Comparative study of Factor Xa fluorogenic substrates and their influence on the quantification of LMWHs

Low molecular weight heparins (LMWHs) are recognised as the preferred anticoagulants in the prevention and treatment of venous thromboembolism. Anti-Factor Xa (anti-FXa) levels are used to monitor the anticoagulant effect of LMWHs and such assays are routinely employed in hospital diagnostic laboratories. In this study, a fluorogenic anti-FXa assay was developed using a commercially available fluorogenic substrate with an attached 6-amino-1-naphthalene-sulfonamide (ANSN) fluorophore and was used for the determination of two LMWHs, enoxaparin and tinzaparin and the heparinoid, danaparoid. The assay was based on the complexation of heparinised plasma with 100 nM exogenous FXa and 25 μM of the fluorogenic substrate Mes-D-LGR-ANSN (C₂H₅)₂ (SN-7). The assay was tested with pooled plasma samples spiked with anticoagulant concentrations in the range 0–1.6 U mL⁻¹. The statistically sensitive assay range was 0–0.4 U mL⁻¹ for enoxaparin and tinzaparin and 0–0.2 U mL⁻¹ for danaparoid, with assay variation typically below 10.5%. This assay was then compared with a previously published fluorogenic anti-FXa assay developed with the peptide substrate, methylsulfonyl-d-cyclohexylalanyl-glycyl-arginine-7-amino-4-methylcoumarin acetate (Pefafluor FXa). Both assays were compared in terms of fluorescence intensity, lag times and sensitivity to anticoagulants.     

Comparative study of the cationic surfactants and their influence on the alkaline hydrolysis of acetylsalicylic acid

A kinetic study of the reaction of acetylsalicylic acid (aspirin) with sodium hydroxide has been studied in the presence of some conventional and novel cationic surfactants. The pseudo‐first‐order rate constant increases with the surfactant concentration initially and then decreases. In comparison to conventional cationic surfactants, i.e., cetyltrimethylammonium bromide and cetylpyridinium bromide, novel alkyldiethylethanolammonium bromide (R = C₁₆) surfactant accelerated the alkaline hydrolysis significantly. The pseudophase ion‐exchange model has been applied to fit the experimental results. Activation parameters have also been evaluated. © 2010 Wiley Periodicals, Inc. Int J Chem Kinet 43: 1–8, 2011     

In vitro coupled transcription translation: effects of modification in lysate preparation on protein composition and biosynthesis activity

Cell-free extracts (lysates) from Escherichia coli were used for protein synthesis in vitro. Essential steps of the lysate preparation were modified and analyzed with respect to their impact on in vitro protein synthesis capacity, using the green fluorescent protein (GFP) as a target protein. Variably manufactured lysates of low, medium and higher protein synthesis activity, were examined by high resolution two-dimensional gel electrophoresis to determine whether the modifications result in substantial alterations in protein composition of the final lysate. The total number of proteins calculated from the gel maps did not vary for lysates with different activity and thus cannot serve as an evaluation parameter. Ribosomal proteins RP-S1, RP-L9, and RP-L10 were found in stoichiometric amounts for each of these lysates and in equal concentrations in comparison among the different lysates. Conversely, depending on the activity profiles, up to 7 different isoforms of the elongation factor EF-Ts were detected in the gel maps.     

Comparative study of the in vitro bioactivities of Bupleurum rigidum and B. fruticescens

Decoctions of the aerial parts of either Bupleurum rigidum or B. fruticescens are equally used in certain parts of Spain for the treatment of topical and musculoskeletal inflammations. In the present paper, their phytochemical profile and pharmacological value has been compared. After chromatographic and spectral analyses we could establish the presence of rutin and absence of chlorogenic acid in B. fruticescens, whilst the contrary applies to B. rigidum, providing a means to chemically differentiate extracts and dry materials from the two species. Their free radical scavenging and antiperoxidative activities were similar, with B. fruticescens being more active overall. The infusions of both Bupleurum species also showed similar anti-inflammatory activity when tested by NF-kappaB assay (40% and 42% at 60 microg x mL(-1)), as well as in a hexosaminidase exocytosis assay (30% at 50 microg x mL(-1)). Antimigratory effects on rat melanoma B16F10 showed significant activity for both infusions, with B. rigidum twice as potent as B. fruticescens, the activity of the latter not being fully explained by its content of rutin. Taking all these results together, we can conclude that, in the selected experimental models, there exist an in vitro bioequivalence of the infusions from both species, which is in agreement with the majority of ethnopharmacological reports.     

