Ag, is anti with respect to the SCCC bond. In the dominant 1:1 water cluster, a water molecule binds to the Ggpi conformer via an OH...S hydrogen bond and two significant CH...O interactions. There is also evidence for water binding to conformer Ag with a similar arrangement, and for a second Ggpi cluster where water inserts between the SH and the aromatic ring. The additional interactions to the water molecules result in net D(e) binding energies approximately double those resulting from a single thiol-water hydrogen bond. The (1)(pi,pi(*)) excited state lifetimes in the bare molecules are very short because of internal conversion to a dissociative (1)(n,pi(*)) state related to the thiol. In the dominant Gw(1) cluster, the lifetime is significantly increased from <1 to approximately 4 ns. Hydrogen bonding to the thiol, which raises the energy of the dissociative (1)(n,pi(*)) state, accounts for this behavior.     

A constant-time kinetic Monte Carlo algorithm for simulation of large biochemical reaction networks

The time evolution of species concentrations in biochemical reaction networks is often modeled using the stochastic simulation algorithm (SSA) [Gillespie, J. Phys. Chem. 81, 2340 (1977)]. The computational cost of the original SSA scaled linearly with the number of reactions in the network. Gibson and Bruck developed a logarithmic scaling version of the SSA which uses a priority queue or binary tree for more efficient reaction selection [Gibson and Bruck, J. Phys. Chem. A 104, 1876 (2000)]. More generally, this problem is one of dynamic discrete random variate generation which finds many uses in kinetic Monte Carlo and discrete event simulation. We present here a constant-time algorithm, whose cost is independent of the number of reactions, enabled by a slightly more complex underlying data structure. While applicable to kinetic Monte Carlo simulations in general, we describe the algorithm in the context of biochemical simulations and demonstrate its competitive performance on small- and medium-size networks, as well as its superior constant-time performance on very large networks, which are becoming necessary to represent the increasing complexity of biochemical data for pathways that mediate cell function.     

Oligo(vinylidene fluoride) Langmuir-Blodgett films studied by spectroscopic ellipsometry and the density functional theory

Thin films of amphiphilic vinylidene fluoride oligomers prepared by Langmuir-Blodgett deposition on silicone substrates were investigated by comparing experimental and theoretical mid-infrared (IR) spectra. The experimental spectra were obtained using infrared spectroscopic ellipsometry. Theoretical spectra were calculated using density functional theory. Excellent correspondence of major IR bands in both data sets shows that the molecular backbone is oriented with the long axis normal to the substrate plane. This is in contrast to poly(vinylidene fluoride) LB films, in which the polymer chains are parallel to the substrate.     

Interaction of supercritical CO2 with alkyl-ammonium organoclays: changes in morphology

This paper investigates the influence of supercritical carbon dioxide on the morphology and surface chemistry of three organic modified montmorillonite species. Alkyl based quaternary ammonium surfactants with differing numbers of chains attached, were chosen to vary the degree of CO(2)-philicity exhibited by the organoclay. In a high pressure batch vessel, the different organoclays were suspended in the supercritical solvent at temperatures of 50 and 200 degrees C and pressures of 7.6 and 9.6 MPa and then removed after de-pressurization at 0.2 or 4.8 MPa/s. The structures of these treated clays were characterized by X-ray diffraction (XRD), differential scanning microscopy (DSC), and thermogravimetric analysis (TGA), and their chemical properties were analyzed by various methods including atomic absorption spectroscopy, and water uptake measurement. Solute-solvent interactions plasticized the organic medium while suspended in the supercritical fluid, which resulted in greater chain mobility and further cation exchange. The results indicate that intercalated surfactants exhibiting a paraffin complex arrangement were most likely to experience significant basal expansion, provided the tilt angle was not already close to being perpendicular to the silicate surface. At the lower processing temperature condition, the chemistry of the clay surface was notably altered by the CO(2) associations with the Lewis acid/base sites, which significantly reduced the moisture adsorption capacity of the material. For those organoclays demonstrating basal expansion, it was noted that the resulting particle size was increased due to enhanced porosity.     

