Design and characterization of libraries of molecular fragments for use in NMR screening against protein targets

We have designed four generations of a low molecular weight fragment library for use in NMR-based screening against protein targets. The library initially contained 723 fragments which were selected manually from the Available Chemicals Directory. A series of in silico filters and property calculations were developed to automate the selection process, allowing a larger database of 1.79 M available compounds to be searched for a further 357 compounds that were added to the library. A kinase binding pharmacophore was then derived to select 174 kinase-focused fragments. Finally, an additional 61 fragments were selected to increase the number of different pharmacophores represented within the library. All of the fragments added to the library passed quality checks to ensure they were suitable for the screening protocol, with appropriate solubility, purity, chemical stability, and unambiguous NMR spectrum. The successive generations of libraries have been characterized through analysis of structural properties (molecular weight, lipophilicity, polar surface area, number of rotatable bonds, and hydrogen-bonding potential) and by analyzing their pharmacophoric complexity. These calculations have been used to compare the fragment libraries with a drug-like reference set of compounds and a set of molecules that bind to protein active sites. In addition, an analysis of the overall results of screening the library against the ATP binding site of two protein targets (HSP90 and CDK2) reveals different patterns of fragment binding, demonstrating that the approach can find selective compounds that discriminate between related binding sites.     

Synthesis, crystal structure, magnetic properties, and electronic structure of the new ternary vanadate CuMnVO4

A new magnetic oxide, CuMnVO4, was prepared, and its crystal structure was determined by single-crystal X-ray diffraction. The magnetic properties of CuMnVO4 were characterized by magnetic susceptibility and specific heat measurements, and the spin exchange interactions of CuMnVO4 were analyzed on the basis of spin-polarized electronic band structure calculations. CuMnVO4 contains MnO4 chains made up of edge-sharing MnO6 octahedra containing high-spin Mn2+ cations. Our work shows that CuMnVO4 undergoes a three-dimensional antiferromagnetic transition at approximately 20 K. Both the intrachain and interchain spin exchanges are antiferromagnetic, and the interchain spin exchange is not negligible compared to the intrachain spin exchange.     

Isotropic hard core dumbell fluid: Equation of state

A monte-Carlo calculation has been made for 108 hard core dumbbells of the compressibility factor in the isotropic density range. These compressibility factors are compared to several approximate theories, and comments are made on the utility of these approximate theories.     

Analysis of nitrate-perchlorate mixtures by difference spectrophotometry

Nitron and tetraphenylarsonium chloride react with a cobaltous salt in the presence of thiocyanate to form blue ion-association complexes, which can be extracted with organic solvents. This fact has been made the basis for the analysis of mixtures of nitrate and perchlorate by difference spectrophotometry. An aliquot of the sample solution is treated with a known excess of tetraphenylarsonium chloride to precipitate perchlorate only. After separating off the precipitate, the excess of reagent is determined in the supernatant liquid as tetraphenylarsonium cobaltothiocyanate and the perchlorate content can be found from a calibration curve. Another aliquot is treated with an excess of nitron to precipitate both anions; the excess of nitron is then determined as nitron

2. Analysis of Nitrate-Perchlorate Mixtures

     

105.

EPR evidence for ¹⁷O⁻ on molybdenum oxide supported by silica-gel     

Y. Ben Taarit  J.H. Lunsford 《Chemical physics letters》1973,19(3):348-350

The EPR spectrum of ¹⁷O^? on partially reduced molybdenum oxide supported on silica-gel has been observed following adsorption of N₂O at room temperature. The spectrum is chracterized by g_⊥=2.019 and g_|=2.002 with a_|¹⁷O^?=96±1 G and a_|⁹⁵MO,⁹⁷MO=7.5±0.5 G. The O ^?ion appears to undergo exchange with oxide ions at the surface.     

106.

