Lanthanide chloride complexes of amine-bis(phenolate) ligands and their reactivity in the ring-opening polymerization of epsilon-caprolactone

Reaction of two equivalents of n-BuLi with sterically demanding amine-bis(phenol) compounds, H(2)O(2)NN'(R) (Me(2)NCH(2)CH(2)N{CH(2)-3,5-R(2)-C(6)H(2)OH}(2); R = t-Bu or t-Pe (tert-pentyl)) yields isolable lithium complexes, Li(2)(O(2)NN'(R)), in good yields. Upon reaction with one equivalent of LnCl(3)(THF)(x), the lithium salts afford rare earth amine-phenolate chloride complexes in good yields, Ln(O(2)NN'(R))Cl(THF); Ln = Y, Yb, Ho, Gd, Sm, Pr. Crystals of Y(O(2)NN'(t-Bu))Cl(THF), 1, and Sm(O(2)NN'(t-Bu))Cl(DME), 2, suitable for single crystal X-ray crystallographic analysis were obtained. In contrast to previously reported [{Gd(O(2)NN'(t-Pe))(THF)(micro-Cl)}(2)] and related La and Sm complexes, these species are monomeric. 1 contains Y in a distorted octahedral environment bonded to two amine, two phenolate, one THF and one chloride donor. 2 contains Sm in a distorted capped trigonal prismatic environment bonded to two amine, two phenolate, two DME oxygens and one chloride donor. The Ln(O(2)NN'(t-Pe))Cl(THF) complexes were active initators for the controlled ring-opening polymerization of epsilon-caprolactone with a tendency to form low molecular weight cyclic polyesters (M(n) 3000-5000). The conversion rates, although slower than related amido and alkyl species, were different for monomeric and dimeric initiators. The size of the metal centre also affected the conversions and the molecular weights achieved.     

Stapled Peptides as HIF-1α/p300 Inhibitors: Helicity Enhancement in the Bound State Increases Inhibitory Potency

Protein–protein interactions (PPIs) control virtually all cellular processes and have thus emerged as potential targets for development of molecular therapeutics. Peptide-based inhibitors of PPIs are attractive given that they offer recognition potency and selectivity features that are ideal for function, yet, they do not predominantly populate the bioactive conformation, frequently suffer from poor cellular uptake and are easily degraded, for example, by proteases. The constraint of peptides in a bioactive conformation has emerged as a promising strategy to mitigate against these liabilities. In this work, using peptides derived from hypoxia-inducible factor 1 (HIF-1α) together with dibromomaleimide stapling, we identify constrained peptide inhibitors of the HIF-1α/p300 interaction that are more potent than their unconstrained sequences. Contrary to expectation, the increased potency does not correlate with an increased population of an α-helical conformation in the unbound state as demonstrated by experimental circular dichroism analysis. Rather, the ability of the peptide to adopt a bioactive α-helical conformation in the p300 bound state is better supported in the constrained variant as demonstrated by molecular dynamics simulations and circular dichroism difference spectra.     

Cocoa Shell as a Step Forward to Functional Chocolates—Bioactive Components in Chocolates with Different Composition

Chocolate is considered as both caloric and functional food. Its nutritional properties may be improved by addition of fiber; however, this may reduce polyphenols content. The aim of this research was to determine the influence of cocoa shell addition (as a source of fiber) and its combination with different ingredients (cocoa butter equivalents (CBE), emulsifiers, dairy ingredients) on polyphenols of dark and milk chocolates. Total polyphenol (TPC) and total flavonoid (TFC) contents were determined spectrophotometrically, identification and quantification of individual compounds by high pressure liquid chromatography and antioxidant capacity by ferric reducing antioxidant power (FRAP) assay. Results showed that even though addition of cocoa shell to chocolate results in reduced contents of TPC, TFC, and individual compounds, it is not significant compared to ones reported by other authors for commercial chocolates. Other ingredients influence determined values for all investigated parameters; however, additional research is needed to reveal exact mechanisms and implications.     

Sensitizing the Sensitizer: The Synthesis and Photophysical Study of Bodipy-Pt(II)(diimine)(dithiolate) Conjugates

