Browsing by Subject "116 Chemical sciences"

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  • Fliri, Lukas; Partl, Gabriel; Gelbrich, Thomas; Kahlenberg, Volker; Laus, Gerhard; Schottenberger, Herwig (2017)
    The title compound, C$sb 21$H$sb 12$Br$sb 2$F$sb 13$NO$ot$2CH$sb 3$OH, was obtained by condensation of 4-methyl-1-(1it H,1it H,2it H,2it H-perfluorooctyl)pyridinium iodide and 3,5-dibromo-4-hydroxybenzaldehyde, followed by deprotonation. It crystallizes as a methanol disolvate and exhibits short O---H$ots$O hydrogen bonds and a disordered perfluoroalkyl chain [occupancy ratio 0.538(7):0.462(7)]. Significant $--$ stacking interactions are observed between the benzene and pyridine rings of neighbouring molecules along the it b-axis direction.
  • Aly, Ashraf A.; Hassan, Alaa A.; Bräse, Stefan; Ibrahim, Mahmoud A. A.; Abd Al-Latif, El-Shimaa S. M.; Spuling, Eduard; Nieger, Martin (2017)
    Bisthioureas reacted with either 2-(bis(methylthio)methylene)malononitrile or ethyl 2-cyano-3,3-bis(methylthio)acrylate to give 1,3,4-thiadiazoles and 1,3-thiazoles. Only, the reactive allyl derivative of bisthioureas reacted with the bis(methylthio)methylene compounds to give 1,3-thiazoles. The mechanism was discussed. The structures of products were proved by MS, IR, NMR and elemental analyses and X-ray structure analysis. [GRAPHICS]
  • Virjamo, Virpi; Fyhrquist, Pia; Koskinen, Akseli; Lavola, Anu; Nissinen, Katri; Julkunen-Tiitto, Riitta (2020)
    Knowledge about the defensive chemistry of coniferous trees has increased in recent years regarding a number of alkaloid compounds; in addition to phenolics and terpenes. Here, we show that Norway spruce (Picea abies (L.) H. Karst.), an important boreal zone tree species; accumulates 1,6-dehydropinidine (2-methyl-6-(2-propenyl)-1,6-piperideine) in its needles and bark. We reanalyzed previously published GC-MS data to obtain a full picture of 1,6-dehydropinidine in P. abies. 1,6-dehydropinidine appeared to especially accumulate in developing spring shoots. We used solid-phase partitioning to collect the alkaloid fraction of the sprouts and thin-layer chromatography to purify 1,6-dehydropinidine. The antibacterial properties of the 1,6-dehydropinidine fraction were tested using a broth microdilution method; with Streptococcus equi subsp. equi as a model organism. Based on our results 1,6-dehydropinidine is common in alkaloid extractions from P. abies (0.4 +/- 0.03 mg g(-1) dw in mature needles) and it is especially abundant in young spruce shoots (2.7 +/- 0.5 mg g(-1) dw). Moreover; 1,6-dehydropinidine extracted from P. abies sprouts showed mild antibacterial potential against Streptococcus equi subsp. equi (MIC 55 mu g mL(-1)). The antibacterial activity of a plant compound thought of as an intermediate rather than an end-product of biosynthesis calls for more detailed studies regarding the biological function of these coniferous alkaloids
  • McVey, Alyssa; Bartlett, Sean; Kajbaf, Mahmoud; Pellacani, Annalisa; Gatta, Viviana; Tammela, Päivi; Spring, David R.; Welch, Martin (2020)
    Pseudomonas aeruginosa is an opportunistic pathogen responsible for many hospital-acquired infections. P. aeruginosa can thrive in diverse infection scenarios by rewiring its central metabolism. An example of this is the production of biomass from C-2 nutrient sources such as acetate via the glyoxylate shunt when glucose is not available. The glyoxylate shunt is comprised of two enzymes, isocitrate lyase (ICL) and malate synthase G (MS), and flux through the shunt is essential for the survival of the organism in mammalian systems. In this study, we characterized the mode of action and cytotoxicity of structural analogs of 2-aminopyridines, which have been identified by earlier work as being inhibitory to both shunt enzymes. Two of these analogs were able to inhibit ICL and MS in vitro and prevented growth of P. aeruginosa on acetate (indicating cell permeability). Moreover, the compounds exerted negligible cytotoxicity against three human cell lines and showed promising in vitro drug metabolism and safety profiles. Isothermal titration calorimetry was used to confirm binding of one of the analogs to ICL and MS, and the mode of enzyme inhibition was determined. Our data suggest that these 2-aminopyridine analogs have potential as anti-pseudomonal agents.
