Tetra-, hexa-, and octanitrogen molecules: a quantum chemical design and thermodynamic properties

Russian Chemical Bulletin - The possibility for tetra-, hexa-, octa-, and decanitrogen to exist was analyzed using the QCISD(T)/TZVP and G4 quantum chemical calculations. The results obtained...     

Strategy for discovering chemical inhibitors of human cyclophilin a: focused library design, virtual screening, chemical synthesis and bioassay

The discovery of cyclophilin A (CypA) inhibitor is now of special interest in the treatment of immunological disorders. In this work, using a strategy integrating focused combinatorial library design, virtual screening, chemical synthesis, and bioassay, a series of novel small molecular CypA inhibitors have been discovered. First, using the fragments taken from our previously discovered CypA inhibitors (Bioorg. Med. Chem. 2006, 14, 2209-2224) as building blocks, we designed a focused combinatorial library containing 255 molecules employing the LD1.0 program (J. Comb. Chem. 2005, 7, 398-406) developed by us. Sixteen compounds (1a-e, 2a-b, 3a-b, and 4a-g) were selected by using virtual screening against the X-ray crystal structure of CypA as well as druglike analysis for further synthesis and bioassay. All these sixteen molecules are CypA binders with binding affinities (K(D) values) ranging from 0.076 to 41.0 microM, and five of them (4a, 4c, and 4e-g) are potent CypA inhibitors with PPIase inhibitory activities (IC(50) values) of 0.25-6.43 microM. The hit rates for binders and inhibitors are as high as 100% and 31.25%, respectively. Remarkably, both the binding affinity and inhibitory activity of the most potent compound increase approximately 10 times than that of the most active compound discovered previously. The high hit rate and the high potency of the new CypA inhibitors demonstrated the efficiency of the strategy for focused library design and screening. In addition, the novel chemical entities reported in this study could be leads for discovering new therapies against the CypA pathway.     

Self-organization of disc-like molecules: chemical aspects

The hierarchical self-assembly of disc-shaped molecules leads to the formation of discotic liquid crystals. These materials are of fundamental importance not only as models for the study of energy and charge migration in self-organized systems but also as functional materials for device applications such as, one-dimensional conductors, photoconductors, light emitting diodes, photovoltaic solar cells, field-effect transistors and gas sensors. The negative birefringence films formed by polymerized nematic discotic liquid crystals have been commercialized as compensation foils to enlarge the viewing angle of commonly used twisted nematic liquid crystal displays. To date the number of discotic liquid crystals derived from more than 50 different cores comes to about 3000. This critical review describes, after an in-depth introduction, recent advances in basic design principles and synthetic approaches towards the preparation of most frequently encountered discotic liquid crystals.     

Searching for DDAH inhibitors: S-nitroso-L-homocysteine is a chemical lead

The cysteine-hydrolase dimethylargininase-1 (DDAH-1) is an important regulator of NO production in mammalian tissue for which the availability of an inhibitor for clinics and research would be most appreciated. While studying the effect of the endogenously occurring S-nitroso-l-homocysteine on DDAH-1, an unusual N-thiosulfoximide modification was identified in the active site of the enzyme. Thus, S-nitroso-l-homocysteine in combination with the mechanism proposed herein offers a basis for the rational design of DDAH inhibitors.     

Firefly luciferase in chemical biology: a compendium of inhibitors, mechanistic evaluation of chemotypes, and suggested use as a reporter

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Highlights? A representative small molecule library contains 12% firefly luciferase inhibitors ? Competitive, noncompetitive, uncompetitive, and MAI inhibitors were identified ? For FLuc-RGAs 65% of FLuc inhibitors with known MOIs increased the luminescence signal ? Methods to identify FLuc inhibitors that interfere with assay results are described     

Small organoselenium molecules. 1. Dimethyl selenoxide: structure,complexation, and gas-phase transformation

For the first time the structural characterization of dimethyl selenoxide coordinated to metal complexes has been performed confirming the Me(2)SeO arrangement assigned by spectroscopic techniques for the molecule in solution and solid state. The structure of Me(2)SeO is trigonal pyramidal with Se-O and Se-C bond lengths of 1.70 and 1.92 A, respectively, and sigma(X-Se-Y) = 301 degrees. As a ligand, dimethyl selenoxide was found to bind to the rhodium centers of various Lewis acidity strengths by using only its oxo functionality in both terminal and bridging fashions. This O-directed coordination preference contrasts with an ambidentate (-S and -O) binding character revealed by dimethyl sulfoxide upon formation of analogous donor-acceptor complexes. The study of dimethyl selenoxide in the gas phase at 135-140 degrees C resulted in a thermal degradation of this molecule. The major decomposition product has been entrapped by a metal complex and identified as dimethyl selenide. The isolation of the coordinated Me(2)Se fragment clearly demonstrates that the Me(2)SeO molecule is less thermally stable than Me(2)SO, which under similar reaction conditions shows no sign of decomposition at temperatures up to 160 degrees C.     

