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  • 1. Aeluri, Madhu
    et al.
    Pramanik, Chinmoy
    Chetia, Lakshindra
    Mallurwar, Naveen Kumar
    Balasubramanian, Sridhar
    Chandrasekar, Gayathri
    Södertörn University, School of Natural Sciences, Technology and Environmental Studies.
    Kitambi, Satish Srinivas
    Södertörn University, School of Natural Sciences, Technology and Environmental Studies. Karolinska Institute.
    Arya, Prabhat
    14-Membered Macrocyclic Ring-Derived Toolbox: The Identification of Small Molecule Inhibitors of Angiogenesis and Early Embryo Development in Zebrafish Assay2013In: Organic Letters, ISSN 1523-7060, E-ISSN 1523-7052, Vol. 15, no 3, p. 436-439Article in journal (Other academic)
    Abstract [en]

    A highly practical and modular synthesis to obtain a diverse 14-membered ring-based macrocyclic toolbox is achieved. These compounds were further tested in zebrafish assays related to early embryonic development, angiogenesis, and neurogenesis, respectively. 1.4c was Identified as an antiangiogenesis agent.

  • 2.
    Ahlsten, Nanna
    Stockholm University, Faculty of Science, Department of Organic Chemistry.
    Transition metal-catalysed isomerisation of allylic alcohols: Applications to C−C, C−F and C−Cl bond formation2013Doctoral thesis, comprehensive summary (Other academic)
    Abstract [en]

    The focus of this thesis has been to develop selective and atom-economical methods for carbon-carbon and carbon-heteroatom bond formation, and to some extent improve on existing findings in this area. More specifically, methods for the catalytic generation of enolates from allylic alcohols and their in situ functionalisation with electrophilic reagents are described.  

    In the first part of this thesis, a method for the Rh-catalysed redox-isomerisation of allylic alcohols into carbonyl compounds under environmentally benign conditions is described. The reaction takes place at room temperature, in the absence of acids or bases, using water as the only solvent, and it is applicable to both primary and secondary allylic alcohols.

    The second part describes the combination of an isomerisation reaction of allylic alcohols with a C−C bond formation, catalysed by a rhodium complex. In this way, allylic alcohols were coupled with aldehydes and N-tosylimines to give aldol and Mannich-type products. In addition to allylic alcohols, homoallylic and bishomoallylic alcohols could be used as enolate precursors, and this is the first report where the latter two substrate types have been used in such a reaction.       

    In the remaining parts of the thesis, an iridium-catalysed isomerisation of allylic alcohols has been combined with an electrophilic halogenation step to provide a conceptually new method for the synthesis of α-halogenated carbonyl compounds. In this way, α-fluoro and α-chloroketones have been synthesised as single constitutional isomers, with the regiochemistry of the final products determined by the position of the double bond in the allylic alcohols. The reactions are tolerant to air, run in water-organic solvent mixtures, and proceed at room temperature.

  • 3. Ahmad, Anees
    et al.
    Scarassati, Paulo
    Jalalian, Nazli
    Stockholm University, Faculty of Science, Department of Organic Chemistry. Universidade de São Paulo, Brazil.
    Olofsson, Berit
    Stockholm University, Faculty of Science, Department of Organic Chemistry.
    Silva, Luiz F., Jr.
    Oxidative rearrangement of alkenes using in situ generated hypervalent iodine(III)2013In: Tetrahedron Letters, ISSN 0040-4039, E-ISSN 1359-8562, Vol. 54, no 43, p. 5818-5820Article in journal (Refereed)
    Abstract [en]

    A novel protocol for the oxidative rearrangement of alkenes using in situ generated hypervalent iodine(III) was developed. This approach uses inexpensive, readily available, and stable chemicals (PhI, mCPBA, and TsOH) giving rearrangement products in yields comparable to those obtained using the more expensive commercially available [hydroxy(tosyloxy)iodo]benzene [HTIB or Koser's reagent]. Additionally, an alternative protocol for the synthesis of 1-methyl-2-tetralone through the one-step epoxidation/rearrangement of 4-methyl-1,2-dihydronaphthalene using mCPBA and TsOH was developed.

