Biosynthesis of thiamin thiazole in eukaryotes: conversion of NAD to an advanced intermediate

Thiazole synthase catalyzes the formation of the thiazole moiety of thiamin pyrophosphate. The enzyme from Saccharomyces cerevisiae (THI4) copurifies with a set of strongly bound adenylated metabolites. One of them has been characterized as the ADP adduct of 5-(2-hydroxyethyl)-4-methylthiazole-2-carboxylic acid. Attempts toward yielding active wild-type THI4 by releasing protein-bound metabolites have failed so far. Here, we describe the identification and characterization of two partially active mutants (C204A and H200N) of THI4. Both mutants catalyzed the release of the nicotinamide moiety from NAD to produce ADP-ribose, which was further converted to ADP-ribulose. In the presence of glycine, both the mutants catalyzed the formation of an advanced intermediate. The intermediate was trapped with ortho-phenylenediamine, yielding a stable quinoxaline derivative, which was characterized by NMR spectroscopy and ESI-MS. These observations confirm NAD as the substrate for THI4 and elucidate the early steps of this unique biosynthesis of the thiazole moiety of thiamin in eukaryotes.     

Sulfur K-edge X-ray absorption spectroscopy and density functional theory calculations on superoxide reductase: role of the axial thiolate in reactivity

Superoxide reductase (SOR) is a non-heme iron enzyme that reduces superoxide to peroxide at a diffusion-controlled rate. Sulfur K-edge X-ray absorption spectroscopy (XAS) is used to investigate the ground-state electronic structure of the resting high-spin and CN- bound low-spin FeIII forms of the 1Fe SOR from Pyrococcus furiosus. A computational model with constrained imidazole rings (necessary for reproducing spin states), H-bonding interaction to the thiolate (necessary for reproducing Fe-S bond covalency of the high-spin and low-spin forms), and H-bonding to the exchangeable axial ligand (necessary to reproduce the ground state of the low-spin form) was developed and then used to investigate the enzymatic reaction mechanism. Reaction of the resting ferrous site with superoxide and protonation leading to a high-spin FeIII-OOH species and its subsequent protonation resulting in H2O2 release is calculated to be the most energetically favorable reaction pathway. Our results suggest that the thiolate acts as a covalent anionic ligand. Replacing the thiolate with a neutral noncovalent ligand makes protonation very endothermic and greatly raises the reduction potential. The covalent nature of the thiolate weakens the FeIII bond to the proximal oxygen of this hydroperoxo species, which raises its pKa by an additional 5 log units relative to the pKa of a primarily anionic ligand, facilitating its protonation. A comparison with cytochrome P450 indicates that the stronger equatorial ligand field from the porphyrin results in a low-spin FeIII-OOH species that would not be capable of efficient H2O2 release due to a spin-crossing barrier associated with formation of a high-spin 5C FeIII product. Additionally, the presence of the dianionic porphyrin pi ring in cytochrome P450 allows O-O heterolysis, forming an FeIV-oxo porphyrin radical species, which is calculated to be extremely unfavorable for the non-heme SOR ligand environment. Finally, the 5C FeIII site that results from the product release at the end of the O2- reduction cycle is calculated to be capable of reacting with a second O2-, resulting in superoxide dismutase (SOD) activity. However, in contrast to FeSOD, the 5C FeIII site of SOR, which is more positively charged, is calculated to have a high affinity for binding a sixth anionic ligand, which would inhibit its SOD activity.     

Growth of first generation dendrons on SiO2: controlling chemisorption of transition metal coordination complexes

We have investigated the growth of first generation branched polyamidoamine dendrons on silicon dioxide as a way to tailor and control the subsequent chemisorption of transition metal coordination complexes. Beginning with straight-chain alkyl, amine-terminated self-assembled monolayers as anchors, we find that the efficiency of the dendritic branching step depends on the length of the anchor, it being nearly perfect on a 12-carbon chain anchor. The reaction of these layers, both the anchor layers and the first generation dendrons, with Ta[N(CH3)2]5 and Ti[N(CH3)2]4 have been examined in ultrahigh vacuum using X-ray photoelectron spectroscopy. We find that the saturation coverage increases with the density of terminal -NH2 groups; thus, the branching step has effectively amplified the chemisorptive capacity of the surface. Concerning the spatial extent of reaction we find that it depends on the thickness and structure of the organic layer. The thinnest layer cannot prevent penetration of the metal complex to the organic/SiO2 interface, where it can react with residual -OH, whereas, on the longer straight chain anchor, reaction occurs exclusively at the terminal -NH2 group. On the branched dendrons, the situation is more complex, and reaction occurs not only with the terminal -NH2 group but also likely with functional groups, such as -NH-(C=O)-, on the backbone of the branched dendron.     

S K-edge XAS and DFT calculations on square-planar NiII-thiolate complexes: effects of active and passive H-bonding

S K-edge XAS for a low-spin NiII-thiolate complex shows a 0.2 eV shift to higher pre-edge energy but no change in Ni-S bond covalency upon H-bonding. This is different from the H-bonding effect we observed in high-spin FeIII-thiolate complexes where there is a significant decrease in Fe-S bond covalency but no change in energy due to H-bonding (Dey, A.; Okamura, T.-A.; Ueyama, N.; Hedman, B.; Hodgson, K. O.; Solomon, E. I. J. Am. Chem. Soc. 2005, 127, 12046-12053). These differences were analyzed using DFT calculations, and the results indicate that two different types of H-bonding interactions are possible in metal-thiolate systems. In the high-spin FeIII-thiolate case, the H-bonding involves a thiolate donor orbital which is also involved in bonding with the metal (active), while in the low-spin NiII-thiolate, the orbital involved in H-bonding is nonbonding with respect to the M-S bonding (passive). The contributions of active and passive H-bonds to the reduction potential and Lewis acid properties of a metal center are evaluated.     