Characteristics of immunosorbents used as a new approach to selective solid-phase extraction in environmental analysis     

V. Pichon  H. Rogniaux  N. Fischer-Durand  S. Ben Rejeb  F. Le Goffic  M. -C. Hennion 《Chromatographia》1997,45(1):289-295

Summary The trace-level determination of organic pollutants in complex matrices is difficult and often not reliable because theccurrent extraction procedures are non-selective. New extraction sorbents involving antigen-antibody interactions, called immunosorbents (ISs), have been synthesised in order to trap a group of structurally related pollutants. The IS capacity is always high for the analyte-antigen used to make the antibodies, but can be low for some related compounds. In this work, we show the relationship that exists between capacity, break-through volume and recovery of analytes because of the competition between the structurally related compounds for antibody sites. Breakthrough due to the overloading of the column should be avoided because calibration curves are no longer linear. The capacity of two ISs, one made for trapping the triazine pesticide group and the second for the phenylurea, group, have been optimised by selecting silica with 50 nm pore size. Calibration curves are linear for all the compounds in a mixture of ten phenylureas up to a concentration of 5 to 10 μg L⁻¹ for each compound when handling 50 mL water samples through a precolumn packed with 0.22 g of IS. Under these conditions, reliable quantitative results are obtained because calibration curves are similar when compounds are alone or in a mixture. Application to the clean-up of soil extracts illustrates the high selectivity and the high potential of these new sorbents in environmental analysis. Presented at the 21^st ISC held in Stuttgart, Germany, 15^th–20^th September, 1996     

107.

Spectroscopic and quantum chemical studies on the structure of 2-arylquinoline-4(1H)-thione derivatives     

Malose J. Mphahlele  Ahmed M. El-Nahas  Tarek M. El-Gogary 《Journal of Molecular Structure》2004,690(1-3):151-157

The geometries of the title compounds were probed in solution, solid and gas states using spectroscopic methods, X-ray crystallography and quantum chemical techniques. The exclusive existence of the NH-4-thiones in solution (NMR and PCM-B3LYP(MP2)/6-31+G(d) calculations) and solid state (FT-IR and X-ray) is also corroborated by comparison of their spectroscopic data with those of the corresponding 2-aryl-1-methylquinoline-4(1H)-thione derivatives. The co-existence of the quinoline-4-thione and quinoline-4-thiol (4-mercaptoquinoline) isomers in the gas phase is confirmed by mass spectrometry and the preponderance of the 4-thiol is supported by quantum chemical techniques (PM3, MP2 and B3LYP).     

108.

Spectrophotometric determination of iron as phenylfluorone complex sensitized with Triton X-100     

M. Tarek  M. Zaki  A. Y. El-Sayed 《Fresenius' Journal of Analytical Chemistry》1989,334(4):335-339

Summary The effect of some surfactants and protective colloids on the absorbance of the iron(III)-phenylfluorone complex has been investigated. The binary complex formed at pH 9.0 show a molar absorptivity of 7.5×10⁴ l · mol^–1 · cm^–1 at 530 nm. In the presence of 2% Triton X-100, at the same pH, the molar absorptivity of the sensitized complex was 1.19×10⁵ l · mo^–1 · cm^–1 at 555 nm. Full colour development of the sensitized complex occurred within 25 min and Beer's law was followed up to 0.53 ppm of iron. The molar ratio and continuous variation methods indicated a 13 metal-ligand ratio for the sensitized complex. The effect of various amounts of different ions has been studied under the experimental conditions and some masking agents were recommended. The method has been applied to the determination of iron in copper and nickel metals and some non-ferrous alloys.

---

Spektralphotometrische Bestimmung von Eisen als Phenylfluoronkomplex sensibilisiert mit Triton X-100

     

109.

Quantitative effect of nonionic surfactant partitioning on the hydrophile-lipophile balance temperature     

Ben Ghoulam M  Moatadid N  Graciaa A  Lachaise J 《Langmuir : the ACS journal of surfaces and colloids》2004,20(7):2584-2589

Phase behaviors of water/nonionic surfactants/isooctane systems are determined experimentally in temperature-global surfactant concentration diagrams. The surfactants are monodistributed polyoxyethylene glycol n-dodecyl ether. They are used as model mixtures of two, three, or five compounds or as constituents of a commercial surfactant. It is found that the phase diagrams of these systems are bent gradually toward the highest temperatures as the global surfactant concentration decreases. Each phase diagram is well-characterized by the curve of the HLB (hydrophile-lipophile balance) temperature versus the global surfactant concentration. For any fixed global surfactant concentration, this temperature is the middle temperature of the three-phase region; it can be calculated from an additive rule of the HLB temperatures of the surfactants weighted by their mole fractions at the water/oil interface. These mole fractions are determined through the pseudophase model using surfactant partitioning. Calculations require the knowledge of the critical micelle concentration, the partition coefficient between water and oil, and the HLB temperature of each surfactant of the mixture. This treatment can be used to correctly predict the variation of the HLB temperatures of the surfactant mixtures studied versus the global surfactant concentration. Furthermore, these calculations show that the observed curvature of the phase diagrams at the lowest global concentrations is due to the most favorable partitioning toward the oil of the lowest ethoxylated surfactant molecules.     

