Small molecule antagonists of cell-surface heparan sulfate and heparin–protein interactions

Surfen, bis-2-methyl-4-amino-quinolyl-6-carbamide, was previously reported as a small molecule antagonist of heparan sulfate (HS), a key cell-surface glycosaminoglycan found on all mammalian cells. To generate structure–activity relationships, a series of rationally designed surfen analogs was synthesized, where its dimeric structure, exocyclic amines, and urea linker region were modified to probe the role of each moiety in recognizing HS. An in vitro assay monitoring inhibition of fibroblast growth factor 2 binding to wild-type CHO cells was utilized to quantify interactions with cell surface HS. The dimeric molecular structure of surfen and its aminoquinoline ring systems was essential for its interaction with HS, and certain dimeric analogs displayed higher inhibitory potency than surfen and were also shown to block downstream FGF signaling in mouse embryonic fibroblast cells. These molecules were also able to antagonize other HS–protein interactions including the binding of soluble RAGE to HS. Importantly, selected molecules were shown to neutralize heparin and other heparinoids, including the synthetic pentasaccharide fondaparinux, in a factor Xa chromogenic assay and in vivo in mice. These results suggest that small molecule antagonists of heparan sulfate and heparin can be of therapeutic potential for the treatment of disorders involving glycosaminoglycan–protein interactions.     

Differentiation of 3-O-sulfated heparin disaccharide isomers: Identification of structural aspects of the heparin CCL2 binding motif

The presence of 3-O-sulfated glucosamine residues in heparin or heparan sulfate plays a role in binding to antithrombin III and HSV infection. In this study, tandem mass spectrometry was used to differentiate between two heparin disaccharide isomers containing variable sulfate at C6 in a common disaccharide and C3 in a more rare one. The dissociation patterns shown by MS² and MS³ were clearly distinguishable between the isomers, allowing their differentiation and quantitation. Using this technique, we show that an octasaccharide with 11 sulfate groups with high affinity for inflammatory chemokine CCL2 does not contain 3-O-sulfated disaccharides.     

Relative Thermodynamic Stabilities of Isomeric Vinyl Ethers Derived from 2-Acetyland 2-Isobutyryltetrahydrofurans. An Experimental and DFT Study

The relative thermodynamic stabilities of four isomeric vinyl ethers obtained by acid-catalyzed cleavage of MeOH from the dimethyl acetals of both 2-acetyltetrahydrofuran and 2-isobutyryltetrahydrofuran have been determined by chemical equilibration in cyclohexane solution. In addition, the structures and relative energies of many of these compounds have also been studied theoretically by DFT calculations. In each series of compounds, the endocyclic isomers, 5-(1-methoxyethyl)-2,3-dihydrofuran and 5-(1-methoxy-2-methylpropyl)-2,3-dihydrofuran, respectively, show the highest thermodynamic stabilities. This is particularly prominent for the vinyl ethers derived from 2-isobutyryltetrahydrofuran in which the equilibrium mixture consists of 90% of the endocyclic isomer at room temperature. The geometrical (exocyclic) isomers of the latter series of compounds show unexpected relative thermodynamic stabilities, but on the basis of the geometry-optimized structures provided by the DFT calculations, a reasonable explanation can be found.     

Linear viscoelastic models: Part II. Recovery of the molecular weight distribution using viscosity data

The constitutive models for the viscoelasticity of polymers are presented for determining molecular weight distributions (MWDs) from viscosity measurements. The inversion of this model derived from control theory and melt calibration procedure connects the relaxation modulus, viscosity, and other flow properties of a polymer. The linear principle enables simultaneous and accurate modelling of the relaxation modulus and of viscosity flow curves over a wide range. Starting from viscosity measurements, the new model is used to determine the MWD, linear viscoelastic relaxation moduli, and the relaxation spectra of polyethylene of different grades. In addition, two benchmark analyses of bimodal polystyrene are reported, and the capability of the model is proven by the two-box test of Malkin. The error of the modelled viscosity is smaller than that for previously reported models. One of the main features of this work is that no relaxation time or spectrum procedures were used to generate and model linear viscoelasticity.     

Propagation of spatially partially coherent emission from a vertical-cavity surface-emitting laser

Recently we observed a strong reduction of spatial coherence of the emission of large-aperture vertical-cavity surface-emitting lasers when they are driven by microsecond electrical pulses [Opt. Express 13, 9337 (2005)]. We study the influence of this partial spatial coherence on the propagation characteristics. The spatial decoherence manifests itself in the formation of a Gaussian far-field intensity distribution. We measure the transverse pulse profile from near to far field and see that the shape-invariant far-field regime starts after 140 microm in the pulsed regime as opposed to several centimeters in continuous wave operation. This value matches quantitatively calculations made with a novel partially coherent propagation model without any free fitting parameters.     

Estimation of the Relative Stabilities of the E,Z-Isomers of α,β-Dialkylsubstituted Methyl Vinyl Ethers by Various Computational Methods

The relative thermodynamic stabilities (relative enthalpies) of the E,Z-isomers of ,-dialkylsubstituted methyl vinyl ethers MeOC(R₁)=CHR₂ have been estimated by various computational methods including molecular mechanics, semiempirical, ab initio, and DFT calculations. The best performance, approaching the accuracy of the experimental method of chemical equilibration, is shown by the DFT calculations. Ab initio methods, provided that electron correlation is taken into account, are also satisfactory, but clearly less successful than the DFT calculations. The reliability of the semiempirical methods AM1 and PM3 is considerably less good, and varies in an unpredictable manner from case to case. The poorest general performance is shown by the MM2 and MM3 calculations, which may overestimate the relative stability of the Z isomer by as much as 18 kJ mol^–1.     

In Situ Observation of C−C Coupling and Step Poisoning During the Growth of Hydrocarbon Chains on Ni(111)

The synthesis of high-value fuels and plastics starting from small hydrocarbon molecules plays a central role in the current transition towards renewable energy. However, the detailed mechanisms driving the growth of hydrocarbon chains remain to a large extent unknown. Here we investigated the formation of hydrocarbon chains resulting from acetylene polymerization on a Ni(111) model catalyst surface. Exploiting X-ray photoelectron spectroscopy up to near-ambient pressures, the intermediate species and reaction products have been identified. Complementary in situ scanning tunneling microscopy observations shed light onto the C−C coupling mechanism. While the step edges of the metal catalyst are commonly assumed to be the active sites for the C−C coupling, we showed that the polymerization occurs instead on the flat terraces of the metallic surface.     

Relative Thermodynamic Stabilities of Isomeric Dimethyl Acetals Derived from 2-Acetyltetrahydrofuran. An Experimental and Computational Study

In the presence of an acid catalyst, the dimethyl acetal of 2-acetyltetrahydrofuran (1) is converted into a mixture of three isomeric acetals composed of the reactant and two diastereomers of 2-methoxy-2-(1-methoxyethyl)tetrahydrofuran (2). The relative thermodynamic stabilities of these acetals have now been determined by chemical equilibration. The least stable isomer is 1, in the liquid phase 4–6 kJ mol^–1 less stable than the two diastereomers. The geometry-optimized structures and relative energies of the title compounds were also studied by theoretical calculations (ab initio and DFT). Comparison of the theoretically determined relative stabilities of the diastereomers with the corresponding experimental data suggests the more volatile (and more stable) diastereomer to exist as a racemic mixture of the (R,S) and (S,R) configurations.