Targeting SARS-CoV-2 RBD Interface: a Supervised Computational Data-Driven Approach to Identify Potential Modulators

Coronavirus disease 2019 (COVID-19) has spread out as a pandemic threat affecting over 2 million people. The infectious process initiates via binding of SARS-CoV-2 Spike (S) glycoprotein to host angiotensin-converting enzyme 2 (ACE2). The interaction is mediated by the receptor-binding domain (RBD) of S glycoprotein, promoting host receptor recognition and binding to ACE2 peptidase domain (PD), thus representing a promising target for therapeutic intervention. Herein, we present a computational study aimed at identifying small molecules potentially able to target RBD. Although targeting PPI remains a challenge in drug discovery, our investigation highlights that interaction between SARS-CoV-2 RBD and ACE2 PD might be prone to small molecule modulation, due to the hydrophilic nature of the bi-molecular recognition process and the presence of druggable hot spots. The fundamental objective is to identify, and provide to the international scientific community, hit molecules potentially suitable to enter the drug discovery process, preclinical validation and development.     

Critical Role for the Protons in FRTL-5 Thyroid Cells: Nuclear Sphingomyelinase Induced-Damage

Proliferating thyroid cells are more sensitive to UV-C radiations than quiescent cells. The effect is mediated by nuclear phosphatidylcholine and sphingomyelin metabolism. It was demonstrated that proton beams arrest cell growth and stimulate apoptosis but until now there have been no indications in the literature about their possible mechanism of action. Here we studied the effect of protons on FRTL-5 cells in culture. We showed that proton beams stimulate slightly nuclear neutral sphingomyelinase activity and inhibit nuclear sphingomyelin-synthase activity in quiescent cells whereas stimulate strongly nuclear neutral sphingomyelinase activity and do not change nuclear sphingomyelin-synthase activity in proliferating cells. The study of neutral sphingomyelinase/sphingomyelin-synthase ratio, a marker of functional state of the cells, indicated that proton beams induce FRTL-5 cells in a proapoptotic state if the cells are quiescent and in an initial apoptotic state if the cells are proliferating. The changes of cell life are accompanied by a decrease of nuclear sphingomyelin and increase of bax protein.     

Synergistic effect of graphite nanoplatelets and glass fibers in polypropylene composites

In this study, polypropylene (PP) composites reinforced with short glass fibers (GF) and exfoliated graphite nanoplatelets were obtained by melt compounding followed by injection molding. Morphological observations and quasi‐static tensile tests were carried out in order to investigate how the morphology and the mechanical properties of the composites were affected by the combined effect of two fillers of rather different size scales (i.e., micro‐ and nanoscale). The results indicate that the dispersion of the nanofiller in the PP matrix promoted the formation of a stronger interface between the matrix and GF, as indicated by the increase of the interfacial shear strength determined by the single‐fiber microdebonding test. Concurrently, a significant improvement of the tensile modulus and impact strength of the composites was observed, with small changes in the processability of hybrid composites compared to that of GF composites, as confirmed by rheological measurements. © 2014 Wiley Periodicals, Inc. J. Appl. Polym. Sci. 2015 , 132, 41682.     

High SPARC Expression Starting from Dysplasia,Associated with Breast Carcinoma,Is Predictive for Bone Metastasis without Enhancement of Plasma Levels

In order to become established in the skeleton, metastatic cells disseminating from the breast carcinoma need to acquire organ-specific traits. There are no effective predictors for who will develop bone metastasis to guide long-term predictive therapy. Our purpose was to individuate events critical for bone colonization to make a molecular classification of breast carcinoma useful for bone-metastasis outcome. In dysplasia adjacent to carcinoma and in pair-matched specimens of bone metastasis we examined SPARC expression and localization as well as Endothelin 1/ET_AR signals by immunohistochemistry, and the evaluation of plasma levels of SPARC by ELISA was also performed. In patients with breast carcinoma metastasizing to bone, SPARC and Endothelin 1/ET_AR axis were highly expressed from dysplasia until bone metastasis, but the SPARC plasma level was as low as that of normal women, in contrast to patients that never develop bone metastasis, suggesting that circulating SPARC was counter adhesive. Altogether, the early identification of SPARC/Endothelin 1/ET_AR in dysplastic lesions would be important to devise therapies preventing metastasis engraftment, since often carcinoma cells spread to distant organs at the time or even before patients present with cancer.     