  • Batsyts, Sviatoslav; Vedmid, Roman; Namyslo, Jan C.; Nieger, Martin; Schmidt, Andreas (2019)
    1-Methylquinolinium salts substituted at the C3 position with phenyl, naphthalen-1-yl, phenanthren-9-yl, and pentaphenyl phenyl as well as aryl ethynyl substituents were prepared. The phenyl, naphthalen-1-yl, and phenanthren-9-yl substituents are in conjugation with the quinolinium ring, and the sterically crowded pentaphenyl phenyl residue causes a propeller-type molecule possessing a calculated dihedral angle between aryl substituent and the quinolinium ring of approximately 54 degrees. The different influences of the substituents including the aryl ethynyl residues on the pi-architecture is well reflected in their frontier orbital profiles, their spectroscopic properties, and in their ability to form N-heterocyclic carbenes. The latter were generated from the C3-aryl substituted quinolinium salts and trapped as sulfur and selenium adducts, whereas the aryl ethynyl substituted derivatives failed to undergo the NHC generation under the conditions applied. Se-77 NMR measurements of the corresponding selenones reveal that quinolin-2-ylidenes are electron poor carbenes with strong pi-acceptor character.
  • Bulatov, Evgeny; Lahtinen, Elmeri; Kivijärvi, Lauri; Hey-Hawkins, Evamarie; Haukka, Matti (2020)
    Selective laser sintering (SLS) 3d printing was utilized to manufacture a solid catalyst for Suzuki-Miyaura cross-coupling reactions from polypropylene as a base material and palladium nanoparticles on silica (SilicaCat Pd(0)R815-100 by SiliCycle) as the catalytically active additive. The 3d printed catalyst showed similar activity to that of the pristine powdery commercial catalyst, but with improved practical recoverability and reduced leaching of palladium into solution. Recycling of the printed catalyst led to increase of the induction period of the reactions, attributed to the pseudo-homogeneous catalysis. The reaction is initiated by oxidative addition of aryl iodide to palladium nanoparticles, resulting in formation of soluble molecular species, which then act as the homogeneous catalyst. SLS 3d printing improves handling, overall practicality and recyclability of the catalyst without altering the chemical behaviour of the active component.
  • Meister, Anne C.; Lang, Mathias; Nieger, Martin; Bräse, Stefan (2013)
  • Aly, Ashraf A.; El-Emary, Talaat; Mourad, Aboul-Fetouh E.; Alyan, Zainab Khallaf; Bräse, Stefan; Nieger, Martin (2019)
    5-Carbohydrazides and 5-carbonylazides of pyrazolo[3,4-b]pyridines are used to synthesize new heterocyclic derivatives. Some unexpected behaviors are observed in the reactions of the above two species. The structures of the obtained compounds are proved by spectroscopic studies together with elemental and X-ray structure analyses.
  • Donsbach, Carsten; Reiter, Kevin; Sundholm, Dage; Weigend, Florian; Dehnen, Stefanie (2018)
    The use of ionic liquids (C(n)C(1)Im)[BF4] with long alkyl chains (n=10,12) in the ionothermal treatment of Na-2[HgTe2] led to lamellar crystal structures with molecular macrocyclic anions [Hg8Te16](8-) (1), the heaviest known topological relative of porphyrin. [Hg8Te16](8-) differs from porphyrin by the absence of an electronic pi-system, which prevents a global aromaticity. Quantum chemical studies reveal instead small ring currents in the pyrrole-type five-membered rings that indicate weak local (sigma) aromaticity. As a result of their lamellar nature, the compounds are promising candidates for the formation of sheets containing chalcogenidometalate anions.
