Synthesis of a giant 222 carbon graphite sheet

In this paper we present the synthesis and characterization of the so far largest polycyclic aromatic hydrocarbon (PAH), containing 222 carbon atoms or 37 separate benzene units. First a suitable three-dimensional oligophenylene precursor molecule is built up by a sequence of Diels-Alder and cyclotrimerization reactions and then planarized in the final step by oxidative cyclodehydrogenation to the corresponding hexagonal PAH. Structural proof is based on isotopically resolved MALDI-TOF mass spectra and electronic characteristics are studied by UV/Vis spectroscopy.     

Tripeptides adopt stable structures in water. A combined polarized visible Raman,FTIR, and VCD spectroscopy study

We have measured the band profile of amide I in the infrared, isotropic, and anisotropic Raman spectra of L-alanyl-D-alanyl-L-alanine, acetyl-L-alanyl-L-alanine, L-vanyl-L-vanyl-L-valine, L-seryl-L-seryl-L-serine, and L-lysyl-L-lysyl-L-lysine at acid, neutral, and alkaline pD. The respective intensity ratios of the two amide I bands depend on the excitonic coupling between the amide I modes of the peptide group. These intensity ratios were obtained from a self-consistent spectral decomposition and then were used to determine the dihedral angles between the two peptide groups by means of a recently developed algorithm (Schweitzer-Stenner, R. Biophys. J. 2002, 83, 523-532). The validity of the obtained structures were checked by measuring and analyzing the vibrational circular dichroism of the two amide I bands. Thus, we found two solutions for all protonation states of trialanine. Assuming a single conformer, one obtains a very extended beta-helix-like structure. Alternatively, the data can be explained by the coexistence of a 3(1)(PII) and a beta-sheet-like structure. Acetyl-L-alanyl-L-alanine exhibits a structure which is very similar to that obtained for trialanine. The tripeptide with the central D-alanine adopts an extended structure with a negative psi and a positive phi angle. Trivaline and triserine adopt single beta(2)-like structures such as that identified in the energy landscape of the alanine dipeptide. Trilysine appears different from the other investigated homopeptides in that it adopts a left-handed helix which at acid pD is in part stabilized by hydrogen bonding between the protonated carboxylate (donor) and the N-terminal peptide carbonyl. Our result provides compelling evidence for the capability of short peptides to adopt stable structures in an aqueous solution, which at least to some extent reflect the intrinsic structural propensity of the respective amino acids in proteins. Furthermore, this paper convincingly demonstrates that the combination of different vibrational spectroscopies provides a powerful tool for the determination of the secondary structure of peptides in solution.     

2-pyridones from cyanoacetamides and enecarbonyl compounds: application to the synthesis of nothapodytine B

The condensation of an enone or enal with cyanoacetamide derivatives and t-BuOK furnishes either 3-cyano-2-pyridones or 3-unsubstituted-2-pyridones, depending on whether the reaction is carried out in the presence or in the absence of O(2). In the first case, in situ oxidation of Michael-type intermediates takes place; in the second case, the products result from "decyanidative aromatization" of such intermediates. A one-step synthesis of 3-alkyl-2-pyridones has been devised on the basis of decyanative union of an enone/enal and a 2-alkylcyanoacetamide. The new reaction forms the centerpiece of an unusually concise synthesis of nothapodytine B (mappicine ketone).     

Synthesis and coordination chemistry of a water-soluble verdazyl radical. structures and magnetic properties of M(H2O)2(vdCO2)(2).2H2O (M = Co,Ni; vdCO2 = 1,5-dimethyl-6-oxo-verdazyl-3-carboxylate)

The synthesis of a verdazyl radical with a carboxylate substituent renders the radical highly soluble in water, thereby permitting the aqueous synthesis of Ni(II) and Co(II) verdazyl complexes which have been structurally and magnetically characterized.     

