Molecular recognition properties of FN3 monobodies that bind the Src SH3 domain

We have constructed a phage-displayed library based on the human fibronectin tenth type III domain (FN3) scaffold by randomizing residues in its FG and BC loops. Screening against the SH3 domain of human c-Src yielded six different clones. Five of these contained proline-rich sequences in their FG loop that resembled class I (i.e., +xxPxxP) peptide ligands for the Src SH3 domain. The sixth clone lacked the proline-rich sequence and showed particularly high binding specificity to the Src SH3 domain among various SH3 domains tested. Competitive binding, loop replacement, and NMR perturbation experiments were conducted to analyze the recognition properties of selected binders. The strongest binder was able to pull down full-length c-Src from murine fibroblast cell extracts, further demonstrating the potential of this scaffold for use as an antibody mimetic.     

C-bis-pivot lariat ethers: synthesis and spectral investigations on new 15- and 17-membered coronands containing dimethoxyphosphoryl groups

The reactions of dibenzo-diaza crown ethers (coronands) (1 and 2) with dimethylphosphite led to the formation of the mixture of meso and racemic C-bis-pivot lariat ethers (3 and 4) containing dimethoxyphosphoryl groups. We have failed to make the resolution of the mixture, nevertheless, the detailed characterization and spectral investigations of compounds 3 and 4 have been made by elemental analyses, FTIR, (1)H NMR, (13)C NMR, (31)P NMR, COSY, DEPT, HETCOR and HMBC spectral data. The salient features of the spectral data of these compounds have been presented.     

Correction to: Discontinuum analysis of the fracture mechanism in masonry prisms and wallettes via discrete element method

Meccanica - Due to an unfortunate turn of events, this article was published with an erroneous version of Figure 11.     

Co(II) and Fe(II) phthalocyanines: synthesis,investigation of their catalytic activity towards phenolic compounds and electrochemical behaviour

4‐[(1‐Benzylpiperidin‐4‐yl)oxy]‐substituted cobalt(II) and iron(II) phthalocyanine complexes were synthesized and their catalytic activity towards various phenolic compounds was investigated. Converting from environmentally harmful phenolic compounds into less harmful oxidation products using phthalocyanines makes this study attractive. This catalysis is feasible and time‐saving in terms of procedure and the best oxidation conditions determined. Electrochemical studies were also carried out using cyclic voltammetry and square wave voltammetry techniques. Voltammetric analyses of the synthesized phthalocyanine complexes supported their proposed structures. Copyright © 2015 John Wiley & Sons, Ltd.     

How to Separate Kinase Inhibition from Undesired Monoamine Oxidase A Inhibition—The Development of the DYRK1A Inhibitor AnnH75 from the Alkaloid Harmine

The β-carboline alkaloid harmine is a potent DYRK1A inhibitor, but suffers from undesired potent inhibition of MAO-A, which strongly limits its application. We synthesized more than 60 analogues of harmine, either by direct modification of the alkaloid or by de novo synthesis of β-carboline and related scaffolds aimed at learning about structure–activity relationships for inhibition of both DYRK1A and MAO-A, with the ultimate goal of separating desired DYRK1A inhibition from undesired MAO-A inhibition. Based on evidence from published crystal structures of harmine bound to each of these enzymes, we performed systematic structure modifications of harmine yielding DYRK1A-selective inhibitors characterized by small polar substituents at N-9 (which preserve DYRK1A inhibition and eliminate MAO-A inhibition) and beneficial residues at C-1 (methyl or chlorine). The top compound AnnH75 remains a potent DYRK1A inhibitor, and it is devoid of MAO-A inhibition. Its binding mode to DYRK1A was elucidated by crystal structure analysis, and docking experiments provided additional insights for this attractive series of DYRK1A and MAO-A inhibitors.     

New peripherally tetra-[trans-3,7-dimethyl-2,6-octadien-1-ol] substituted metallophthalocyanines: synthesis,characterization and catalytic activity studies on the oxidation of phenolic compounds

