A convenient and regioselective oxidative bromination of electron-rich aromatic rings using potassium bromide and benzyltriphenylphosphonium peroxymonosulfate under nearly neutral reaction conditions

Regioselective oxidative bromination of electron-rich aromatic rings has been studied using potassium bromide as a bromine source in the presence of benzyltriphenylphosphonium peroxymonosulfate as oxidant under nearly neutral reaction conditions. In most cases we obtained monobrominated derivatives regioselectively and in good to high yields without the aid of strong acids.     

Pose scoring by NMR

Recently, we have developed a fast approach to calculate NMR chemical shifts using the divide and conquer method at the semiempirical level. To demonstrate the utility of this approach for characterizing protein-ligand interactions, we used the deviation of calculated chemical shift perturbations from experiment to determine the orientation of a ligand (GPI-1046) in the binding pocket of the FK506 binding protein (FKBP12). Moreover, we were able to select the native state of the ligand from a collection of decoy poses. A key hydrogen bond between O1 and HN in Ile56 was also identified. Our results suggest that ligand-induced chemical shift perturbations can be used to refine protein/ligand structures.     

Pairwise decomposition of residue interaction energies using semiempirical quantum mechanical methods in studies of protein-ligand interaction

Pairwise decomposition of the interaction energy between molecules is shown to be a powerful tool that can increase our understanding of macromolecular recognition processes. Herein we calculate the pairwise decomposition of the interaction energy between the protein human carbonic anhydrase II (HCAII) and the fluorine-substituted ligand N-(4-sulfamylbenzoyl)benzylamine (SBB) using semiempirical quantum mechanics based methods. We dissect the interaction between the ligand and the protein by dividing the ligand and the protein into subsystems to understand the structure-activity relationships as a result of fluorine substitution. In particular, the off-diagonal elements of the Fock matrix that is composed of the interaction between the ionic core and the valence electrons and the exchange energy between the subsystems or atoms of interest is examined in detail. Our analysis reveals that the fluorine-substituted benzylamine group of SBB does not directly affect the binding energy. Rather, we find that the strength of the interaction between Thr199 of HCAII and the sulfamylbenzoyl group of SBB affects the binding affinity between the protein and the ligand. These observations underline the importance of the sulfonamide group in binding affinity as shown by previous experiments (Maren, T. H.; Wiley: C. E. J. Med. Chem. 1968, 11, 228-232). Moreover, our calculations qualitatively agree with the structural aspects of these protein-ligand complexes as determined by X-ray crystallography.     

Facile protection of carbonyl compounds as oxathiolanes and transoxathioacetalization of oxyacetals promoted by iron(III) trifluoroacetate or trifluoromethanesulfonate as chemoselective and recyclable catalysts

Oxathioacetalization of carbonyl compounds and transoxathioacetalization of O,O-acetals/ketals are reported under nearly neutral conditions promoted by iron(III) trifluoroacetate [Fe(CF₃CO₂)₃] or trifluoromethanesulfonate [Fe(CF₃SO₃)₃] as recyclable and highly efficient Lewis acid catalysts.     

Mutagenesis Mediated by Triple Helix–Forming Oligonucleotides Conjugated to Psoralen: Effects of Linker Arm Length and Sequence Context

Targeted mutagenesis and gene knock-out can be mediated by triple helix-forming oligonucleotides (TFO) linked to mutagenic agents, such as psoralen. However, this strategy is limited by the availability of homopurine/ homopyrimidine stretches at or near the target site because such sequences are required for high-affinity triplex formation. To overcome this limitation, we have tested TFO conjugated to psoralen via linker arms of lengths varying from 2 to 86 bonds, thereby designed to deliver the psoralen at varying distances from the third strand binding site present at the 3'end of the supFG1 mutation reporter gene. Following triplex formation and UVA irradiation, mutations were detected using an SV40-based shuttle vector assay in human cells. The frequency and distribution of mutations depended on the length of the linker arm. Precise targeting was observed only for linker arms of length 2 and 6, which also yielded the highest mutation frequencies (3 and 14%, respectively). Psoralen–TFO with longer tethers yielded mutations at multiple sites, with the maximum distance from the triplex site limited by the linker length but with the distribution within that range influenced by the propensity for psoralen intercalation at A:T base-pair-rich sites. Thus, gene modification can be extended beyond the site of third strand binding but with a decrease in the precision of the targeting.     

