Discriminations of active from inactive HDAC8 inhibitors Part II: Bayesian classification study to find molecular fingerprints

ABSTRACT

In continuation of our earlier work (Doi: 10.1080/07391102.2019.1661876), a statistically validated and robust Bayesian model was developed on a large diverse set of HDAC8 inhibitors. The training set comprised of 676 small molecules and 293 compounds were considered as test set molecules. The findings of this analysis will help to explore some major directions regarding the HDAC8 inhibitor designing approach. Acrylamide (G1-G3, G9), N-substituted 2-phenylimidazole (G4-G8, G9, G12-G13, G16-G19), benzimidazole (G10-G11), piperidine substituted pyrrole (G13-G14) groups, alkyl/aryl amide (G15) and aryloxy carboxamide (G20) fingerprints were found to play a crucial role in HDAC8 inhibitory activity whereas -CH-N=CH- (B1, B4-B6, B14) motif, benzamide (B2-B3, B9-B13, B16-B17) groups and heptazepine (B7-B8, B15, B18-B20) group were found to influence negatively the HDAC8 inhibitory activity. The importance of such fingerprints was further validated by the HDAC8 enzyme and related inhibitor interactions at the receptor level. These results are in close agreement with those of our previous work that validate each other. Moreover, this comparative learning may enrich future endeavours regarding the designing strategy of HDAC8 inhibitors.     

Titrimetric microdetermination of uric acid and thioglycollic acid by amplification reactions

A simple amplification method for determination of 0.05-2 mg of uric acid or thioglycollic acid has been worked out. It depends on iodine oxidation of the uric acid or thioglycollic acid solutions, removal of the excess of iodine, oxidation of the resulting iodide with bromine, and iodometric titration of the resulting iodate. The coefficient of variation ranges from 0.7 to 2.4% for uric acid and from 0.5 to 1.9% for thioglycollic acid, depending on the amount of the acid.     

Colorimetric determination of amoxycillin in pure form and in pharmaceutical preparations

A simple and selective method for the determination of amoxycillin in pure form and in pharmaceutical preparations is described. The procedure is based on the reaction of amoxycillin with 4-nitrophenol (I), 2,4-dinitrophenol (II), 3,5-dinitrobenzoic acid (III) or 3,5-dinitrosalicylic acid (IV) in alkaline medium. The method has been used for the determination of 1-24 mug/ml of amoxycillin trihydrate in solution. The method is selective for the determination of amoxycillin in the presence of its degradation products, other antibiotics and different amines that are normally encountered in dosage forms.     

Formulation performance window for manufacturing cellulose-based sustained-release mini-matrices of highly water-soluble drug via hot-melt extrusion technology

The aim of the proposed work was to develop robust hot-melt extrusion (HME) process for fabricating sustained-release mini-matrices (pellets) of a highly water-soluble drug, tramadol hydrochloride. The current work was designed to identify a formulation window with target functional performances such as streamlined processability and sustained-release profile with alcohol-resistant properties. HME was used to perform screening tests of various drug loadings and excipients to determine the acceptable limit of each independent component (critical material attributes, CMAs) in the Design of Experiment (DoE). It was observed that the ratio of hydrophobic (ethyl cellulose, EC; Compritol^® ATO 888, C888) to hydrophilic (hydroxypropyl cellulose, HPC) components were critical factors evaluated using DoE. The processing temperature (105–175 °C) was identified as a critical process parameter. FTIR chemical imaging was used to assess the drug-matrix interaction, confirming a homogeneous drug distribution inside the polymer-lipid matrix system. SEM analysis and FTIR results were also in close agreement. Finally, a feasible formulation window containing EC, C888, and HPC in the ratios of 40:20:10 with the desired quality target product profile was successfully developed. Hydroalcoholic dissolution studies revealed safe and sustained-release of tramadol that resisted drug release variations for the first few hours in alcohol. The developed mini-matrices followed the Peppas–Sahlin model indicating a combination of Fickian diffusion and swelling mechanisms. Herein we conclude, a successful blueprint technology for the development of alcohol-resistant mini-matrices of tramadol hydrochloride via HME to provide once-a-day therapy for pain management, consequently reducing the dosing frequency.

Graphical abstract

     

Screening of MgO——and Ce02-Based Catalysts for Carbon Dioxide Oxidative Coupling of Methane to C2＋ Hydrocarbons

The catalyst screening tests for carbon dioxide oxidative coupling of methane (CO2-OCM)have been investigated over ternary and binary metal oxide catalysts.The catalysts are prepared by doping MgO-and CeO2-based solids with oxides from alkali(Li2O),alkaline earth (CaO),and transition metal groups (WO3 or MnO).The presence of the peroxide (O2^2-)active sites on the Li2O2,revealed by Raman spectroscopy,may be the key factor in the enhanced performance of some of the Li2O/MgO catalysts.The high reducibility of the CeO2 catalyst,an important factor in the CO2-OCM catalyst activity,may be enhanced by the presence of manganese oxide species. The manganese oxide species increases oxygen mobitity and oxygen vacancies in the CeO2 catalyst.raman and Fourier Transform Infra Red (FT-IR)spectroscopies revealed the presence of lattice vibrations of metal-oxygen bondings and active sites in which the peaks carresponding to the buld crystalline structures of Li2O,CaO,WO2 and MnO are detected.The performance of 5%MnO/15?O/CeO2 catalyst is the most potential among the CeO2-based catalysts,although lower than the 2%Li2O/MgO catalyst.The 2%Li2O/MgO catalyst showed the most promising C2 hydrocarbons selectivity and yield at 98.0%and 5.7%,respectively.     