110.

Tracking the optical mass centroid of single electroactive nanoparticles reveals the electrochemically inactive zone     

Wenxuan Jiang  Wei Wei  Tinglian Yuan  Shasha Liu  Ben Niu  Hui Wang  Wei Wang 《Chemical science》2021,12(24):8556

The inevitable microstructural defects, including cracks, grain boundaries and cavities, make a portion of the material inaccessible to electrons and ions, becoming the incentives for electrochemically inactive zones in single entity. Herein, we introduced dark field microscopy to study the variation of scattering spectrum and optical mass centroid (OMC) of single Prussian blue nanoparticles during electrochemical reaction. The “dark zone” embedded in a single electroactive nanoparticle resulted in the incomplete reaction, and consequently led to the misalignment of OMC for different electrochemical intermediate states. We further revealed the dark zones such as lattice defects in the same entity, which were externally manifested as the fixed pathway for OMC for the migration of potassium ions. This method opens up enormous potentiality to optically access the heterogeneous intraparticle dark zones, with implications for evaluating the crystallinity and electrochemical recyclability of single electroactive nano-objects.

The schematic of single cubic-shaped Prussian blue (PB) mesocrystals formed by the oriented aggregation of small nanocrystals. The dark-field images of single PB nanoparticle at PB and Prussian white (PW) states, respectively.     

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Perchlorate			Nitrate
Taken (μg)	Found (μg)	Error (%)	Taken (μg)	Found (μg)	Error (%)
400	404	+ 1.00	248	250	+0.81
400	400	0.00	496	492	?0.81
400	400	0.00	992	992	0.00
800	796	?0.50	248	248	0.00
600	602	+0.33	248	245	?1.21
800	792	?1.25	496	498	+0.40

EPR evidence for 17O− on molybdenum oxide supported by silica-gel

The EPR spectrum of ¹⁷O^? on partially reduced molybdenum oxide supported on silica-gel has been observed following adsorption of N₂O at room temperature. The spectrum is chracterized by g_⊥=2.019 and g_|=2.002 with a_|¹⁷O^?=96±1 G and a_|⁹⁵MO,⁹⁷MO=7.5±0.5 G. The O ^?ion appears to undergo exchange with oxide ions at the surface.     

Characteristics of immunosorbents used as a new approach to selective solid-phase extraction in environmental analysis

Summary The trace-level determination of organic pollutants in complex matrices is difficult and often not reliable because theccurrent extraction procedures are non-selective. New extraction sorbents involving antigen-antibody interactions, called immunosorbents (ISs), have been synthesised in order to trap a group of structurally related pollutants. The IS capacity is always high for the analyte-antigen used to make the antibodies, but can be low for some related compounds. In this work, we show the relationship that exists between capacity, break-through volume and recovery of analytes because of the competition between the structurally related compounds for antibody sites. Breakthrough due to the overloading of the column should be avoided because calibration curves are no longer linear. The capacity of two ISs, one made for trapping the triazine pesticide group and the second for the phenylurea, group, have been optimised by selecting silica with 50 nm pore size. Calibration curves are linear for all the compounds in a mixture of ten phenylureas up to a concentration of 5 to 10 μg L⁻¹ for each compound when handling 50 mL water samples through a precolumn packed with 0.22 g of IS. Under these conditions, reliable quantitative results are obtained because calibration curves are similar when compounds are alone or in a mixture. Application to the clean-up of soil extracts illustrates the high selectivity and the high potential of these new sorbents in environmental analysis. Presented at the 21^st ISC held in Stuttgart, Germany, 15^th–20^th September, 1996     

Spectroscopic and quantum chemical studies on the structure of 2-arylquinoline-4(1H)-thione derivatives