  • Zhou, Kecheng; Dichlberger, Andrea; Martinez-Seara, Hector; Nyholm, Thomas K. M.; Li, Shiqian; Kim, Young Ah; Vattulainen, Ilpo; Ikonen, Elina; Blom, Tomas (2018)
    Membrane proteins are functionally regulated by the composition of the surrounding lipid bilayer. The late endosomal compartment is a central site for the generation of ceramide, a bioactive sphingolipid, which regulates responses to cell stress. The molecular interactions between ceramide and late endosomal transmembrane proteins are unknown. Here, we uncover in atomistic detail the ceramide interaction of Lysosome Associated Protein Transmembrane 4B (LAPTM4B), implicated in ceramide-dependent cell death and autophagy, and its functional relevance in lysosomal nutrient signaling. The ceramide-mediated regulation of LAPTM4B depends on a sphingolipid interaction motif and an adjacent aspartate residue in the protein's third transmembrane (TM3) helix. The interaction motif provides the preferred contact points for ceramide while the neighboring membrane-embedded acidic residue confers flexibility that is subject to ceramide-induced conformational changes, reducing TM3 bending. This facilitates the interaction between LAPTM4B and the amino acid transporter heavy chain 4F2hc, thereby controlling mTORC signaling. These findings provide mechanistic insights into how transmembrane proteins sense and respond to ceramide.
  • Sanwald, Corinna; Robciuc, Alexandra; Ruokonen, Suvi-Katriina; Wiedmer, Susanne K.; Lammerhofer, Michael (2019)
    This work presents the development and validation of a quantitative HILIC UHPLC-ESI-QTOF-MS/MS method for amino acids combined with untargeted metabolic profiling of human corneal epithelial (HCE) cells after treatment with ionic liquids. The work included a preliminary metabotoxicity screening of 14 different ionic liquids, of which 9 carefully selected ionic liquids were chosen for a metabolomics study. This study is focused on the correlation between the toxicity of the ionic liquids and their metabolic profiles. The method development included the comparison of different MS/MS acquisition modes. A sequential window acquisition of all theoretical fragment ion mass spectra (SWATH) method with variable Q1 window widths and narrow Q1 target windows of 5 Da for most of the amino acids was selected as the optimal acquisition mode. Due to the absence of a true blank matrix, C-13,N-15-isotopically labelled amino acids were utilized as surrogate calibrants, instead of proteinogenic amino acids. Partial least squares (PLS) analysis of the median effective concentrations (EC50) of 9 selected ionic liquids showed a correlation with their metabolic profile measured by the untargeted screening.
  • Gomez Millan, Gerardo; Hellsten, Sanna; King, Alistair W. T.; Pokki, Juha-Pekka; Llorca, Jordi; Sixta, Herbert (2019)
    Furfural (FUR) was produced from xylose using a biphasic batch reaction system. Water-immiscible organic solvents such as isophorone, 2-methyltetrahydrofuran (2-MTHF) and cyclopentyl methyl ether (CPME) were used to promptly extract FUR from the aqueous phase in order to avoid the degradation to humins as largely as possible. The effect of time, temperature, organic solvent and organic-to-aqueous ratio on xylose conversion and FUR yield were investigated in auto-catalyzed conditions. Experiments at three temperatures (170, 190 and 210 degrees C) were carried out in a stirred microwave-assisted batch reactor, which established the optimal conditions for achieving the highest FUR yield. The maximum FUR yields from xylose were 78 mol% when using CPME, 48 mol% using isophorone and 71 mol% in the case of 2-MTHF at an aqueous to organic phase ratio of 1:1 (v/v). Birch hydrolysate was also used to show the high furfural yield that can be obtained in the biphasic system under optimized conditions. The present study suggests that CPME can be used as a green and efficient extraction solvent for the conversion of xylose into furfural without salt addition. (C) 2019 The Korean Society of Industrial and Engineering Chemistry. Published by Elsevier B.V. All rights reserved.