  • 4.
    Alam, Rauful
    et al.
    Stockholm University, Faculty of Science, Department of Organic Chemistry.
    Mihai, Raducan
    Stockholm University, Faculty of Science, Department of Organic Chemistry.
    Eriksson, Lars
    Stockholm University, Faculty of Science, Department of Materials and Environmental Chemistry (MMK), Inorganic and Structural Chemistry.
    Szabo, Kalman J.
    Stockholm University, Faculty of Science, Department of Organic Chemistry.
    Selective Formation of Adjacent Stereocenters by Allylboration of Ketones under Mild Neutral Conditions2013In: Organic Letters, ISSN 1523-7060, E-ISSN 1523-7052, Vol. 15, no 10, p. 2546-2549Article in journal (Refereed)
    Abstract [en]

    Allylboronic acids readily react with a broad variety of ketones, affording homoallylic alcohols with adjacent quaternary and tertiary stereocenters. The reaction proceeds with very high anti stereoselectivity even if the substituents of the keto group have a similar size. a-Keto acids react with syn stereoselectivity probably due to the formation of acyl boronate intermediates. The allylation reactions proceed without added acids/bases under mild conditions. Because of this, many functionalities are tolerated even with in situ generated allylboronic acids.

  • 5.
    Alam, Rauful
    et al.
    Stockholm University, Faculty of Science, Department of Organic Chemistry.
    Raducan, Mihai
    Stockholm University, Faculty of Science, Department of Organic Chemistry.
    Eriksson, Lars
    Stockholm University, Faculty of Science, Department of Materials and Environmental Chemistry (MMK).
    Szabó, Kálmán J.
    Stockholm University, Faculty of Science, Department of Organic Chemistry.
    Diastereoselective allylboration of wide variety of carbonyl compounds using allylboronic acids: Construction of adjacent tertiary and quaternary centers2013In: Abstracts of papers of The American Chemical Society, American Chemical Society (ACS), 2013, Vol. 246, p. 364-ORGN-Conference paper (Refereed)
  • 6.
    Alamsetti, Santosh Kumar
    et al.
    Stockholm University, Faculty of Science, Department of Organic Chemistry.
    Persson, Andreas K. A.
    Stockholm University, Faculty of Science, Department of Organic Chemistry.
    Jiang, Tuo
    Stockholm University, Faculty of Science, Department of Organic Chemistry.
    Bäckvall, Jan-E.
    Stockholm University, Faculty of Science, Department of Organic Chemistry.
    Scalable Synthesis of Oxazolones from Propargylic Alcohols through Multistep Palladium(II) Catalysis: beta-Selective Oxidative Heck Coupling of Cyclic Sulfonyl Enamides and Aryl Boroxines2013In: Angewandte Chemie International Edition, ISSN 1433-7851, E-ISSN 1521-3773, Vol. 52, no 51, p. 13745-13750Article in journal (Refereed)
  • 7.
    Albers, Michael F
    et al.
    Department of Chemical Biology, Max Planck Institute for Molecular Physiology.
    Hedberg, Christian
    Amino acid building blocks for Fmoc solid-phase synthesis of peptides phosphocholinated at serine, threonine, and tyrosine2013In: Journal of Organic Chemistry, ISSN 0022-3263, E-ISSN 1520-6904, Vol. 78, no 6, p. 2715-2719Article in journal (Refereed)
    Abstract [en]

    Phosphocholination of eukaryotic host cell proteins has recently been identified as a novel post-translational modification important for bacterial pathogenesis. Here, we describe the first straightforward synthetic strategy for peptides containing phosphocholinated serine, threonine, or tyrosine residues using preformed functional amino acid building blocks, fully compatible with standard Fmoc solid-phase peptide synthesis.

  • 8.
    Alvi, Muhammad Rouf
    et al.
    Uppsala University, Disciplinary Domain of Science and Technology, Chemistry, Department of Chemistry - BMC, Physical Organic Chemistry.
    Burkhard O., Jahn
    Uppsala University, Disciplinary Domain of Science and Technology, Chemistry, Department of Chemistry - BMC.
    Ottosson, Henrik
    Uppsala University, Disciplinary Domain of Science and Technology, Chemistry, Department of Chemistry - BMC, Physical Organic Chemistry.
    Computational Investigation of Brook-Type Silabenzenes and Their Possible Formation through [1,3]-Si -> O Silyl Shifts2013In: Organometallics, ISSN 0276-7333, E-ISSN 1520-6041, Vol. 32, no 1, p. 16-28Article in journal (Refereed)
    Abstract [en]