A new class of macrocyclic complexes formed via nickel-promoted macrocyclisation of dioxime with dinitrile

o-Phthalonitrile couples with chelating dioxime on nickel(II), with formation of a dinuclear nickel(II) macrocyclic complex--the first representative of a new class of imine-appended macrocycles.     

Speckle detection for 3D ultrasound

Positioning accuracy of 3D ultrasound slice planes can be enhanced by speckle decorrelation of the B-scans. A suitable method requires accurate identification of zones of non-specular reflection in the image, a feature of parenchymal tissue. This has traditionally been achieved with statistics such as signal-to-noise ratios and measures of autocorrelation curves. Co-occurrence matrices and structural approaches have also been applied to ultrasound images. In this paper we assess the performance of these methods when only B-scan display data is available. We also report improved results with in vivo images using a proposed structural algorithm that detects speckle kernels. All detection algorithms yielded detection error rates between 28% and 38%, suggesting that user intervention may be required for clinically useful performance.     

Intrinsic aging and effective viscosity in the slow dynamics of a soft glass with tunable elasticity

We investigate by rheology and light scattering the influence of the elastic modulus, G0, on the slow dynamics and the aging of a soft glass. We show that the slow dynamics and the aging can be entirely described by the evolution of an effective viscosity, eta(eff), defined as the characteristic time measured in a stress relaxation experiment times G0. At all times, eta(eff) is found to be independent of G0, of elastic perturbations, and of the rate at which the sample is quenched in the glassy phase. We propose a simple model that links eta(eff) to the internal stress built up at the fluid-to-solid transition.     

Synthesis of (Ca,Ce,Ce)2Ti2O7: a pyrochlore with mixed-valence cerium

Pyrochlore with mixed-valence Ce was synthesized by firing and annealing Ce(NO₃)₄, TiO₂, and Ca(OH)₂ with a stoichiometry of CaCeTi₂O₇ at 1300 °C. The product contains Ce-pyrochlore, Ce-rich perovskite, CeO₂ (cerianite), and minor CaO. Electron energy-loss spectroscopy (EELS) revealed both Ce⁴⁺ and Ce³⁺ in the Ce-pyrochlore with a Ce⁴⁺ to total Ce (Ce⁴⁺/ΣCe) of 0.80 giving . Cerium in the perovskite and cerianite is dominated by Ce³⁺ and Ce⁴⁺, respectively. High-resolution transmission electron microscope (HRTEM) images show that the boundary between Ce-pyrochlore and Ce-rich perovskite is semi-coherently bonded. The orientational relationship between the neighboring Ce-pyrochlore and Ce-rich perovskite is not random. Ce-pyrochlore (CaCeTi₂O₇) is a chemical analogue for CaPuTi₂O₇, which is a proposed ceramic waste form for deposition of excess weapons-usable Pu in geological repositories. It is postulated, based on the presence of Ce³⁺ in the Ce-pyrochlore, that neutron poisons such as Gd can be incorporated into the CaPuTi₂O₇ phase.     

Flow linear dichroism to probe binding of aromatic molecules and DNA to single-walled carbon nanotubes

Structures of carbon nanotube/ligand complexes were studied by flow linear dichroism (the differential absorption of light polarized parallel and perpendicular to the flow orientation direction) with the aim of establishing linear dichroism as a technique to study such systems. Anthracene, naphthalene, and DNA were chosen as ligands, and the potential for flow linear dichroism to probe ligands noncovalently (as well as covalently) bound to single-walled nanotubes is reported. Linear dichroism enables the determination of approximate orientations of the ligands on the carbon nanotubes.     

Use of electron density critical points as chemical function-based reduced representations of pharmacological ligands

In this paper, we propose a reduced representation of molecules of pharmacological interest based on their chemical functions. The proposed representations of the molecules are obtained by a topological analysis of their electron density maps at medium resolution, leading to graphs of critical points. The distribution of the different types of critical points are compared at various levels of resolution for a training set of 22 molecules in order to define the optimal resolution level leading to the best representation of the various chemical functions. The reduced representations can in the future be used for molecular similarity research and pharmacophore proposals.