The dyads 3, 4, and 6, combining the Bodipy chromophore with a Pt(bpy)(bdt) (bpy = 2,2'-bipyridine, bdt = 1,2-benzenedithiolate, 3 and 6) or a Pt(bpy)(mnt) (mnt = maleonitriledithiolate, 4) moiety, have been synthesized and studied by UV-vis steady-state absorption, transient absorption, and emission spectroscopies and cyclic voltammetry. Comparison of the absorption spectra and cyclic voltammograms of dyads 3, 4, and 6 and those of their model compounds 1a, 2, 5, and 7 shows that the spectroscopic and electrochemical properties of the dyads are essentially the sum of their constituent chromophores, indicating negligible interaction of the constituent chromophores in the ground state. However, emission studies on 3 and 6 show a complete absence of both Bodipy-based fluorescence and the characteristic luminescence of the Pt(bpy)(bdt) unit. Dyad 4 shows a weak Pt(mnt)-based emission. Transient absorption studies show that excitation of the dyads into the Bodipy-based (1)ππ* excited state is followed by singlet energy transfer (SEnT) to the Pt(dithiolate)-based (1)MMLL'CT (mixed metal-ligand to ligand charge transfer) excited state ([Formula: see text] = 0.6 ps, [Formula: see text] = 0.5 ps, and [Formula: see text] = 1.6 ps), which undergoes rapid intersystem crossing to the (3)MMLL'CT state due to the heavy Pt(II) ion. The (3)MMLL'CT state is then depopulated by triplet energy transfer (TEnT) to the low-lying Bodipy-based (3)ππ* excited state ([Formula: see text] = 8.2 ps, [Formula: see text] = 5 ps, and [Formula: see text] = 160 ps). The transition assignments are supported by TD-DFT calculations. Both energy-transfer processes are shown to proceed via a Dexter electron exchange mechanism. The much longer time constants for dyad 6 relative to 3 are attributed to the significantly poorer coupling and resonance of charge-separated species that are intermediates in the electron exchange process.     

Development of 7TM receptor-ligand complex models using ligand-biased, semi-empirical helix-bundle repacking in torsion space: application to the agonist interaction of the human dopamine D2 receptor

Prediction of 3D structures of membrane proteins, and of G-protein coupled receptors (GPCRs) in particular, is motivated by their importance in biological systems and the difficulties associated with experimental structure determination. In the present study, a novel method for the prediction of 3D structures of the membrane-embedded region of helical membrane proteins is presented. A large pool of candidate models are produced by repacking of the helices of a homology model using Monte Carlo sampling in torsion space, followed by ranking based on their geometric and ligand-binding properties. The trajectory is directed by weak initial restraints to orient helices towards the original model to improve computation efficiency, and by a ligand to guide the receptor towards a chosen conformational state. The method was validated by construction of the β₁ adrenergic receptor model in complex with (S)-cyanopindolol using bovine rhodopsin as template. In addition, models of the dopamine D₂ receptor were produced with the selective and rigid agonist (R)-N-propylapomorphine ((R)-NPA) present. A second quality assessment was implemented by evaluating the results from docking of a library of 29 ligands with known activity, which further discriminated between receptor models. Agonist binding and recognition by the dopamine D₂ receptor is interpreted using the 3D structure model resulting from the approach. This method has a potential for modeling of all types of helical transmembrane proteins for which a structural template with sequence homology sufficient for homology modeling is not available or is in an incorrect conformational state, but for which sufficient empirical information is accessible.     

Spider silk and amyloid fibrils: a structural comparison

Although spider silks have been studied for decades, the assembly properties of the underlying silk proteins have still not been unravelled. Previously, the detection of amyloid-like nanofibrils in the spider's silk gland suggested their involvement in the assembly process.Recombinantly produced spider silk also self-assembles into nanofibrils. In order to investigate the structural properties of such silk nanofibrils in more detail, they have been compared to amyloid-like fibrils to highlight structural similarities.     

Intracellular Delivery and Triggered Release of DNA Using Biodegradable Poly(2‐hydroxypropylene imine)s Containing Cystamine Units

Poly(2‐hydroxypropylene imine)s containing segments of cystamine (PHPI‐CA) are synthesized by polycondensation of 1,3‐dibromo‐2‐propanol with a mixture of 1,3‐diamino‐2‐propanol and cystamine. High molecular weight fractions of these polymers are collected by ultrafiltration and characterized by chemical analysis, ¹H and ¹³C‐NMR spectroscopy, size‐exclusion chromatography with triple detection, and potentiometric titration, and are tested for DNA delivery in vitro. It is shown that PHPI‐CA are highly branched polymers containing disulfide linkages. Transfection efficiency of PHPI‐CA for DNA gives similar results to that of PHPI with GFP⁺ cell percent reaching 80–90%. Cytotoxicity levels for PHPI‐CA are lower than that of PHPI. Novel polymers containing different amounts of disulfide linkages are able to disintegrate and release DNA following the treatment with reducing agent 1,4‐dithiothreitol. Downstream application of PHPI‐CA transfected cells for RNA purification shows that RNA yield is not affected even after the double transfection suggesting that these polymers could be great candidates for in vitro and in vivo transfection.

     

Calculation of measurement uncertainty in quantitative analysis of genetically modified organisms using intermediate precision--a practical approach

Quantitative characterization of nucleic acids is becoming a frequently used method in routine analysis of biological samples, one use being the detection of genetically modified organisms (GMOs). Measurement uncertainty is an important factor to be considered in these analyses, especially where precise thresholds are set in regulations. Intermediate precision, defined as a measure between repeatability and reproducibility, is a parameter describing the real situation in laboratories dealing with quantitative aspects of molecular biology methods. In this paper, we describe the top-down approach to calculating measurement uncertainty, using intermediate precision, in routine GMO testing of food and feed samples. We illustrate its practicability in defining compliance of results with regulations. The method described is also applicable to other molecular methods for a variety of laboratory diagnostics where quantitative characterization of nucleic acids is needed.