Influence of nitrogen and phosphorus on thein situ bioremediation of trichloroethylene

Applied Biochemistry and Biotechnology - The US Department of Energy, Office of Technology Development, has supported a field-scalein situ demonstration of trichloroethylene (TCE) bioremediation at...     

In vitro biosynthesis of the antitumor agent azinomycin B

[reaction: see text] Azinomycins have potential therapeutic value as antitumor agents; however, their biosynthesis is poorly understood. Here, we provide the first demonstration of a protein cell-free system capable of supporting complete in vitro biosynthesis of the antitumor agent azinomycin B. The cell-free system is utilized to probe the cofactor dependence and substrate requirements of the pathway en route to azinomycin.     

Synthesis of metalloprotein complexes and study of the influence of metal ions on the structure of a carrier protein

The results are given of an investigation on the synthesis of protein conjugates with a number of metals differing by their valence and electronic state, and on their immunocompetence.Translated from Khimiya Prirodnykh Soedinenii, No. 4, pp. 510–511, July–August, 1999.     

Analogue chromophore study of the influence of electronic perturbation on color regulation of photoactive yellow protein

We report a unique lambdamax shift of the absorption maximum of a photoactive yellow protein (PYP) analogue reconstituted with a fluorinated chromophore (F-PYP). The difference in lambdamax between the free chromophore and the protein was significantly larger than that with the native chromophore. We concluded that the unusual lambdamax shift is caused by the electronegative character of the fluorine atom and not by steric hindrance. This result suggests that formation of a hydrogen bond between the fluorine atom and one or more amino acid residues could neutralize its electron-withdrawing character. The properties of analogues of PYP with brominated and methylated chromophore could be explained as an effect of steric hindrance.     

Acetylation of the HIV-1 Tat protein: an in vitro study

In the last few years, the understanding of lysine acetylation as a regulatory post-translational modification of proteins in cell signalling cascades has increased. It is now known that not only histones but also non-histone factors can serve as substrates of different acetyltransferase enzymes. Acetylated lysine residues in non-histone factors are often identified using radioactive labelling experiments and immunochemical analysis of synthetic peptides. In this study of the human immunodeficiency virus 1 (HIV-1) Tat protein, we demonstrate the benefits of matrix-assisted laser desorption/ionisation mass spectrometry, proteolytic digestion and Edman sequencing for the mapping of acetylation sites. We confirmed that the HIV-1 Tat protein is acetylated in vitro by the acetyltransferase p300 at a specific lysine residue at position 50 in its RNA binding region. Furthermore, we showed that the Tat cysteine-rich region is acetylated at multiple cysteine residues in the absence of enzyme. Since this non-enzymatic cysteine acetylation occurs independently from the surrounding peptide sequence, we consider the presence of cysteine residues in acetylated peptides an important factor for the interpretation of in vitro acetylation assays in general.Abbreviations aa Amino acid - AcCoA Acetyl coenzyme A - acm Acetamidomethyl - ARM Arginine-rich motif - CRR Cysteine-rich region - HAT Histone acetyltransferaseThis article is dedicated to Harald zur Hausen on the occasion of his retirement as head of the German Cancer Research Center (Deutsches Krebsforschungszentrum) with gratitude and appreciation for 20 years of leadership     

Physico-chemical characteristics and protein adsorption potential of hydroxyapatite particles: influence on in vitro biocompatibility of ceramics after sintering

Through the example of two HA ceramics prepared from two HA powders (HAD and HAL), we explored the relation between the physico-chemical qualities of the initial HA powder and the final HA ceramic and their influence on the protein adsorption and cell response to the final HA ceramics. The powders were characterized by XRD, FT-IR, zeta potential, and specific surface area (SSA). Their protein adsorption potential was tested after immersion in culture medium +15% of fetal calf serum. These results were correlated with the protein adsorption potential of the two ceramics (cHAD and cHAL) prepared from the HAD and HAL powders respectively and to the cell attachment after 4, 24 and 72 h on the ceramics. From our results, it appears that a relation can be established between the physico-chemical characteristics of the initial HA powders and the final biological response to the sintered ceramics prepared from these powders. An inverse relation exists between the SSA and the protein adsorption capacity of HA powders and the protein adsorption and cell attachment on HA ceramics. This inverse relation is related to phenomenon occurring during the sintering phase and the formation of inter-granular micro-porosity.     

