PHRONESIS: A One-Shot Approach for Sequential Assignment of Protein Resonances by Ultrafast MAS Solid-State NMR Spectroscopy

Solid-state NMR (ssNMR) spectroscopy has emerged as the method of choice to analyze the structural dynamics of fibrillar, membrane-bound, and crystalline proteins that are recalcitrant to other structural techniques. Recently, ¹H detection under fast magic angle spinning and multiple acquisition ssNMR techniques have propelled the structural analysis of complex biomacromolecules. However, data acquisition and resonance-specific assignments remain a bottleneck for this technique. Here, we present a comprehensive multi-acquisition experiment (PHRONESIS) that simultaneously generates up to ten 3D ¹H-detected ssNMR spectra. PHRONESIS utilizes broadband transfer and selective pulses to drive multiple independent polarization pathways. High selectivity excitation and de-excitation of specific resonances were achieved by high-fidelity selective pulses that were designed using a combination of an evolutionary algorithm and artificial intelligence. We demonstrated the power of this approach with microcrystalline U-¹³C,¹⁵N GB1 protein, reaching 100 % of the resonance assignments using one data set of ten 3D experiments. The strategy outlined in this work opens up new avenues for implementing novel ¹H-detected multi-acquisition ssNMR experiments to speed up and expand the application to larger biomolecular systems.     

Synthesis of 2-oxo/thioxooctahydroquinazolin-5-one derivatives and their evaluation as anticancer agents

An environment friendly method for the synthesis of 2-oxo/thioxooctahydroquinazolin-5-one derivatives has been devised using Ceric ammonium nitrate (CAN) as catalyst and polyethylene glycol (PEG) as solvent. The cytotoxic effect of these compounds was studied on U87 human glioma cells, compounds 4c, 4d and 4e are found to exhibit excellent activity at a concentration as low as 0.06 μg/ml.     

Optimization of silica surface with nanosize holes for immobilization of biomolecules and analysis of their interactions

An evanescent-field-coupled waveguide-mode sensor of the Kretschmann configuration with a silica waveguide having nanoscale holes is an ideal tool for detection of bimolecular reactions. In the present research, an optimized surface of the sensor with cylindrical nanoscale holes was modified with sodium (1-{[6-(2,5-dioxo-2,5-dihydro-1H-pyrrol-1-yl)hexanoyl]oxy}-2,5-dioxopyrrolidine-3-sulfonate) (Sulfo-EMCS) to facilitate the attachment of biomolecules; the resulting surface could be cleaned for reuse simply by changing the pH of the buffering solution. The modification is expected to be useful for wide range of molecular detection.     

Green fluorescent protein-expressing Escherichia coli as a model system for investigating the antimicrobial activities of silver nanoparticles

Recombinant Escherichia coli (E. coli) bacteria expressing green fluorescent protein (GFP) was used as a model system to investigate the antimicrobial activities of Ag nanoparticles (NPs). A convenient in situ method of Ag NP synthesis using sodium borohydride, in the bacterial growth medium, was developed to produce preformed NPs for the study. Fluorescence spectroscopic and microscopic techniques allowed rapid detection of time-dependent changes in bacterial growth as well as fluorescence characteristics in the presence of Ag NPs. In addition, X-ray diffraction, UV-vis spectroscopic, and transmission electron microscopic measurements were carried out to understand the effect of Ag NPs on the bacteria. Our observations indicated that Ag NPs, above a certain concentration, not only were bactericidal but also were found to reduce the sizes of treated bacteria in comparison to untreated ones. Cell lysis of Ag NP-treated bacteria was suggested by the increased GFP fluorescence obtained in the medium. In vitro DNA-Ag NP interaction was detected by spectrophotometric analysis. However, electrophoresis studies indicated no direct effect of Ag NPs on DNA or protein profiles.     