The geometries of the title compounds were probed in solution, solid and gas states using spectroscopic methods, X-ray crystallography and quantum chemical techniques. The exclusive existence of the NH-4-thiones in solution (NMR and PCM-B3LYP(MP2)/6-31+G(d) calculations) and solid state (FT-IR and X-ray) is also corroborated by comparison of their spectroscopic data with those of the corresponding 2-aryl-1-methylquinoline-4(1H)-thione derivatives. The co-existence of the quinoline-4-thione and quinoline-4-thiol (4-mercaptoquinoline) isomers in the gas phase is confirmed by mass spectrometry and the preponderance of the 4-thiol is supported by quantum chemical techniques (PM3, MP2 and B3LYP).     

Spectrophotometric determination of iron as phenylfluorone complex sensitized with Triton X-100

Summary The effect of some surfactants and protective colloids on the absorbance of the iron(III)-phenylfluorone complex has been investigated. The binary complex formed at pH 9.0 show a molar absorptivity of 7.5×10⁴ l · mol^–1 · cm^–1 at 530 nm. In the presence of 2% Triton X-100, at the same pH, the molar absorptivity of the sensitized complex was 1.19×10⁵ l · mo^–1 · cm^–1 at 555 nm. Full colour development of the sensitized complex occurred within 25 min and Beer's law was followed up to 0.53 ppm of iron. The molar ratio and continuous variation methods indicated a 13 metal-ligand ratio for the sensitized complex. The effect of various amounts of different ions has been studied under the experimental conditions and some masking agents were recommended. The method has been applied to the determination of iron in copper and nickel metals and some non-ferrous alloys.

---

Spektralphotometrische Bestimmung von Eisen als Phenylfluoronkomplex sensibilisiert mit Triton X-100

     

Quantitative effect of nonionic surfactant partitioning on the hydrophile-lipophile balance temperature

Phase behaviors of water/nonionic surfactants/isooctane systems are determined experimentally in temperature-global surfactant concentration diagrams. The surfactants are monodistributed polyoxyethylene glycol n-dodecyl ether. They are used as model mixtures of two, three, or five compounds or as constituents of a commercial surfactant. It is found that the phase diagrams of these systems are bent gradually toward the highest temperatures as the global surfactant concentration decreases. Each phase diagram is well-characterized by the curve of the HLB (hydrophile-lipophile balance) temperature versus the global surfactant concentration. For any fixed global surfactant concentration, this temperature is the middle temperature of the three-phase region; it can be calculated from an additive rule of the HLB temperatures of the surfactants weighted by their mole fractions at the water/oil interface. These mole fractions are determined through the pseudophase model using surfactant partitioning. Calculations require the knowledge of the critical micelle concentration, the partition coefficient between water and oil, and the HLB temperature of each surfactant of the mixture. This treatment can be used to correctly predict the variation of the HLB temperatures of the surfactant mixtures studied versus the global surfactant concentration. Furthermore, these calculations show that the observed curvature of the phase diagrams at the lowest global concentrations is due to the most favorable partitioning toward the oil of the lowest ethoxylated surfactant molecules.     

Tracking the optical mass centroid of single electroactive nanoparticles reveals the electrochemically inactive zone

The inevitable microstructural defects, including cracks, grain boundaries and cavities, make a portion of the material inaccessible to electrons and ions, becoming the incentives for electrochemically inactive zones in single entity. Herein, we introduced dark field microscopy to study the variation of scattering spectrum and optical mass centroid (OMC) of single Prussian blue nanoparticles during electrochemical reaction. The “dark zone” embedded in a single electroactive nanoparticle resulted in the incomplete reaction, and consequently led to the misalignment of OMC for different electrochemical intermediate states. We further revealed the dark zones such as lattice defects in the same entity, which were externally manifested as the fixed pathway for OMC for the migration of potassium ions. This method opens up enormous potentiality to optically access the heterogeneous intraparticle dark zones, with implications for evaluating the crystallinity and electrochemical recyclability of single electroactive nano-objects.

The schematic of single cubic-shaped Prussian blue (PB) mesocrystals formed by the oriented aggregation of small nanocrystals. The dark-field images of single PB nanoparticle at PB and Prussian white (PW) states, respectively.