    Quantum chemical calculations with the M062X hybrid meta density functional theory method were performed in order to examine formation of Brook-type silabenzenes 4a 4l, silapyridines 6a 6d, and five-membered ring silaheteroaromatics 8a8d through [1,3]-trimethylsilyl (TMS) and [1,3]-tri(isopropyl)silyl (TIPS) shifts from a tetrahedral silicon atom to an adjacent carbonyl oxygen of cyclic conjugated acylsilane precursors. All Brook-type silabenzenes and silapyridines, having a 2-trialkylsiloxy substituent, are at lower relative energies than their precursors, whereas silaheteroaromatics 8a 8d are found at slightly higher energies. The free energies of activation for the thermal [1,3]-TMS shifts range from 29 to 44 kcal/mol, with the lowest for a Brook-type silapyridine and the highest for a silafuran. The geometries of the Brook-type silabenzenes, silapyridines, silafuran and silathiophene indicate aromatic character, but the silapyrroles are nonaromatic. At M062X/6-311+G(d)//M062X/6-31G(d) level all Brook-type silabenzene dimers studied herein are more stable than two silabenzenes, also for a silabenzene with bulky TIPS, OTIPS and tert-butyl substituents (4l). Yet, comparisons of the B3LYP/6-31G(d) dimerization energies of 4l with that of the isolable 1-Tbt-silabenzene (Tbt = 2,4,6-tris[bis(trimethylsilyl)methyl]phenyl) of Tokitoh [J. Chin. Chem. Soc. 2008, 55, 487] indicate that 4l will also be a monomeric silabenzene, and thus, a suitable synthetic target.

  • 9.
    Ankerfors, M.
    et al.
    RISE, Innventia.
    Duker, E.
    Lindström, T.
    RISE, Innventia.
    Topo-chemical modification of fibres by grafting of carboxymethyl cellulose in pilot scale2013In: Nordic Pulp and Paper Research Journal, ISSN 0283-2631 , no 1, p. 6-14Article in journal (Refereed)
  • 10.
    Arkhypchuk, Anna
    Uppsala University, Disciplinary Domain of Science and Technology, Chemistry, Department of Chemistry - Ångström, Molecular Biomimetics.
    Novel Approaches to Phosphorus-containing Heterocycles and Cumulenes2013Doctoral thesis, comprehensive summary (Other academic)
    Abstract [en]

    Fast development in all areas of life and science over the last 50 years demands versatile, energy efficient and cheap materials with specific but easily tuneable properties which can be used for example in organic light emitting diodes (OLEDs), thin-film transistors, photovoltaic cells, etc. This thesis is devoted to the development of novel synthetic approaches to molecules with potential applications in the field of molecular electronics.  The acquisition of a detailed mechanistic understanding of the newly developed reactions is central to the work presented in this thesis.

    The first chapter is dedicated to the development of a new procedure for the preparation of phospha-Wittig-Horner (pWH) reagents, i.e. a reagents that has been known to convert carbonyl compounds into compounds with P=C double bonds. Each step of the synthetic sequence, i.e. preparation of the starting P,P-dichlorophosphines, their phosphorylation using the Michaelis-Arbuzov protocol, coordination to the metal centre and final hydrolysis, are presented in detail. A possible route to uncoordinated pWH reagents is also discussed.

    The second chapter focuses on the reactivity of the pWH reagents with acetone under different reaction conditions. The results show how changes in the ratio of starting material vs. base as well as reaction time or structure of the pWH reagent can influence the reaction outcome and the stability of the obtained products. The possibility to prepare unusual phosphaalkenes with unsaturated P-substituents is presented.

    The third chapter of the thesis is dedicated to the reactivity of pWH reagents towards symmetric and asymmetric ketones which contain one or two acetylene units. The proposed mechanisms of the reactions are studied by means of in situ FTIR spectroscopy as well as theoretical calculations. Physical-chemical properties of oxaphospholes, cumulenes and bisphospholes are presented.

    The last chapter is dedicated to reactivity studies of pWH reagents towards ketenes, and the exploration of a reliable route to 1-phosphaallenes. Detailed mechanistic studies of the pWH reaction that are based on the isolation and crystallographic characterization of unique reaction intermediates are presented. The reactivity of phosphaallenes towards nucleophiles such as water and methanol are examined.

