Structure-function analysis of an enzymatic prenyl transfer reaction identifies a reaction chamber with modifiable specificity

Fungal indole prenyltransferases participate in a multitude of biosynthetic pathways. Their ability to prenylate diverse substrates has attracted interest for potential use in chemoenzymatic synthesis. The fungal indole prenyltransferase FtmPT1 catalyzes the prenylation of brevianamide F in the biosynthesis of fumitremorgin-type alkaloids, which show diverse pharmacological activities and are promising candidates for the development of antitumor agents. Here, we report crystal structures of unliganded Aspergillus fumigatus FtmPT1 as well as of a ternary complex of FtmPT1 bound to brevianamide F and an analogue of its isoprenoid substrate dimethylallyl diphosphate. FtmPT1 assumes a rare α/β-barrel fold, consisting of 10 circularly arranged β-strands surrounded by α-helices. Catalysis is performed in a hydrophobic reaction chamber at the center of the barrel. In combination with mutagenesis experiments, our analysis of the liganded and unliganded structures provides insight into the mechanism of catalysis and the determinants of regiospecificity. Sequence conservation of key features indicates that all fungal indole prenyltransferases possess similar active site architectures. However, while the dimethylallyl diphosphate binding site is strictly conserved in these enzymes, subtle changes in the reaction chamber likely allow for the accommodation of diverse aromatic substrates for prenylation. In support of this concept, we were able to redirect the regioselectivity of FtmPT1 by a single mutation of glycine 115 to threonine. This finding provides support for a potential use of fungal indole prenyltransferases as modifiable bioreactors that can be engineered to catalyze highly specific prenyl transfer reactions.     

Comparison of protein precipitation methods for various rat brain structures prior to proteomic analysis

Sample preparation is a fundamental step in proteomic methodologies. The quality of the results from a proteomic experiment is dependent on the nature of the sample and the properties of the proteins. In this study, various pre-treatment methods were compared by proteomic analysis; we analysed various rat brain structures after chloroform/methanol, acetone, TCA/acetone and TCA protein precipitation procedures. The protein content of the supernatant was also examined by 2-DE. We found that for four of the rat brain structures, precipitation with chloroform/methanol and acetone delivered the highest protein recovery for top-down proteomic analysis; however, TCA precipitation resulted in good protein separation and the highest number of protein spots in 2-DE. Moreover, TCA precipitation also gave high efficiency of protein recovery if prior sonication procedure was performed.     

Note on Group Distance Magic Graphs G[C 4]

A group distance magic labeling or a ${\mathcal{G}}$ -distance magic labeling of a graph G =  (V, E) with ${|V | = n}$ is a bijection f from V to an Abelian group ${\mathcal{G}}$ of order n such that the weight ${w(x) = \sum_{y\in N_G(x)}f(y)}$ of every vertex ${x \in V}$ is equal to the same element ${\mu \in \mathcal{G}}$ , called the magic constant. In this paper we will show that if G is a graph of order n =  2 ^p (2k + 1) for some natural numbers p, k such that ${\deg(v)\equiv c \mod {2^{p+1}}}$ for some constant c for any ${v \in V(G)}$ , then there exists a ${\mathcal{G}}$ -distance magic labeling for any Abelian group ${\mathcal{G}}$ of order 4n for the composition G[C ₄]. Moreover we prove that if ${\mathcal{G}}$ is an arbitrary Abelian group of order 4n such that ${\mathcal{G} \cong \mathbb{Z}_2 \times\mathbb{Z}_2 \times \mathcal{A}}$ for some Abelian group ${\mathcal{A}}$ of order n, then there exists a ${\mathcal{G}}$ -distance magic labeling for any graph G[C ₄], where G is a graph of order n and n is an arbitrary natural number.     

Determination of formaldehyde and cyanide ion in human nasal discharge by using simple spectrophotometric methods

Environmental tobacco smoke (ETS) contains many toxic compounds which include substances classified as aldehydes (e.g. formaldehyde) and inorganic substances such as cyanide ions. The information on the determination of these compounds in water is available, but the monitoring data on the level of these substances in human body fluids are still lacking. In this work the procedure for determining cyanide ions and formaldehyde in samples of human nasal discharge by simple spectrophotometric technique is presented.     