  • Oswald, R.; Ermel, M.; Hens, K.; Novelli, A.; Ouwersloot, H. G.; Paasonen, Pauli; Petäjä, Tuukka; Sipilä, Mikko; Keronen, Petri; Bäck, Jaana; Konigstedt, R.; Beygi, Z. Hosaynali; Fischer, H.; Bohn, B.; Kubistin, D.; Harder, H.; Martinez, M.; Williams, J.; Hoffmann, T.; Trebs, I.; Soergel, M. (2015)
  • Hassan, Alaa A.; Mohamed, Nasr K.; El-Shaieb, Kamal M. A.; Tawfeek, Hendawy N.; Bräse, Stefan; Nieger, Martin (2019)
    2-Substituted hydrazinecarbothioamides and N ,2-disubstituted hydrazinecarbothioamides react in high yield with dimethyl acetylenedicarboxylate (DMAD) to give 4-oxo-Z-(thiazolidin-5-ylidene) acetate derivatives. Several mechanistic options involving interaction are presented. The structures of thiazolidin-4-ones have been unambiguously confirmed by single crystal X-ray crystallography. (C) 2014 The Authors. Production and hosting by Elsevier B.V. on behalf of King Saud University.
  • Sathyanarayanan, Gowtham; Haapala, Markus; Dixon, Christopher; Wheeler, Aaron R.; Sikanen, Tiina M. (2020)
    Microfluidic sample manipulation is a key enabler in modern chemical biology research. Both discrete droplet-based digital microfluidic (DMF) assays and continuous flow in-channel assays are well established, each featuring unique advantages from the viewpoint of automation and parallelization. However, there are marked differences in the applicable microfabrication materials and methods, which limit the interfacing of DMF sample preparation with in-channel separation systems, such as the gold standard microchip electrophoresis. Simultaneously, there is an increasing demand for low-cost and user-friendly manufacturing techniques to foster the adaptation of microfluidic technology in routine laboratory analyses. This work demonstrates integration of DMF with in-channel separation systems using only low-cost and accessible (non-cleanroom) manufacturing techniques, i.e., inkjet printing of silver for patterning of the driving electrodes and UV curing of off-stoichiometric thiol-ene (OSTE) polymers both for dielectric coating of the electrode arrays and replica molding of the microchannel network. As a dielectric, OSTE performs similar to Parylene C (a gold standard dielectric in electrowetting), whereas its tunable surface and bulk properties facilitate straightforward bonding of the microchannel with the dielectric layer. In addition, a new chip design that facilitates efficient droplet transfer from the DMF part to the microchannel inlet solely by electrowetting is showcased.
  • Schlindwein, Simon H.; Sibold, Carlo; Schenk, Mareike; Ringenberg, Mark R.; Feil, Christoph M.; Nieger, Martin; Gudat, Dietrich (2020)
    The ability of 3-(diphenylphosphinomethyl)-benzene-1,2-dithiol (pbdtH(2)) to act as ditopic ligand was probed in reactions with selected group-10-metal complexes. Reactions with [(cod)PdCl2] afforded a mixture of products identified as [Pd(pbdtH)(2)], [Pd-2(mu(2)-pbdt)(2)] and [Pd-3(mu(2)-pbdt)(2)Cl-2]. The polynuclear complexes could be isolated after suitably adjusting the reaction conditions, and heating of a mixture in a microwave reactor effected partial conversion into a further complex [Pd-3(mu(2)-pbdt)(3)]. Reaction of pbdtH(2) with [Ni(H2O)(6)Cl-2] gave rise to a complex [Ni-2(mu(2)-pbdt)(2)], which was shown to undergo two reversible 1e(-)-reduction steps. Reaction of [Pd(pbdtH)(2)] with [Au(PPh3)Cl] afforded heterotrinuclear [PdAu2(mu(2)-pbdt)(2)(PPh3)]. All complexes were characterized by analytical, spectroscopic and single-crystal X-ray diffraction studies. Their molecular structures confirm the ability of the pbdt(2-) unit to support simultaneous P,S- and S,S-chelating coordination to two metal centers.