Studies on the thermal decomposition of N-2,4,6 tetranitro-N-methyl aniline

The kinetics of the initial stage of thermal decomposition of N-2,4,6 tetranitro-N-methyl aniline (tetryl) in condensed state has been investigated by high temperature infrared spectroscopy (IR) in conjunction with pyrolysis gas analysis and thermogravimetry (TG). The decomposition in KBr matrix in the temperature range of 131 to 145 °C shows rapid decrease in the N-NO₂ band intensity as compared to the C-NO₂ band. Decomposition products in the initial stage show mainly NO₂ gas and picric acid. The studies show that the initial stage of decomposition of tetryl occurs by the rupture of the N-NO₂ bond and the energy of activation for this process is 177 kJ/mol.

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Zusammenfassung Mittels Hochtemperatur-IR-Spektroskopie wurde in Verbindung mit Pyrolysengasanalyse und Thermogravimetrie (TG) die Kinetik des einleitenden Schrittes der thermischen Zersetzung von N-2,4,6-Tetranitro-N-Methylanilin (Tetryl) im kondensierten Zustand untersucht. Die Zersetzung in einer KBr-Matrix im Temperaturbereich von 131–145 °C äußert sich in einem schnellen Abnehmen der Intensität der N-NO₂ Bande bezogen auf die der C-NO₂ Bande. Zersetzungsprodukte des einleitenden Schrittes sind hauptsächlich NO₂ Gas und Pikrinsäure. Die Untersuchungen zeigten, daß der einleitende Schritt der Zersetzung von Tetryl die Spaltung der N-NO₂ Bindung ist. Die Aktivierungsenergie für diesen Prozess beträgt 177 kJ/mol.

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N-2,4,6-N- () , . 131–145 °C N-NO₂ C-NO₂. . , N-NO₂, 177 /.

     

Strong Structural and Electronic Binding of Bovine Serum Albumin to ZnO via Specific Amino Acid Residues and Zinc Atoms

ZnO biointerfaces with serum albumin have attracted noticeable attention due to the increasing interest in developing ZnO-based materials for biomedical applications. ZnO surface morphology and chemistry are expected to play a critical role on the structural, optical, and electronic properties of albumin-ZnO complexes. Yet there are still large gaps in the understanding of these biological interfaces. Herein we comprehensively elucidate the interactions at such interfaces by using atomic force microscopy and nanoshaving experiments to determine roughness, thickness, and adhesion properties of BSA layers adsorbed on the most typical polar and non-polar ZnO single-crystal facets. These experiments are corroborated by force field (FF) and density-functional tight-binding (DFTB) calculations on ZnO-BSA interfaces. We show that BSA adsorbs on all the studied ZnO surfaces while interactions of BSA with ZnO are found to be considerably affected by the atomic surface structure of ZnO. BSA layers on the surface have the highest roughness and thickness, hinting at a specific upright BSA arrangement. BSA layers on surface have the strongest binding, which is well correlated with DFTB simulations showing atomic rearrangement and bonding between specific amino acids (AAs) and ZnO. Besides the structural properties, the ZnO interaction with these AAs also controls the charge transfer and HOMO-LUMO energy positions in the BSA-ZnO complexes. This ZnO facet-specific protein binding and related structural and electronic effects can be useful for improving the design and functionality of ZnO-based materials and devices.     

Gamow Temperature in Tsallis and Kaniadakis Statistics

Relying on the quantum tunnelling concept and Maxwell–Boltzmann–Gibbs statistics, Gamow shows that the star-burning process happens at temperatures comparable to a critical value, called the Gamow temperature (T) and less than the prediction of the classical framework. In order to highlight the role of the equipartition theorem in the Gamow argument, a thermal length scale is defined, and then the effects of non-extensivity on the Gamow temperature have been investigated by focusing on the Tsallis and Kaniadakis statistics. The results attest that while the Gamow temperature decreases in the framework of Kaniadakis statistics, it can be bigger or smaller than T when Tsallis statistics are employed.     

Host–Guest Assembly of a Molecular Reporter with Chiral Cyanohydrins for Assignment of Absolute Stereochemistry

The absolute stereochemistry of cyanohydrins, derived from ketones and aldehydes, is obtained routinely, in a microscale and derivatization‐free manner, upon their complexation with Zn‐MAPOL, a zincated porphyrin host with a binding pocket comprised of a biphenol core. The host–guest complex leads to observable exciton‐coupled circular dichroism (ECCD), the sign of which is easily correlated to the absolute stereochemistry of the bound cyanohydrin. A working model, based on the ECCD signal of cyanohydrins with known configuration, is proposed.