    In summary, this thesis presents synthetic routes to novel phosphorus-containing molecules, together with detailed studies of the reaction mechanisms of the observed transformations.

  • 11.
    Arkhypchuk, Anna
    et al.
    Uppsala University, Disciplinary Domain of Science and Technology, Chemistry, Department of Chemistry - Ångström, Molecular Biomimetics.
    Svyaschenko, Yurii
    Uppsala University, Disciplinary Domain of Science and Technology, Chemistry, Department of Chemistry - Ångström, Molecular Biomimetics.
    Orthaber, Andreas
    Uppsala University, Disciplinary Domain of Science and Technology, Chemistry, Department of Chemistry - Ångström, Molecular Biomimetics.
    Ott, Sascha
    Uppsala University, Disciplinary Domain of Science and Technology, Chemistry, Department of Chemistry - Ångström, Molecular Biomimetics.
    Mechanism of the Phospha-Wittig-Horner Reaction2013In: Angewandte Chemie International Edition, ISSN 1433-7851, E-ISSN 1521-3773, Vol. 52, no 25, p. 6484-6487Article in journal (Refereed)
  • 12. Ashitani, T.
    et al.
    Kusumoto, N.
    Borg-Karlson, Anna Karin
    KTH, School of Chemical Science and Engineering (CHE), Chemistry, Organic Chemistry.
    Fujita, K.
    Takahashi, K.
    Antitermite activity of β-caryophyllene epoxide and episulfide2013In: Zeitschrift für Naturforschung C - A Journal of Biosciences, ISSN 0939-5075, E-ISSN 1865-7125, Vol. 68 C, no 7-8, p. 302-306Article in journal (Refereed)
    Abstract [en]

    Caryophyllene-6,7-epoxide and caryophyllene-6,7-episulfide can be easily synthesized from β-caryophyllene by autoxidation or episulfidation. The bioactivities of β-caryophyllene and its derivatives were investigated against the subterranean termite Reticulitermes speratus Kolbe. The antifeedant, feeding, and termiticidal activities of each compound were tested using no-choice, dual-choice, and non-contact methods. Antitermitic activities were not shown by β-caryophyllene, but were observed for the oxide and sulfide derivatives. Caryophyllene- 6,7-episulfide showed especially high antifeedant and termiticidal activities. Thus, naturally abundant, non-bioactive β-caryophyllene can be easily converted into an antitermite reagent via a non-biological process.

  • 13.
    Azeem, Muhammad
    KTH, School of Chemical Science and Engineering (CHE), Chemistry, Organic Chemistry.
    Microbes Associated with Hylobius abietis: A Chemical and Behavioral Study2013Doctoral thesis, comprehensive summary (Other academic)
    Abstract [en]

    This thesis is based on three inter-related studies: the first part deals with the microbial consortium, the identification of microbes and their volatiles, the second part deals with the study of bio-chemical control methods of two conifer pests; the pine weevil Hylobius abietis (L.) and the root rot fungi Heterobasidion spp., and the third part describes the production of styrene by a fungus using forest waste.The large pine weevil (Hylobius abietis L.) is an economically important pest insect of conifers in reforestation areas of Europe and Asia. The female weevils protect their eggs from feeding conspecifics by adding frass (mixture of weevil feces and chewed bark) along with the eggs. In order to understand the mechanism behind frass deposition at the egg laying site and to find repellents/antifeedants for pine weevils, microbes were isolated from the aseptically collected pine weevil frass. Microbial produced volatile organic compounds (VOCs) were collected by solid phase micro extraction and analyzed by GC-MS after cultivating them on weevil frass broth. The major VOCs were tested against pine weevils using a multi-choice olfactometer. Ewingella sp., Mucor racemosus, Penicillium solitum, P. expansum, Ophiostoma piceae, O. pluriannulatum, Debaryomyces hansenii and Candida sequanensis were identified as abundant microbes. Styrene, 6-protoilludene, 1-octene-3-ol, 3-methylanisole, methyl salicylate, 2-methoxyphenol and 2-methoxy-4-vinylphenol were the VOCs of persistently isolated microbes. In behavioral bioassay, methyl salicylate, 3-methylanisole and styrene significantly reduced the attraction of pine weevils to their host plant volatiles. Heterobasidion spp. are severe pathogenic fungi of conifers that cause root and butt rot in plants. Bacterial isolates were tested for the antagonistic activity against fungi on potato dextrose agar. Bacillus subtilis strains significantly inhibited the growth of H. annosum and H. parviporum. Styrene is an industrial chemical used for making polymeric products, currently produced from fossil fuel. A strain of Penicillium expansum isolated from pine weevil frass was investigated for the production of styrene using forest waste. Grated pine stem bark and mature oak bark supplemented with yeast extract produced greater amounts of styrene compared to potato dextrose broth.

