Distorted wave Born and three-body distorted wave Born approximation calculations of the fully differential cross section for electron-impact ionization of nitrogen molecules

Currently there are no reliable theoretical approaches for calculating fully differential cross sections (FDCSs) for low-energy electron-impact ionization of large molecules. We have recently proposed the orientation-averaged molecular orbital (OAMO) for calculating cross sections averaged over molecular orientations. In this paper, we use the OAMO to calculate distorted wave Born approximation (DWBA) and molecular three-body distorted wave (M3DW) Born approximation FDCS for electron-impact ionization of the nitrogen molecule. Both coplanar symmetric and asymmetric FDCSs are investigated in the energy range of 35.6-400 eV. By comparing with the experimental data, we found that the M3DW is reasonably accurate in this energy range. We also found that the postcollision interaction plays a sufficiently important role and that the DWBA is not reliable.     

A novel single particle study of steam gasification kinetics of a coal-derived char at high temperatures and pressures

A novel single particle experiment was developed to allow for detailed char gasification measurements in pure steam at temperatures from 1000 °C to 1400  °C and pressures from 1  bar to 15  bar. A coal-derived activated carbon was thoroughly characterized with respect to its composition, physical structure, and reactivity revealing properties consistent with chars reported in the literature. The single particle approach allowed for the boundary and initial conditions to be well known and for the mass of the particle to be accurately measured before and after testing to provide high-quality conversion data. The resulting conversion data were analyzed using the random pore model and the shrinking core model, of which the random pore model provided the best fit. Apparent activation energies were calculated using the random pore model which provided values ranging from 57.1 kJ/mol to 129 kJ/mol which are nominally half of the magnitude of the values reported in the literature under kinetically controlled conditions, thus demonstrating that regime II conditions were present. Additionally, the activation energies decreased with increasing temperature further demonstrating the presence of regime II conditions. The calculated reaction order ranged from 0 to 0.5 and decreased with increasing pressure agreeing well with literature values and trends.     

Synthesis and Properties of 2,3-Diethynyl-1,3-Butadienes

The first general preparative access to compounds of the 2,3-diethynyl-1,3-butadiene (DEBD) class is reported. The synthesis involves a one-pot, twofold Sonogashira-type, Pd⁰-catalyzed coupling of two terminal alkynes and a carbonate derivative of a 2-butyne-1,4-diol. The synthesis is broad in scope and members of this structural family are kinetically stable enough to be handled using standard laboratory techniques at ambient temperature. They decompose primarily through heat-promoted cyclodimerizations, which are impeded by alkyl substitution and accelerated by aryl or alkenyl substitution. An iterative sequence of these unprecedented Sonogashira-type couplings generates a new type of expanded dendralene. A suitably substituted DEBD carrying two terminal alkyne groups undergoes Glaser–Eglinton cyclo-oligomerization to produce a new class of expanded radialenes, which are chiral due to restricted rotation about their 1,3-butadiene units. The structural features giving rise to atropisomerism in these compounds are distinct from those reported previously.     

Constructing Penrose-like tilings with 7-fold symmetry

Penrose-like tilings with higher-order rotational symmetry are discussed. Two new examples of recursive rhombic tilings with 7-fold symmetry are derived. The entangled inflation/deflation rules cyclically permute the characteristic 7-fold patches and provide a possibility of expanding the tilings up to infinity without additional ad hoc rearrangements. The derived tilings are self-similar and fully coincide with themselves after inflations and deflations. The main structural motif is presented by repeatedly appearing seven-pointed stars surrounded by similar seven-pointed stars. Characteristic patches demonstrate mutual metamorphoses. The patches cyclically morph each into another while the tilings as a whole remain self-consistent. The results of the study can be used for the development of new artificial materials with heptagonal symmetry.

     

Cross-docking of inhibitors into CDK2 structures. 1

Predicting protein/ligand binding affinity is one of the most challenging computational chemistry tasks. Numerous methods have been developed to address this challenge, but they all have limitations. Failure to account for protein flexibility has been a shortcoming of many methods. In this cross-docking study the data set comprised 150 inhibitor complexes of the protein kinase CDK2. Gold and Glide performed well in terms of docking accuracy. The chance of cross-docking a ligand within a 2 A RMSD of its experimental pose was found to be 50%. Relative binding potency was not properly predicted from scoring functions, even though cross-docking of each inhibitor into each protein structure was performed and only scores of correctly docked ligands were considered. An accompanying paper (Voigt, J. H.; Elkin, C.; Madison, V. S. Duca, J. S. J. Chem. Inf. Model. 2008, 48, 669-678) covers cross-docking and docking accuracy from the perspective of using multiple protein structures.     

Dynamical (e,2e) studies of tetrahydrofurfuryl alcohol

Cross section data for electron scattering from DNA are important for modelling radiation damage in biological systems. Triply differential cross sections for the electron impact ionization of the highest occupied outer valence orbital of tetrahydrofurfuryl alcohol, which can be considered as an analogue to the deoxyribose backbone molecule in DNA, have been measured using the (e,2e) technique. The measurements have been performed with coplanar asymmetric kinematics at an incident electron energy of 250 eV, an ejected electron energy of 20 eV, and at scattered electron angles of -5°, -10°, and -15°. Experimental results are compared with corresponding theoretical calculations performed using the molecular 3-body distorted wave model. Some important differences are observed between the experiment and calculations.     

AAK1 identified as an inhibitor of neuregulin-1/ErbB4-dependent neurotrophic factor signaling using integrative chemical genomics and proteomics

Target identification remains challenging for the field of chemical biology. We describe an integrative chemical genomic and proteomic approach combining the use of differentially active analogs of small molecule probes with stable isotope labeling by amino acids in cell culture-mediated affinity enrichment, followed by subsequent testing of candidate targets using RNA interference-mediated gene silencing. We applied this approach to characterizing the natural product K252a and its ability to potentiate neuregulin-1 (Nrg1)/ErbB4 (v-erb-a erythroblastic leukemia viral oncogene homolog 4)-dependent neurotrophic factor signaling and neuritogenesis. We show that AAK1 (adaptor-associated kinase 1) is a relevant target of K252a, and that the loss of?AAK1?alters ErbB4 trafficking and expression levels,?providing evidence for a previously unrecognized role for AAK1 in Nrg1-mediated neurotrophic?factor signaling. Similar strategies should lead to the discovery of novel targets for therapeutic development.     

Dynamic acceleration effects in explosions of laser-irradiated heteronuclear clusters

Intense, femtosecond irradiation of atomic and molecular clusters can initiate Coulomb explosions, generating particle energies sufficient to drive nuclear fusion. Last and Jortner have proposed, based on particle dynamics simulations, that heteronuclear clusters with a mixture of heavy and light ions will not explode by the simple, equilibrium Coulomb model but that dynamic effects can lead to a boosting of energy of the lighter ejected ions [Phys. Rev. Lett. 87, 033401 (2001)]. We present experimental confirmation of this theoretically predicted ion energy enhancement in methane clusters.