New approach to the determination phosphorothioate oligonucleotides by ultra high performance liquid chromatography coupled with inductively coupled plasma mass spectrometry

This text presents a novel method for the separation and detection of phosphorothioate oligonucleotides with the use of ion pair ultra high performance liquid chromatography coupled with inductively coupled plasma mass spectrometry The research showed that hexafluoroisopropanol/triethylamine based mobile phases may be successfully used when liquid chromatography is coupled with such elemental detection. However, the concentration of both HFIP and TEA influences the final result. The lower concentration of HFIP, the lower the background in ICP-MS and the greater the sensitivity. The method applied for the analysis of serum samples was based on high resolution inductively coupled plasma mass spectrometry. Utilization of this method allows determination of fifty times lower quantity of phosphorothioate oligonucleotides than in the case of quadrupole mass analyzer. Monitoring of ³¹P may be used to quantify these compounds at the level of 80 μg L⁻¹, while simultaneous determination of sulfur is very useful for qualitative analysis. Moreover, the results presented in this paper demonstrate the practical applicability of coupling LC with ICP-MS in determining phosphorothioate oligonucleotides and their metabolites in serum within 7 min with a very good sensitivity. The method was linear in the concentration range between 0.2 and 3 mg L⁻¹. The limit of detection was in the range of 0.07 and 0.13 mg L⁻¹. Accuracy varied with concentration, but was in the range of 3%.     

Hydrotalcite-derived Co-containing mixed metal oxide catalysts for methanol incineration

The Co–Mg–Al mixed metal oxides were prepared by calcination of co-precipitated hydrotalcite-like precursors at various temperatures (600–800 °C), characterised with respect to chemical (AAS) and phase (XRD) composition, textural parameters (BET), form and aggregation of cobalt species (UV–vis-DRS) and their redox properties (H₂-TPR, cyclic voltammetry). Moreover, the process of thermal decomposition of hydrotalcite-like materials to mixed metal oxide systems was studied by thermogravimetric method combined with the analysis of gaseous decomposition products by mass spectrometry. Calcined hydrotalcite-like materials were tested as catalysts for methanol incineration. Catalytic performance of the oxides depended on cobalt content, Mg/Al ratio and calcination temperature. The catalysts with lower cobalt content, higher Mg/Al ratio and calcined at lower temperatures (600 or 700 °C) were less effective in the process of methanol incineration. In a series of the studied catalysts, the best results, with respect to high catalytic activity and selectivity to CO₂, were obtained for the mixed oxide with Co:Mg:Al molar ratio of 10:57:33 calcined at 800 °C. High activity of this catalyst was likely connected with the presence of a Co–Mg–Al spinel-type phases, containing easy reducible Co³⁺ cations, formed during high-temperature treatment of the hydrotalcite-like precursor.     

Determination of platinum and palladium in road dust after their separation on immobilized fungus by electrothermal atomic absorption spectrometry

A flow solid phase extraction procedure based on biosorption of Pt(IV) and Pd(II) on Aspergillus sp. immobilized on cellulose resin Cellex-T was proposed for the separation and preconcentration of Pt and Pd before their determination by electrothermal atomic absorption spectrometry (ETAAS). The analytical conditions including sample pH, eluent type, flow rates of sample and eluent solutions were examined. The analytes were selectively retained on the biosorbent in acidic medium (pH 1) and subsequently eluted from the column with 1 mL of thiourea solution (0.25 mol L^− 1 thiourea in 0.3 mol L^− 1 HCl). The reproducibility of the procedure was below 5%. The limit of detection of the method was 0.020 ng mL^− 1 for Pt and 0.012 ng mL^− 1 for Pd. The method validation was performed by analysis of certified reference materials BCR-723 (tunnel dust) and SARM-76 (platinum ore). The developed separation procedure was applied to the determination of Pt and Pd in road dust samples by ETAAS.The applied biosorbent is characterized by high sorption capacity: 0.47 mg g^− 1 for Pt and 1.24 mg g^− 1 for Pd.     

Effects of unsteadiness of the rates of flow on the dynamics of formation of droplets in microfluidic systems

Oscillations of the input rates of flow have a significant impact on the dynamics of formation of droplets in microfluidic systems and on the quality of generated emulsions.