Comparative study of the prereactive protein kinase A Michaelis complex with Kemptide substrate

In the present work we have modeled the Michaelis complex of the cyclic-Adenosine Monophosphate Dependent (cAMD) Protein Kinase A (PKA) with Mg(2)ATP and the heptapeptide substrate Kemptide by classical molecular dynamics. The chosen synthetic substrate is relevant for its high efficiency and small size, and it has not been used in previous theoretical studies. The structural analysis of the data generated along the 6 ns simulation indicates that the modeled substrate-enzyme complex mimics the substrate binding pattern known for PKA. The values of the average prereactive distances obtained from the simulation do not exclude any of the two limiting situations proposed as mechanisms in the literature for the phosphorylation reaction (dissociative and associative) because the system oscillates between configurations compatible with each of them. Furthermore, the results obtained for the average interaction distances between active site residues concord in suggesting the plausibility of an alternative third reaction mechanism.     

Modelling toxin effects on protein biosynthesis in eukaryotic cells

We present a rather generic model for toxin (ricin) inhibition of protein biosynthesis in eukaryotic cells. We also study reduction of the ricin toxic effects with application of antibodies against the RTB subunit of ricin molecules. Both species initially are delivered extracellularly. The model accounts for the pinocytotic and receptor-mediated toxin endocytosis and the intact toxin exocytotic removal out of the cell. The model also includes the lysosomal toxin destruction, the intact toxin motion to the endoplasmic reticulum (ER) for separation of its molecules into the RTA and RTB subunits, and the RTA chain translocation into the cytosol. In the cytosol, one portion of the RTA undergoes degradation via the ERAD. The other its portion can inactivate ribosomes at a large rate. The model is based on a system of deterministic ODEs. The influence of the kinetic parameters on the protein concentration and antibody protection factor is studied in detail.     

Comparative study of structure and properties of nucleoproteides synthesized using plant virus coat protein

The self-assembly of virus-like artificial particles from the coat protein of a helical virus (potato virus X) and nucleic acids (RNA and DNA) is studied. The structure and properties of the particles are investigated by transmission electron microscopy, atomic force microscopy, and enzymatic analysis.     

Comparative computational and experimental study on the thermochemistry of the chloropyrimidines

The standard (p0 = 0.1 MPa) molar enthalpies of formation, Delta fH(0)(M), for liquid 2,4,6-trichloropyrimidine and for crystalline 2-chloropyrimidine, 2,4- and 4,6-dichloropyrimidine, and 2,4,5,6-tetrachloropyrimidine compounds were determined at T = 298.15 K by rotating-bomb combustion calorimetry. The standard molar enthalpies of vaporization or sublimation, Delta (g)(cr,l) H(0)(M), of these compounds at T = 298.15 K were determined by Calvet microcalorimetry. The experimental standard molar enthalpies of formation of those compounds, in the gaseous state, at T = 298.15 K, were thus obtained by combining these two sets of results. The latter values have been employed in the calibration of the computational procedure, which has been used to estimate the gas-phase enthalpies of formation for the other chloropyrimidines that were not possible to obtain in a pure form for the experimental study. It is found that the exchange-correlation functional based on the local spin density approximation (LSDA) seems to be a cheap choice for the estimation of enthalpies of formation for heterocycles containing nitrogen atoms; the well-known B3LYP hybrid method yields larger differences, with respect to the experimental values, for 2,4,6-tri- and 2,4,5,6-tetrachloropyrimidines.     

In vitro biosynthesis,isolation, and activities of nuclear glycoproteins

It has been shown by HPLC, electrophoresis, etc., that, in vitro, the nuclei of neurons of rabbit and cow brains synthesize two glycoproteins (M 25–30 kDa and 10–15 kDa). The influence of some neurotropic compounds on the kinetics of the nuclear protein synthesis has been investigated. New inhibitors of this biosynthesis have been found.A. S. Sadykov Institute of Bioorganic Chemistry, Academy of Sciences of the Republic of Uzbekistan, Tashkent, fax 627071. Translated from Khimiya Prirodnykh Soedinenii, No. 1, pp. 112–118, January–February, 1994.