Arene Selectivity by a Flexible Coordination Polymer Host

The coordination polymers [Ag₄(O₂CCF₃)₄(phen)₃] ? phen ? arene ( 1? phen ? arene) (phen=phenazine; arene=toluene, p‐xylene or benzene) have been synthesised from the solution phase in a series of arene solvents and crystallographically characterised. By contrast, analogous syntheses from o‐xylene and m‐xylene as the solvent yield the solvent‐free coordination polymer [Ag₄(O₂CCF₃)₄(phen)₂] ( 2 ). Toluene, p‐xylene and benzene have been successfully used in mixed‐arene syntheses to template the formation of coordination polymers 1? phen ? arene, which incorporate o‐ or m‐xylene. The selectivity of 1? phen ? arene for the arene guests was determined, through pairwise competition experiments, to be p‐xylene>toluene≈benzene>o‐xylene>m‐xylene. The largest selectivity coefficient was determined as 14.2 for p‐xylene:m‐xylene and the smallest was 1.0 for toluene:benzene.     

Hematocrit analysis through the use of an inexpensive centrifugal polyester-toner device with finger-to-chip blood loading capability

Hematocrit (HCT) measurements are important clinical diagnostic variables that help physicians diagnose and treat various medical conditions, ailments, and diseases. In this work, we present the HCT Disc, a centrifugal microdevice fabricated by a Print, Cut and Laminate (PCL) method to generate a 12-sample HCT device from materials costing <0.5 USD (polyester and toner or PeT). Following introduction from a drop of blood (finger stick), whole blood metering and cell sedimentation are controlled by centrifugal force, only requiring a CD player motor as external hardware and, ultimately, a cell phone for detection. The sedimented volume from patient blood in the HCT Disc was analyzed using a conventional scanner/custom algorithm for analysis of the image to determine a hematocrit value, and these were compared to values generated in a clinical laboratory, which correlated well. To enhance portability and assure simplicity of the HCT measurement, values from image analysis by a cell phone using a custom application was compared to the scanner. Fifteen samples were analyzed with cell phone image analysis system and were found to be within 4% of the HCT values determined in the clinical lab. We demonstrate the feasibility of the PeT device for HCT measurement, and highlight its uniquely low cost (<0.5 USD), speed (sample-to-answer <8 min), multiplexability (12 samples), low volume whole blood requirement (<3 μL), rotation speeds (<4000 rpm) needed for effective measurement as well as the direct finger-to-chip sample loading capability.     

Novel use of glow discharge optical emission spectroscopy (GDOES) to study corrosion of AA2024‐T3 in the presence and absence of inhibitors – part 3: investigating the effects of various proportions of inhibitor in the coating matrix or in nanocontainers

Elemental depth profiling by glow discharge optical emission spectroscopy has been used to characterize the corrosion products on AA2024‐T3. In previous work, the aluminium, oxygen and copper depth profiles were shown to provide information regarding surface roughening, the thickness of corroded layers and extent of copper de‐alloying/relocation. Nitrogen, sulfur, phosphorus and chromium depth profiles were examined in the hope of detecting inhibitor species within the corroded/altered layers after 5 h of exposure to a corrosive solution. In the present work, the study is extended to longer exposure time. The work presents a further study of the leaching of benzotriazole from the coating matrix or from nanocontainers during various times of exposure to a corrosive environment. Copyright © 2016 John Wiley & Sons, Ltd.     

Capillary zone electrophoresis tandem mass spectrometry detects low concentration host cell impurities in monoclonal antibodies

We have evaluated CZE‐ESI‐MS/MS for detection of trace amounts of host cell protein impurities in recombinant therapeutics. Compared to previously published procedures, we have optimized the buffer pH used in the formation of a pH junction to increase injection volume. We also prepared a 5‐point calibration curve by spiking 12 standard proteins into a solution of a human mAb. A custom CZE‐MS/MS system was used to analyze the tryptic digest of this mixture without depletion of the antibody. CZE generated a ～70‐min separation window (～90‐min total analysis duration) and ～300‐peak capacity. We also analyzed the sample using ultra‐performance LC‐MS/MS. CZE‐MS/MS generated approximately five times higher base peak intensity and more peptide identifications for low‐level spiked proteins. Both methods detected all proteins spiked at ～100 ppm level with respect to the antibody.     

Effects of Active‐Site Modification and Quaternary Structure on the Regioselectivity of Catechol‐O‐Methyltransferase

Catechol‐O‐methyltransferase (COMT), an important therapeutic target in the treatment of Parkinson's disease, is also being developed for biocatalytic processes, including vanillin production, although lack of regioselectivity has precluded its more widespread application. By using structural and mechanistic information, regiocomplementary COMT variants were engineered that deliver either meta‐ or para‐methylated catechols. X‐ray crystallography further revealed how the active‐site residues and quaternary structure govern regioselectivity. Finally, analogues of AdoMet are accepted by the regiocomplementary COMT mutants and can be used to prepare alkylated catechols, including ethyl vanillin.