  • 14. Barlind, Jonas G.
    et al.
    Buckett, Linda K.
    Crosby, Sharon G.
    Davidsson, Ojvind
    Emtenas, Hans
    Ertan, Anne
    Stockholm University, Faculty of Science, Department of Materials and Environmental Chemistry (MMK).
    Jurva, Ulrik
    Lemurell, Malin
    Gutierrez, Pablo Morentin
    Nilsson, Karolina
    O'Mahony, Gavin
    Petersson, Annika U.
    Redzic, Alma
    Wagberg, Fredrik
    Yuan, Zhong-Qing
    Identification and design of a novel series of MGAT2 inhibitors2013In: Bioorganic & Medicinal Chemistry Letters, ISSN 0960-894X, E-ISSN 1090-2120, Vol. 23, no 9, p. 2721-2726Article in journal (Refereed)
    Abstract [en]

    [Acyl CoA]monoacylglycerol acyltransferase 2 (MGAT2) is of interest as a target for therapeutic treatment of diabetes, obesity and other diseases which together constitute the metabolic syndrome. In this Letter we report our discovery and optimisation of a novel series of MGAT2 inhibitors. The development of the SAR of the series and a detailed discussion around some key parameters monitored and addressed during the lead generation phase will be given. The in vivo results from an oral lipid tolerance test (OLTT) using the MGAT2 inhibitor (S)-10, shows a significant reduction (68% inhibition relative to naive, p < 0.01) in plasma triacylglycerol (TAG) concentration.

  • 15.
    Bartholomeyzik, Teresa
    Stockholm University, Faculty of Science, Department of Organic Chemistry.
    Palladium(II)-Catalyzed Oxidative Carbocyclization/Functionalization of Allenynes2013Licentiate thesis, comprehensive summary (Other academic)
    Abstract [en]

    Palladium catalysis has emerged as an outstanding tool in synthetic organic chemistry for the mild and selective formation of carbon-carbon and carbon-heteroatom bonds. This thesis has been directed towards the extension of palladium(II)-catalyzed carbocyclization chemistry under oxidative conditions. An oxidative carbocyclization/functionalization methodology utilizing boron-containing transmetalation reagents was exploited to convert 1,5-allenynes into either arylated or borylated carbocycles. Two protocols were developed that use minimal amounts of Pd(OAc)2, stoichiometric para-benzoquinone as the oxidant and either bis(pinacolato)diboron or different arylboronic acids under mild conditions. A wide substrate scope is applicable to both methods. When the allenyne substrate bears a propargylic hydrogen, two isomeric functionalized carbocycles can be formed. By controlling the reaction conditions the reaction can be directed towards either of these two isomeric products. Kinetic isotope effect studies suggest that the mechanism leading to the different products proceeds through allylic or propargylic C-H bond cleavage, respectively. Moreover, it was observed that water has an interesting effect on the product selectivity when arylboronic acids are used in the oxidative carbocyclization of allenynes.

  • 16.
    Bashir, Tariq
    et al.
    University of Borås, School of Engineering.
    Bakare, Fatimat
    University of Borås, School of Engineering.
    Baghaei, Behnaz
    University of Borås, School of Engineering.
    Mehrjerdi, Adib Kalantar
    Skrifvars, Mikael
    University of Borås, School of Engineering.
    Influence of different organic solvents and oxidants on insulating and film-forming properties of PEDOT polymer2013In: Iranian polymer journal, ISSN 1026-1265, E-ISSN 1735-5265, Vol. 22, no 8, p. 599-611Article in journal (Refereed)
    Abstract [en]