Thermal behavior and structural study of ZrO2/poly(ε-caprolactone) hybrids synthesized via sol-gel route

The thermal behavior of pure ZrO₂ and four ZrO₂-based organic-inorganic hybrids (OIHs) containing increasing amount (6, 12, 24 and 50?wt%) of poly(ε-caprolactone) (PCL) (named Z, ZP6, ZP12, ZP24 and ZP50 respectively) has been studied by simultaneous thermogravimetry (TG) and differential scanning calorimetry (DSC). The FTIR analysis of the gas mixture evolved at defined temperatures from the samples submitted to the TG experiments identified the mechanism of each thermally activated process. The obtained results suggest that the inorganic matrix of the OIHs prepared by this method exerts a stabilizing effect on the polymer, in particular for poor-PCL hybrid materials. In fact, the different thermal behavior of the ZP50 sample suggests that the polymer is not entirely bonded to the -OH groups of the zirconia matrix due to their saturation. For this reason a part of PCL is not affected by the stabilizing effect of the matrix and is subjected to thermal degradation. Finally, by observing their thermal behavior it was possible to select the most suitable temperatures for thermal pretreatment: 400, 600 and 1000?°C. The structural analysis by X-ray diffraction (XRD) revealed that at 400?°C the materials are amorphous, while at 600?°C they are mostly tetragonal, and the content of the tetragonal phase decreases with increasing the amount of PCL in the OIHs. All the materials treated at 1000?°C are monoclinic, but their crystallinity decreases with increasing the PCL content.     

Extraction of phenolic compounds from Vitex agnus-castus L.

The primary objective of this study was to valorized Vitex agnus-castus residues in terms of phenolic compounds. The effects of extraction time (30–360 min), solid to liquid ratio (0.1–0.3 g_DryBiomass/ml_Solvent), type of solvent and different tissue types (leave, roots and seeds) on total polyphenols, o-diphenols, total flavonoids and anthocyanins were evaluated. The highest total polyphenol (31.5 mg_{CaffeicAcidEquivalent}/g_DryBiomass) and o-diphenol (12.4 mg_{CaffeicAcidEquivalent}/g_DryBiomass) contents were obtained from methanolic extract of leaves after 180 min using a solid/liquid ratio of 0.1 g_DryBiomass/ml_Solvent, while total flavonoids, reached a maximum value of 19.4 mg_{CatechinEquivalent}/g_DryBiomass after 360 min under the same conditions. Roots of V. agnus-castus were found to be a good source of anthocyanins with the highest yield of 0.62 mg_{MalvidinEquivalent}/g_DryBiomass using ethanol as a solvent (180 min and 0.2 g_DryBiomass/ml_Solvent). The maximum antiradical power (178.5 μl_extract/μg_DPPH) was exhibited by the methanolic leave extract obtained after 360 min at solid/liquid ratio of 0.3 g_DryBiomass/ml_Solvent.     

Metal complexes containing allenylidene and higher cumulenylidene ligands: a theoretical perspective