  • Weller, Stefan; Schlindwein, Simon H.; Feil, Christoph M.; Kelemen, Zsolt; Buzsaki, Daniel; Nyulaszi, Laszlo; Isenberg, Stefan; Pietschnig, Rudolf; Nieger, Martin; Gudat, Dietrich (2019)
    Reactions of P-chloro-1,3,2-diazaphospha[3]ferrocenophanes with ECl3 (E = Al, Ga) under solvent-free conditions and with Na[Mn(CO)(5)] furnished salts featuring a ferrocenophane-based phosphenium cation and neutral phosphenium complexes, respectively. All products were characterized by spectroscopic studies. Single-crystal X-ray diffraction studies confirmed the ionic nature of the phosphenium tetrachloroaluminate and the structural analogy between the phosphenium complexes and Fischer-type carbene complexes. Distinct deviations in the conformation of the ansa bridge suggest electronic stabilization of the electrophilic phosphorus atom by phosphorus-nitrogen pi interactions in the free cation and by phosphorus-metal pi bonding in the complexes. The observation of short intermolecular contacts in the crystalline phosphenium salt and its chemical behavior toward donor solvents attest to the cation having an unusually high degree of Lewis acidity, which was confirmed by DFT studies and related to the presence of a rather large N-P-N angle. Computational studies indicate further that the free phosphenium cation exhibits a closed-shell electronic structure with a formal Fe(II) oxidation state and is thus a true analogue to ferrocenophane-based diaminotetrylenes.
  • Räisänen, Riikka; Montero, Gerardo A.; Freeman, Harold S. (2021)
    Bio-based materials and new dyeing technologies have gained growing interest, as companies actively want to enhance their products sustainability and remove environmental and hazardous pollutants. This article describes for the first time waterless dyeing studies using supercritical carbon dioxide (SC-CO2) and a natural anthraquinone dye emodin for polylactide (PLA) and polyester (PET) fabric colouration. The colour of the dyed materials was measured as CIELab values, and the K/S (lambda(max,abs)) value was reported. Colour fastness to rubbing and light was studied according to the relevant ISO standards. The results show that the small size and hydrophobic nature of the anthraquinone dye resulted in a uniform dyeing on PLA and PET fabrics with SC-CO2 dyeing medium. The excellent rubbing fastness, and microscopic evaluation revealed that the dye had penetrated into the fiber structure completely. Also the light fastness properties were exceptionally high for natural dyes. Increased usage of biodegradable and recycled materials in textiles would benefit from biocolourants which are stable under end-use conditions, produce bright colours and have acceptable tinctorial strength.
  • Parkkinen, Pauli; Losilla, Sergio A.; Solala, Eelis; Toivanen, Elias A.; Xu, Wen-Hua; Sundholm, Dage (2017)
    A grid-based fast multipole method (GB-FMM) for optimizing three-dimensional (3D) numerical molecular orbitals in the bubbles and cube double basis has been developed and implemented. The present GB-FMM method is a generalization of our recently published GB-FMM approach for numerically calculating electrostatic potentials and two-electron interaction energies. The orbital optimization is performed by integrating the Helmholtz kernel in the double basis. The steep part of the functions in the vicinity of the nuclei is represented by one-center bubbles functions, whereas the remaining cube part is expanded on an equidistant 3D grid The integration of the bubbles part is treated by using one-center expansions of the Helmholtz kernel in spherical harmonics multiplied with modified spherical Bessel functions of the first and second kind, analogously to the numerical inward and outward integration approach for calculating two-electron interaction potentials in atomic structure calculations. The expressions and algorithms for massively parallel calculations on general purpose graphics processing units (GPGPU) are described. The accuracy and the correctness of the implementation has been checked by performing Hartree-Fock self-consistent-field calculations (HF-SCF) on H-2, H2O, and CO. Our calculations show that an accuracy of 10(-4) to 10(-7) E-h can be reached in HF-SCF calculations on general molecules.
  • Vidilaseris, Keni; Kellosalo, Juho; Goldman, Adrian (2018)
    Membrane-bound pyrophosphatases (mPPases) are homodimeric integral membrane proteins that hydrolyse pyrophosphate into orthophosphates coupled to the active transport of protons or sodium ions across membranes. They occur in bacteria, archaea, plants, and protist parasites. As they are essential in protist parasites and there are no homologous proteins in animals and humans, these enzymes represent an excellent drug target for treating protistal diseases. Experimental screening to find drug candidates is an important step to discover new hit compounds. For that, a cheap, simple, and robust assay is needed. Here we report the application of the molybdenum blue reaction method for a medium throughput microplate activity assay of the hyperthermophilic bacterium Thermotoga maritima mPPase and the possible application of the assay to screen inhibitors of membrane-bound pyrophosphatases.