    Processing of conjugate polymers has always been a challenge because of their poor solubility and infusibility in organic and inorganic solvents. The processibility and applications of intrinsically conductive polymers (ICPs) can be enhanced by producing their solutions or dispersions in different suitable solvents. It can also be achieved by preparing un-doped or electrically neutral polymers, which can further be transformed in semiconductor after oxidation/reduction reaction. The present study focuses on the preparation of active dispersions of poly (3,4-ethylenedioxythiophene) (PEDOT) conductive polymer in various organic solvents. For this purpose, the polymerization of 3,4-ethylenedioxythiophene (EDOT) monomer was carried out in three different organic solvents, ethanol, 1-butanol and acetonitrile with two commonly used oxidants, ferric (III) chloride (FeCl3) and ferric (III) p-toluenesulfonate (FepTS). In this regard, the oxidant and monomer solutions with variable molar concentrations (0.25, 0.5, 1.0 M) were prepared in particular solvents and then these solutions were mixed with different monomer/oxidant volume ratios. The obtained dispersions of PEDOT can readily be polymerized on the surface of different materials after solvent evaporation and a uniform film can be achieved. The effect of molar as well as volume concentrations of EDOT monomer and oxidant on insulating (undoped/neutral) and film forming properties of PEDOT was investigated. These dispersions were applied on a transparent PET film and cellulosic fibers (viscose), dried at room temperature and analyzed using scanning electron microscope (SEM), optical microscope and ATR-FTIR spectroscopic analysis. The electrical characterization of undoped PEDOT-coated fibers was performed on Keithly picoammeter. This study contributes to obtain a simpler and instantaneous polymerization method of PEDOT preparation and to enhance its application area.

  • 17. Battistel, Marcos D.
    et al.
    Pendrill, Robert
    Stockholm University, Faculty of Science, Department of Organic Chemistry.
    Widmalm, Göran
    Stockholm University, Faculty of Science, Department of Organic Chemistry.
    Freedberg, Daron I.
    Direct Evidence for Hydrogen Bonding in Glycans: A Combined NMR and Molecular Dynamics Study2013In: Journal of Physical Chemistry B, ISSN 1520-6106, E-ISSN 1520-5207, Vol. 117, no 17, p. 4860-4869Article in journal (Refereed)
    Abstract [en]

    We introduce the abundant hydroxyl groups of glycans as NMR handle's and structural probes to expand the repertoire of tools for structure function studies on glycans in solution. To this end, we present the facile detection and assignment of hydroxyl groups in a Wide range of sample concentrations (0.5-1700 mM) and temperatures, ranging from -5 to 25 degrees C.,We then exploit this information to directly detect hydrogen bonds, well-known for their importance in molecular structural determination through NMR. Via HSQC-TOCSY, we were able to determine the directionality; of these hydrogen bonds in sucrose Furthermore, by means Of molecular dynamics simulations in conjunction with NMR, we establish that one Out of the three detected hydrogen bonds arises from intermolecular interactions. This finding may shed light on glycan glycan interactions and glycan recognition by proteins.

  • 18.
    Borg, Tessie
    KTH, School of Chemical Science and Engineering (CHE), Chemistry, Organic Chemistry.
    Stereoselective Nucleophilic Additions to Aldehydes and Development of New Methodology in Organic Synthesis2013Doctoral thesis, comprehensive summary (Other academic)
    Abstract [en]

    This thesis is divided into four separate parts with nucleophilic addition to aldehydes as the common feature in three of them.

    The first part deals with the investigation of the stereochemical induction and elucidation of the factors that dictate the p-facial selectivities in Mukaiyama aldol addition to a- and a,b-heteroatom substituted aldehydes. An explanation for the unexpected shift from 1,2-anti to 1,2-syn selectivity seen in the reaction when applying nucleophiles of different sizes in the addition to a-chloro aldehydes is offered.

    The next two parts describes the addition of 1,3-bis(silyl)propenes and C3 substituted 1,3-bis(silyl)propenes to aldehydes and the development of two highly stereoselective new methodologies for the construction of 1,3-dienes and 2,3,4,5-tetrasubstituted tetrahydrofuranes, respectively.

    The last part describes the attempts made towards the total synthesis of (±)-aspidophylline A, where the intention was to apply a domino carbopalladation-carbonylation reaction as the key step in the synthetic route.