Transition metal complexes containing unsaturated carbenes have enjoyed a recent surge in research interest. In addition to showing potential as molecular wires and as components of opto-electronic materials, they provide multifaceted reactive sites for organic synthesis. In this Account, we describe results of recent theoretical studies that delineate the main features of electronic structure and bonding in allenylidenes and higher cumulenylidene complexes, [L(m)M]═C(═C)(n)═CR(1)R(2) (where L represents the ligand, M the metal, and n ≥ 1). Although free cumulenylidene ligands, :C(═C)(n)═CR(1)R(2), are extremely unstable and reactive species, they can be stabilized by coordination to a transition metal. The σ-donation of the electron lone pair on the terminal carbon atom to an empty metal d-orbital, together with the simultaneous π back-donation from filled metal d(π)-orbitals to empty cumulene π* system orbitals, leads to the formation of a strong M═C bond with multiple character. Density functional theory studies on the model systems [(CO)(5)Cr(═C)(n)CH(2)] and [trans-Cl(PH(3))(4)Ru(═C)(n)CH(2)](+) (where n = 1-9) have been useful in interpreting the structural and spectroscopic properties and the reactivity of this class of complexes. Geometry optimizations significantly contributed to the generalization of the sparse structural data available for allenylidene, butatrienylidene, and pentatetraenylidene complexes to higher cumulenylidene complexes (with up to eight carbon atoms in the chain), which show a clear structural trend. In particular, the geometries of all even-chain cumulenes are consistent with an almost purely cumulenic structure, whereas the geometries of odd-chain cumulenes present a significant polyyne-like carbon-carbon bond length alternation. The calculated bond dissociation energies (BDEs) of the cumulenylidene ligand remain almost constant on lengthening the cumulene chain. These BDEs indicate that there is no thermodynamic upper limit to the cumulene chain length and suggest that the synthetic difficulties in preparing higher cumulenylidenes are due to an increase in reactivity. The calculated charges on the carbon atoms show no significant polarization along the cumulene chain, indicating that charge distribution is not important in determining the regioselectivity of either electrophilic or nucleophilic attack, which is instead determined by frontier orbital factors. The breakdown of the contributions from the metal and the carbon atoms along the chain to the HOMO and LUMO shows that the HOMO has contributions mainly from the metal and the carbon atoms in even positions along the chain (C(2), C(4), C(6), and higher). In contrast, the LUMO has contributions mainly from the carbon atoms in odd positions along the chain (C(1), C(3), C(5), and higher), thus explaining the experimentally observed regioselectivity of electrophilic and nucleophilic attacks, which are directed, respectively, to even and odd positions of the cumulenylidene chain. The study of the electronic structure of cumulenylidenes has allowed us not only to give a consistent rationale for the main structural and spectroscopic properties and for the reactivity of this emerging class of compounds but also to predict the effect of ancillary ligands on the metal center or substituents on the carbon end. The result is a useful guide to new developments in the still-underexplored fields of this fascinating class of compounds.     

Synthesis,Computational Studies and Assessment of in Vitro Activity of Squalene Derivatives as Carbonic Anhydrase Inhibitors

We report novel molecules incorporating the nontoxic squalene scaffold and different carbonic anhydrase inhibitors (CAIs). Potent inhibitory action, in the low-nanomolar range, was detected against isoforms hCA II for sulfonamide derivatives, which proved to be selective against this isoform over the tumor-associate hCA IX and XII isoforms. On the other hand, coumarin derivatives showed weak potency but high selectivity against the tumor-associated isoform CA IX. These compounds are interesting candidates for preclinical evaluation in glaucoma or various tumors in which the two enzymes are involved. In addition, an in silico study of inhibitor-bound hCA II revealed extensive interactions with the hydrophobic pocket of the active site and provided molecular insights into the binding properties of these new inhibitors.     

Pectin: A Long-Neglected Broad-Spectrum Antibacterial

First reported in the late 1930s and partly explained in 1970, the antibacterial activity of pectin remained almost ignored until the late 1990s. The concomitant emergence of research on natural antibacterials and new usages of pectin polysaccharides, including those in medicine widely researched in Russia, has led to a renaissance of research into the physiological properties of this uniquely versatile polysaccharide ubiquitous in plants and fruits. By collecting scattered information, this study provides an updated overview of the subtle factors affecting the behaviour of pectin as an antimicrobial. Less-degraded pectin extracted by acid-free routes, we argue in the conclusions, will soon find applications from new treatments for polymicrobial infections to use as an implantable biomaterial in tissue and bone engineering.