A low-spin alkylperoxo-iron(III) complex with weak Fe-O and O-O bonds: implications for the mechanism of superoxide reductase

The synthesis of a mononuclear, five-coordinate ferrous complex [([15]aneN4)FeII(SPh)](BF4) (1) is reported. This complex is a new model of the reduced active site of the enzyme superoxide reductase (SOR), which is comprised of a [(NHis)4(Scys)FeII] center. Complex 1 reacts with alkylhydroperoxides (tBuOOH, cumenylOOH) at low temperature to give a metastable, dark red intermediate (2a: R = tBu; 2b: R = cumenyl) that has been characterized by UV-vis, EPR, and resonance Raman spectroscopy. The UV-vis spectrum (-80 degrees C) reveals a 526 nm absorbance (epsilon = 2150 M-1 cm-1) for 2a and a 527 nm absorbance (epsilon = 1650 M-1 cm-1) for 2b, indicative of alkylperoxo-to-iron(III) LMCT transitions, and the EPR data (77 K) show that both intermediates are low-spin iron(III) complexes (g = 2.20 and 1.97). Definitive identification of the Fe(III)-OOR species comes from RR spectra, which give nu(Fe-O) = 612 (2a) and 615 (2b) cm-1, and nu(O-O) = 803 (2a) and 795 (2b) cm-1. The assignments for 2a were confirmed by 18O substitution (tBu18O18OH), resulting in a 28 cm-1 downshift for nu(Fe-18O), and a 46 cm-1 downshift for nu(18O-18O). These data show that 2a and 2b are low-spin FeIII-OOR species with weak Fe-O bonds and suggest that a low-spin intermediate may occur in SOR, as opposed to previous proposals invoking high-spin intermediates.     

Ceric ammonium nitrate (CAN) catalyzed synthesis of N-substituted decahydroacridine-1,8-diones in PEG

Polyethylene glycol (PEG) was found to be an inexpensive non-toxic and effective medium for the one-pot synthesis of N-substituted decahydroacridine-1,8-diones in the presence of ceric ammonium nitrate (CAN) as the catalyst in high yields. Also, the solvent system can be recovered and reused; making this protocol economically and potentially viable.     

Initial boundary value problem for a nonconservative system in elastodynamics

This article is concerned with the initial boundary value problem for a nonconservative system of hyperbolic equation appearing in elastodynamics in the space time domain x > 0, t > 0. The number of boundary conditions, to be prescribed at the boundary x = 0, depends on the number of characteristics entering the domain. Because our system is nonlinear, the characteristic speeds depends on the unknown and the direction of the characteristics curves are known apriori. As it is well known, the boundary condition has to be understood in a generalised way. One of the standard way is using vanishing viscosity method. We use this method to construct solution for a particular class of initial and boundary data, namely the initial and boundary datas that lie on the level sets of one of the Riemann invariants.     

Hydroxyl group deprotection reactions with Pd(OH)2/C: a convenient alternative to hydrogenolysis of benzyl ethers and acid hydrolysis of ketals

Benzyl ethers, ketals and orthoformates were cleaved with Pd(OH)₂/C in methanol, to generate the corresponding alcohol; carboxylic acid esters were stable under these reaction conditions. Pd(OH)₂/C in methanol was used for the deprotection of hydroxyl groups during the preparation of sequoyitol via myo-inositol orthobenzoate. This method of deprotection has the potential to be useful in the synthesis of different classes of organic compounds since the reaction conditions do not involve strong acids, bases or hydrogen.     

Identification of Crucial Intermediates in the Formation of Humins from Cellulose-Derived Platform Chemicals Under Brønsted Acid Catalyzed Reaction Conditions

Humins are one of the undesirable products formed during the dehydration of sugars as well as the conversion of 5-hydroxymethylfurfural (HMF) to value-added products. Thus, reducing the formation of humins is an important strategy for improving the yield of the aforementioned reactions. Even after a plethora of studies, the mechanism of formation and the structure of humins are still elusive. In this regard, we have employed density functional theory-based mechanistic studies and microkinetic analysis to identify crucial intermediates formed from glucose, fructose, and HMF that can initiate the polymerization reactions resulting in humins under Brønsted acid-catalyzed reaction conditions. This study brings light into crucial elementary reaction steps that can be targeted for controlling humins formation. Moreover, this work provides a rationale for the experimentally observed aliphatic chains and HMF condensation products in the humins structure. Different possible polymerization routes that could contribute to the structure of humins are also suggested based on the results. Importantly, the findings of this work indicate that increasing the rate of isomerization of glucose to fructose and reducing the rate of reaction between HMF molecules could be an efficient strategy for reducing humins formation.