Charge-Transfer Complexes of Oxazolones with "Nitrobenzene" π-Acceptors

Charge-transfer molecular complexes of some 2-aryl-4-arylidene-5(4) oxazolanes with di- and trinitrobenzene have been studied at 25°C. The stoichiometry and apparent formation constants of the complexes formed were determined by applying the conventional continuous variation method. The role of the molecular structure of the electron donor and acceptor compounds as well as the nature of the solvent on the formation of such charge-transfer complexes. Furthermore, association constants, oscillator strength, dipole moment, and free energy are elucidated.     

Freeze-Dried Complexes of Furosemide with β-Cyclodextrin Derivatives

A freeze-drying method was used to prepare complexes of furosemide (guest) with three derivatives of -cyclodextrin (hosts) in different molecular ratios in order to increase the aqueous solubility and rate of dissolution of the drug, and also to study the influence of this method on different parameters of the guest and the host, such as the diffusion rate constant and the partition coefficient, and additionally the surface tension activity of the host (if any). The hosts were found to have significant, increasing effects on the solubility and the rate of dissolution of furosemide. X-ray diffraction confirmed the host–guest interaction, in support of the earlier results. The freeze-drying method increased the diffusion rate of the drug in complex form, while the partition coefficient varied with the type of -cyclodextrin in the product. It is well known that CD derivatives are highly surface active which gives rise to their hemolytic action. Our observations showed that their presence with furosemide in complex form might decrease (if not diminish) the hemolytic action.     

A NEW FLUORESCENT CHOLESTEROL DERIVATIVE: STRUCTURE AND BLOOD PLASMA ANALYSIS

A fluorescent cholesterol derivative produced by reaction with gaseous HCl and zinc chloride in ethyl acetate is shown to be a chlorine substituted B-ring diene. The species forms relatively rapidly via an i-steroid rearrangement, requiring a temperature around 70 degrees C. A weak, possibly dimeric pi-allyl zinc complex exists in solution, leading to a red shift in the fluorescence emission. The application of the derivative to the determination of cholesterol in bovine plasma provides good sensitivity and precision and requires notably small sample volumes.     

Variations in Proteins Dielectric Constants

Using a new semi-empirical method for calculating molecular polarizabilities and the Clausius−Mossotti relation, we calculated the static dielectric constants of dry proteins for all structures in the protein data bank (PDB). The mean dielectric constant of more than 150,000 proteins is with a standard deviation of 0.04, which agrees well with previous measurement for dry proteins. The small standard deviation results from the strong correlation between the molecular polarizability and the volume of the proteins. We note that non-amino acid cofactors such as Chlorophyll may alter the dielectric environment significantly. Furthermore, our model shows anisotropies of the dielectric constant within the same molecule according to the constituents amino acids and cofactors. Finally, by changing the amino acid protonation states, we show that a change of pH does not have a significant effect on the dielectric constants of proteins.     

Heterobimetallic complexes of palladium(II) bridged by the mixed phosphine–phosphine oxide ligand Ph2PCH2CH2P(O)Ph2

The mixed phosphine–phosphine oxide Ph₂PCH₂CH₂P(O)Ph₂ (dppeO) reacts with either trans-[PdCl₂(PhCN)₂], Na₂[PdCl₄] or trans-[PdCl₂(DMSO)₂] to give trans-[PdCl₂{¹-Ph₂PCH₂CH₂P(O)Ph₂}₂]. Treatment of the latter with the metal chlorides, MCl₂ · nH₂O (M = Mn, Cu, Co, Zn, Hg; n = 4, 2, 6, 1, 0, respectively) or with Me₂SnCl₂ or SnCl₄ · 5H₂O, or with UO₂(NO₃)₂ · 6H₂O or UO₂(OAc)₂ · 2H₂O gives heterobimetallic complexes: trans-[PdCl₂{-Ph₂PCH₂CH₂P(O)Ph₂}₂MX₂] · nH₂O. The cobalt complex (MX₂ = CoCl₂) was unstable in solution (MeOH or EtOH/CHCl₃), and reverts to trans-[PdCl₂{¹-Ph₂PCH₂CH₂P(O)Ph₂}₂] and CoCl₂. trans-[PdCl₂{¹-Ph₂PCH₂CH₂P(O)Ph₂}₂] does not apparently react with either NiCl₂ · 6H₂O or CdCl₂ · 2.5H₂O.