Transient bonds and chemical reactivity of molecules

Electron delocalization between the reagent and reactant molecules is the principal driving force of chemical reactions. It brings about the formation of new bonds and the cleavage of old bonds. By taking the aromatic substitution reaction as an example, we have shown the orbitals participating in electron delocalization. The interacting orbitals obtained are localized around the reaction sites, showing the chemical bonds that should be generated and broken transiently along the reaction path. By projecting a reference orbital function that has been chosen to specify the bond being formed on to the MOs of the reactant molecules, the reactive orbitals that are very similar to the interacting orbital have been obtained. The local potential of the reaction site for electron donation estimated for substituted benzene molecules by using these projected orbitals shows a fair correlation with the experimental scale of the electron-donating and -withdrawing strength of substituent groups. The reactivity is shown to be governed by local electronegativity and local chemical hardness and also by the localizability of interaction on the reaction site. © 1996 John Wiley & Sons, Inc.     

Threshold peaks in the vibrational excitation of molecules by electron impact: a time-dependent view

Resonance and threshold effects in low-energy electronmolecule collisions are analyzed in a time-dependent picture. Time-dependent wave packets reflecting the non-Markovian open-system dynamics of electron-molecule collision complexes are explicitly generated for two representative models of pures-wave scattering and dipole-modifieds-wave scattering, respectively. The numerical results demonstrate the relevance of the adiabatic potential-energy curves of resonances, virtual states and bound states for a qualitative understanding of the dynamics and lucidly reveal the existence of nonadiabatic processes in such systems.     

Rigidified multivalent lactose molecules and their interactions with mammalian galectins: a route to selective inhibitors

New and rigid multivalent lactose molecules were prepared. The structures contain lactose-2-aminothiazoline units at the periphery that were formed from a cyclisation of the thiourea sulphur onto the triple bond of the spacer. The lactosides were evaluated as inhibitors against lectin binding in a solid phase inhibition assay. In this assay the glycoprotein asialofetuin was immobilized onto the surface of microtiter plate wells, mimicking cell surface presentation, while mammalian galectins-1, -3 or -5 were in solution. Between the three galectins, the folding pattern and sequence are closely related but the topology of presentation of the carbohydrate recognition domains differs. Strong multivalency effects were observed for the tetravalent lactoside in the inhibition of galectin-3 binding with enhancements of almost 4300-fold compared to lactose. Remarkable selectivity was obtained in the inhibition since relative potencies of the tetravalent lactoside with the proto type galectins-1 and -5 did not exceed a factor of 143 relative to lactose. The binding of the lactosides to galectin-3 was also studied by fluorescence spectroscopy with all components in solution. These studies showed no multivalency effects in the inherent binding affinities.     

Periodization of the history of chemical analysis and analytical chemistry as a branch of science

In the periodization of the history of chemical analysis, it seems advisable to take into account changes in the priority problems and objects and methods of analysis and in the periodization of analytical chemistry as a science, changes in the substance matter and the level of scientific research, and also in the place of analytical chemistry in the system of sciences. Both periodizations are closely related, and the borders between the periods approximately coincide. This allows one to use a united periodization for educational purposes.     

Photophysical processes and the photodissociation of chemical bonds in polyatomic molecules

The main concepts of the nature of electronically excited states in polyatomic molecules and the intramolecular and intermolecular processes of their evolution are reported. The dependence of the probabilities of these processes on the electronic structure of the molecule is considered. Possible mechanisms of the dissociation of electronically excited molecules with bond cleavage are discussed, and the theoretical results of this consideration are given. The experimental data obtained by the authors are interpreted. In this case, attention is focused on C-H-bond photodissociation processes in a condensed phase, which are the best studied processes. The dissociation of other bonds is briefly discussed.