Bayesian and Frequentist Inferences on a Type I Half-Logistic Odd Weibull Generator with Applications in Engineering

In this article, we have proposed a new generalization of the odd Weibull-G family by consolidating two notable families of distributions. We have derived various mathematical properties of the proposed family, including quantile function, skewness, kurtosis, moments, incomplete moments, mean deviation, Bonferroni and Lorenz curves, probability weighted moments, moments of (reversed) residual lifetime, entropy and order statistics. After producing the general class, two of the corresponding parametric statistical models are outlined. The hazard rate function of the sub-models can take a variety of shapes such as increasing, decreasing, unimodal, and Bathtub shaped, for different values of the parameters. Furthermore, the sub-models of the introduced family are also capable of modelling symmetric and skewed data. The parameter estimation of the special models are discussed by numerous methods, namely, the maximum likelihood, simple least squares, weighted least squares, Cramér-von Mises, and Bayesian estimation. Under the Bayesian framework, we have used informative and non-informative priors to obtain Bayes estimates of unknown parameters with the squared error and generalized entropy loss functions. An extensive Monte Carlo simulation is conducted to assess the effectiveness of these estimation techniques. The applicability of two sub-models of the proposed family is illustrated by means of two real data sets.     

Green's function approach to study the propagation of SH‐wave in piezoelectric layer influenced by a point source

Green's function technique serves as a powerful tool to find the particle displacements due to SH‐wave propagation in layer of a shape different from the space between two parallel planes. Therefore, the present paper undertook to study the propagation of SH‐wave in a transversely isotropic piezoelectric layer under the influence of a point source and overlying a heterogeneous substrate using Green's function technique. The coupled electromechanical field equations are solved with the aid of Green's function technique. Expression for displacements in both layer and substrate, scalar potential and finally the dispersion relation is obtained analytically for the case when wave propagates along the direction of layering. Numerical computations are carried out and demonstrated with the aid of graphs for six different piezoelectric materials namely PZT‐5H ceramics, Barium titanate (BaTiO₃) ceramics, Silicon dioxide (SiO₂) glass, Borosilicate glass, Cobalt Iron Oxide (CoFe₂O₄), and Aluminum Nitride (AlN). The effects of heterogeneity, piezoelectric and dielectric constants on the dispersion curve are highlighted. Moreover, comparative study is carried out taking the phase velocity for different piezoelectric materials on one hand and isotropic case on the other. Dispersion relation is reduced to well‐known classical Love wave equation with a view to illuminate the authenticity of problem. Copyright © 2017 John Wiley & Sons, Ltd.     

On some spectral spaces associated to tensor triangulated categories

We consider a closure operator c of finite type on the space \(SMod(\mathcal M)\) of thick \(\mathcal K\)-submodules of a triangulated category \(\mathcal M\) that is a module over a tensor triangulated category \((\mathcal K,\otimes ,1)\). Our purpose is to show that the space \(SMod^c(\mathcal M)\) of fixed points of the operator c is a spectral space that also carries the structure of a topological monoid.     

Zinc-mediated synthesis of 3-alkynyl-3-hydroxyindolin-2-ones by addition of iodoalkynes to isatins

An efficient and economical method was developed for synthesis of 3 alkynyl-3-hydroxyindolin-2-ones by addition of iodoalkynes to isatins using zinc dust.     

Autonomously-triggered microfluidic cooling using thermo-responsive hydrogels

We present autonomously-triggered on-chip microfluidic cooling devices that utilize thermo-responsive hydrogels to adapt to local environmental temperatures. An external rotating magnetic stirrer couples with an in situ fabricated nickel impeller in these centrifugal-based microfluidic cooling devices to recirculate cooler water. Temperature-responsive hydrogels, which exhibit volumetric expansion and contraction, are integrated at the axle of the impeller. In this design, the hydrogels behave similar to an automotive clutch, to autonomously control the impeller's rotation as a function of the local environmental temperature. Therefore, the hydrogels act as both sensors and actuators and help take away the necessity for additional temperature sensing, feedback, and/or control units here. Cooling devices capable of on-chip thermal management at multiple predetermined onset operation points are realized by changes to the composition of hydrogel to alter its lowest critical solution temperature (LCST). Furthermore, the effect of magnetic stirrer frequency on the fluid cooling and flowrates for different two-blade nickel impeller designs are presented.     

Evaluation of enzymatic activity on nanoscale polystyrene-block-polymethylmethacrylate diblock copolymer domains

Understanding structural and functional changes of polymeric surface-bound proteins is extremely important as polymers play an increasingly significant role as arrays and substrates in proteomics applications. We carried out, for the first time, quantitative activity measurements of horseradish peroxidase (HRP) enzymes immobilized selectively on the polystyrene domains of microphase-separated polystyrene-block-polymethylmethacrylate ultrathin films. The specific enzymatic activity of HRP adsorbed on the diblock copolymer surface was evaluated and compared to that of HRP in free solution. We demonstrate that the polymeric surface-bound HRP molecules maintain approximately 85% of their activity in free solution. The unique advantages of diblock copolymer templates, involving nanoscale self-assembly and largely retained protein functionality, make the spontaneously constructed enzyme nanoarrays highly suitable as proteomics substrates. Our novel assembly method of providing functional enzymes on diblock copolymer thin films can be greatly beneficial for high-throughput and high-density protein assays.