In this paper, we elucidated the synthesis, characterization, and investigation of catalytic activity studies of new metallophthalocyanines 4 and 5 as the catalyst for phenolic compounds oxidation by trying different types of oxygen sources. The structural characterization of the products was made by a combination of elemental analysis, FT-IR, LC-MS/MS (for phthalonitrile derivative 3), MALDI-TOF mass spectral data (for metallophthalocyanines 4–7), UV–vis spectroscopy (for metallophthalocyanines 4–7), ¹H NMR and ¹³C NMR spectroscopies (for compounds 3 and 6). The synthetic routes for the (trans-3,7-dimethyl-2,6-octadien-1-ol) substituted phthalonitrile derivative 3 and corresponding metallophthalocyanines 4–7 are outlined in Scheme 1. The MPc complexes 4–7 were synthesized via cyclotetramerization of compound 3 in the presence of the corresponding anhydrous metal salts (CoCl₂ for 4, CuCl₂ for 5, Zn(CH₃COO)₂ for 6 and MnCl₂ for 7) in dry n-pentanol as solvent and 1,8-diazabicyclo[5.4.0]undec-7-ene (DBU) as strong base at reflux temperature under nitrogen gas. Phthalocyanines and their metal complexes, in general, display poor solubility in most of the organic solvents, however, the synthesized metallophthalocyanine complexes 4–7 were highly soluble in common organic solvents because of the introduction of the methyl groups on alkyl chains of peripheral arms. The catalytic activity of compounds 4 and 5 was evaluated for the oxidation of phenolic compounds such as 4-nitrophenol, o-chlorophenol, 2,3-dichlorophenol, and p-methoxyphenol. CoPc 4 displayed good catalytic performance with a full oxidation of 4-nitrophenol into the corresponding benzoquinone and hydroquinone with the highest TON and TOF values within 3 h.     

Experimental and theoretical studies of acridine orange as corrosion inhibitor for copper protection in acidic media

The corrosion process commonly limits the use of copper in practical applications. The use of corrosion inhibitors is one of the effective methods to reduce the corrosion rate of copper. In this research, the inhibition effect of acridine orange (3,6-bis(dimethylamine)acridine) (AcO) for the protection of copper in 0.5 ?M ?H₂SO₄ solution was studied. For this aim, the change of open circuit potential with exposure time (E_ocp-t), electrochemical impedance spectroscopy (EIS), linear polarization resistance (LPR), anodic and cathodic potentiodynamic polarization measurements (PP) and chronoamperometry (CA) techniques were used. Some quantum chemical parameters (E_HOMO, E_LUMO and dipole moment) were calculated and discussed. The AcO film formed over the copper surface was examined by SEM, EDX, AFM and contact angle measurements. The electrochemical data showed that AcO is an effective corrosion inhibitor even at low concentrations (ranging between 99.1% and %99.4 ?at concentrations from 0.01 ?mM to 1 ?mM). The corrosion rate of copper decreases in the presence of the inhibitor by reducing both anodic and cathodic rates, which is depended on its concentration. This compound behaves as mixed-type corrosion inhibitors with predominantly cathodic type. Its adsorption on the copper surface obeys Langmuir adsorption isotherm. The value of adsorption equilibrium constant (K_ads) and the standard free energy of adsorption were ΔG_ads 1.298 x 10³ ?M^?1 and -27.71 ?kJ/mol in the case of 0.5 ?M ?H₂SO₄ solution containing 1.0 ?mM AcO, which shows the adsorption is high and spontaneous. The adsorbed inhibitor film over the metal increase contact angle of the surface, which suggests the more hydrophobic properties of the surface are increasing coming from the orientation of hydrophobic sites to the electrolyte. The zero charge potential (E_pzc) studies showed that the surface charge of the metal is positive in the corrosive media containing the inhibitor. Quantum chemical calculations showed that the binding of inhibitor molecules to the metal surface takes place through N atoms of the inhibitor.     

Intensity clamping and re-focusing of intense femtosecond laser pulses in nitrogen molecular gas

We present results of measurements of fluorescence spectra due to the interaction of a Ti:sapphire laser pulse with N₂ molecules at different gas pressures and pulse energies. The analysis of the data together with the results of numerical simulations, using a propagation model, reveal signatures of the phenomena of intensity clamping and of re-focusing of the laser pulse at high gas pressure. The laser pulse energy for intensity clamping as a function of the gas pressure is determined. Received: 21 May 2001 / Revised version: 10 July 2001 / Published online: 19 September 2001     

Natural convection mass transfer behavior of serially connected cylindrical electrodes

Natural convection mass transfer rates at both vertical and horizontal serially connected tubes were reported using the electrochemical technique involving the measurement of limiting currents for the deposition of copper on copper cylinders from acidified cupric sulphate solutions. Measurements were carried out with: (a) one tube active; (b) two tube surfaces active; (c) three tube surfaces active.

The electrolyte concentration and a number of serial connections of tubes were varied to provide a range of GrSc extending from 5.3×10⁸ to 9.5×10¹¹. The mass transfer rates at serially connected horizontal cylinders were in good agreement with mass transfer data in the literature. Correlation of results covered both laminar and turbulent conditions separately. The mass transfer rates at serially connected vertical cylinders were controlled by the boundary layer development at the multi-electrodes. The results for vertical electrodes, which are single, serially connected two and three electrodes, were separately correlated in the turbulent region.

The results illustrate the important effect of boundary layer development in determining current distribution in multi-electrode electrochemical cells.