Computational Design of Novel Allosteric Inhibitors for Plasmodium falciparum DegP

The serine protease, DegP exhibits proteolytic and chaperone activities, essential for cellular protein quality control and normal cell development in eukaryotes. The P. falciparum DegP is essential for the parasite survival and required to combat the oscillating thermal stress conditions during the infection, protein quality checks and protein homeostasis in the extra-cytoplasmic compartments, thereby establishing it as a potential target for drug development against malaria. Previous studies have shown that diisopropyl fluorophosphate (DFP) and the peptide SPMFKGV inhibit E. coli DegP protease activity. To identify novel potential inhibitors specific to PfDegP allosteric and the catalytic binding sites, we performed a high throughput in silico screening using Malaria Box, Pathogen Box, Maybridge library, ChEMBL library and the library of FDA approved compounds. The screening helped identify five best binders that showed high affinity to PfDegP allosteric (T0873, T2823, T2801, {"type":"entrez-protein","attrs":{"text":"RJC02337","term_id":"1480409465","term_text":"RJC02337"}}RJC02337, CD00811) and the catalytic binding site (T0078L, T1524, T2328, BTB11534 and 552691). Further, molecular dynamics simulation analysis revealed {"type":"entrez-protein","attrs":{"text":"RJC02337","term_id":"1480409465","term_text":"RJC02337"}}RJC02337, BTB11534 as the best hits forming a stable complex. WaterMap and electrostatic complementarity were used to evaluate the novel bio-isosteric chemotypes of {"type":"entrez-protein","attrs":{"text":"RJC02337","term_id":"1480409465","term_text":"RJC02337"}}RJC02337, that led to the identification of 231 chemotypes that exhibited better binding affinity. Further analysis of the top 5 chemotypes, based on better binding affinity, revealed that the addition of electron donors like nitrogen and sulphur to the side chains of butanoate group are more favoured than the backbone of butanoate group. In a nutshell, the present study helps identify novel, potent and Plasmodium specific inhibitors, using high throughput in silico screening and bio-isosteric replacement, which may be experimentally validated.     

Copper corrosion in buffered and non-buffered synthetic seawater: a comparative study

The electrochemical behaviour of copper in neutral buffered and non-buffered synthetic seawater and in pure chloride solutions has been studied by cyclic voltammetry, weight loss measurements, open circuit potential and scanning electron microscopy (SEM). Values of the repassivation potentials of Cu in non-buffered and buffered synthetic seawater, at 50 mV s^–1, were 0.12 and 0.46 V vs. SCE, respectively. The sharpness, heights and location of the different peaks as well as their charges were shown to be influenced by the composition of the solution, buffering conditions, deoxygenation, polarization potential and time. High chloride concentrations lead to higher oxidation charges. The anodic and the cathodic charges were shown to increase as the chloride concentration increases. The open circuit potential transients of copper in non-deoxygenated, non-buffered synthetic seawater indicate pitting from the beginning of the exposure, while in buffered solutions the pitting appeared only after a quite long exposure period, i.e. after 40 days. Corrosion rates of Cu samples after 3 months of immersion were higher in solutions of pure chloride (0.5 M) than in synthetic seawater. After six months the differences were even more noticeable. SEM images have showed a somewhat higher density of pits on copper samples immersed in the chloride solution (0.5 M), in comparison with those in synthetic seawater.     

Determination of the expiration date of chemical solutions

Thirty-five chemical solutions, acids, bases, complexing, argentometric, reducing, oxidising, salts and eluent mixtures, were studied continuously over a 7.5-month period. Twenty-seven remained reasonably stable and had acceptable expiration dates, which were equal to or more than 2 months longer than the established average deviation of ±2% relative to the initial value. Exceptions were made for potassium permanganate (0.1 M), perchloric acid (0.1 M) and disodium hydrogen phosphate (10%) solutions, as well as for HPLC eluent mixtures, which showed stability with expiration dates equal to stated values or shorter by 1 month. The eight chemical solutions presenting expiration dating higher than 6 months were hydrochloric acid (0.1 and 1 M), sulphuric acid (0.5 and 1.5 M), ethylenediamine tetraacetic acid (EDTA) (0.1 M), silver nitrate (0.1 M), ammonium thiocyanate (0.1 M) and iodine (0.1 M). The present data is a suitable guideline for the date of several chemical solutions routinely used in the analytical laboratories.     

Kinetic Analysis of Cobalt in Veterinary Products

A novel kinetic method for the determination of trace amounts of Co(II) has been developed. The proposed method based on the catalytic effect of Co(II) on the oxidation of xylenol orange tetra sodium salt by H₂O₂ in the presence of cationic surfactant (N‐dodecylpyridinium chloride). Co(II) at μg.mL^?1 was determined spectrophotometrically by measuring the decrease in the absorbance of xylenol orange at 577 nm by the differential method. The method is precise, selective, and sensitive. The detection limit of the procedure was 0.058 μg.mL^?1. The relative standard deviation for the replicate determination (n = 6) of 0.7 μg.mL^?1 was 1.285%. The results compared satisfactorily with those of atomic absorption spectrometry. The method was successful for the analysis of Co(II) in veterinary and synthetic samples.     

Superintegrable cases of four-dimensional dynamical systems

Degenerate tri-Hamiltonian structures of the Shivamoggi and generalized Raychaudhuri equations are exhibited. For certain specific values of the parameters, it is shown that hyperchaotic Lü and Qi systems are superintegrable and admit tri-Hamiltonian structures.     

Removal of oxygen from silicon by electron beam melting

Small amounts of multicrystalline silicon were melted in an electron beam furnace in different experimental conditions in order to investigate the oxygen evaporation behavior during the electron beam melting (EBM) process. The oxygen content level before and after EBM was determined by secondary ion mass spectroscopy. The oxygen content was reduced from 6.177 to 1.629 ppmw when silicon was melted completely at 15 kW with removal efficiency up to 73.6 %. After that, it decreased continually to <0.0517 ppmw when the refining time exceeded 600 s with a removal efficiency of more than 99.08 %. During the melting process, the evaporation rate of silicon is 1.10 × 10^?5 kg/s. The loss of silicon could be reduced up to 1.7 % during oxygen removal process to a desirable figure, indicating EBM is an effective method to remove oxygen from silicon and decrease the loss of silicon.     

Synthesis,anti‐migration and burning rate catalytic mechanism of ferrocene‐based compounds

One of the most important components of solid rocket propellant is the burning rate catalysts (BRC) which enhance burning rate of solid composite propellant. Low‐pressure exponents and stable burning rate are the key features of an excellent solid propellant. Addition of BRC to the propellant results in the increase of burning rate of the propellant and decrease in pressure exponents. Among all BRC, ferrocene‐based BRC have attracted much attention because of their better microscopic homogeneities in distribution, ignitability of the propellants and good compatibility with organic binder. However, the main barrier for the development and practical applications of ferrocene‐based BRC is their migration property. This article reviews the field and highlights recent progress. Copyright © 2014 John Wiley & Sons, Ltd.     

The asymptotic D-state to S-state ratio of triton

At low energies, an effective field theory (EFT) with only contact interactions as well as three-body forces allow a detailed analysis of renormalization in a non-perturbative context and uncovers novel asymptotic behaviour. Triton as a three-body system, based on the EFT have been previously shown to provide representative binding energies, charge radii, S-wave scattering amplitude and asymptotic normalization constants for the ³H bound state system. Herein, EFT predictions of the asymptotic D-state to S-state ratio of triton are calculated to more fully evaluate the adequacy of the EFT model. Manifestly model-independent calculations can be carried out to high orders, leading to high precision.