  • 19.
    Cadu, Alban
    Uppsala University, Disciplinary Domain of Science and Technology, Chemistry, Department of Chemistry - BMC, Synthetical Organic Chemistry.
    Iridium Catalysed Asymmetric Hydrogenation of Pyridines2013Licentiate thesis, comprehensive summary (Other academic)
    Abstract [en]

    This thesis presents the hydrogenation of substituted pyridines using N,P-ligated iridium catalystsin homogeneous media. These iridium catalysts were developed within this research group in thepast decade. This method of hydrogenation is highly stereoselective, and in several cases good to excellent ees were obtained.The hydrogenation of substituted pyridines was studied: by screening for the catalyst giving thehighest conversion and ee, by optimising the reaction conditions and by attempting to improve existingcatalysts. New substrates were synthesised for this process, in particular alkyl substituted Nprotectedpyridines. Their reduction provided chiral piperidines, which could be used as chiralbuilding blocks once deprotected.

  • 20.
    Cadu, Alban
    et al.
    Uppsala University, Disciplinary Domain of Science and Technology, Chemistry, Department of Chemistry - BMC, Synthetical Organic Chemistry.
    Andersson, Pher G
    Iridium catalysis: Application of asymmetric reductive hydrogenation2013In: Dalton Transactions, ISSN 1477-9226, E-ISSN 1477-9234, Vol. 42, no 40, p. 14345-14356Article in journal (Refereed)
    Abstract [en]

    Iridium, despite being one of the least abundant transition metals, has found several uses. N,P-ligated iridium catalysts are used to perform many highly selective reactions. These methodologies have been developed extensively over the past 15 years. More recently, the application of iridium N,P catalysts in asymmetric hydrogenation has been a focus of research to find novel applications and to expand on their current synthetic utility. The aim of this perspective is to highlight the advances made by the Andersson group.

  • 21. Cadu, Alban
    et al.
    Upadhyay, Puspesh K.
    Stockholm University, Faculty of Science, Department of Organic Chemistry.
    Andersson, Pher G.
    Stockholm University, Faculty of Science, Department of Organic Chemistry. University of Kwazulu Natal, South Africa.
    Iridium-Catalyzed Asymmetric Hydrogenation of Substituted Pyridines2013In: Asian Journal of Organic Chemistry, ISSN 2193-5807, Vol. 2, no 12, p. 1061-1065Article in journal (Refereed)
    Abstract [en]

    Asymmetric hydrogenation of ortho-substituted pyridines catalyzed by N,P-ligated iridium is demonstrated. To facilitate this reaction, the aromaticity of the pyridines was weakened by forming N-iminopyridium ylides. The reactions give very high conversions, and after a single recrystallization, excellent ee of up to 98% was obtained. This method lends itself to the synthesis of chiral piperidine building blocks.

  • 22.
    Cadu, Alban
    et al.
    Uppsala University, Disciplinary Domain of Science and Technology, Chemistry, Department of Chemistry - BMC, Synthetical Organic Chemistry.
    Upadhyay, Puspesh K.
    Uppsala University, Disciplinary Domain of Medicine and Pharmacy, Faculty of Pharmacy, Department of Medicinal Chemistry.
    Andersson, Pher G.
    Stockholm University.
    Iridium-Catalyzed Asymmetric Hydrogenation of Substituted Pyridines2013In: Asian Journal of Organic Chemistry, ISSN 2193-5807, Vol. 2, no 12, p. 1061-1065Article in journal (Refereed)
    Abstract [en]

    Asymmetric hydrogenation of ortho-substituted pyridines catalyzed by N,P-ligated iridium is demonstrated. To facilitate this reaction, the aromaticity of the pyridines was weakened by forming N-iminopyridium ylides. The reactions give very high conversions, and after a single recrystallization, excellent ee of up to 98 % was obtained. This method lends itself to the synthesis of chiral piperidine building blocks.

  • 23.
    Carlsson, Daniel O
    et al.
    Uppsala University, Disciplinary Domain of Science and Technology, Technology, Department of Engineering Sciences, Nanotechnology and Functional Materials.
    Hua, Kai
    Uppsala University, Disciplinary Domain of Science and Technology, Technology, Department of Engineering Sciences, Nanotechnology and Functional Materials.
    Forsgren, Johan
    Uppsala University, Disciplinary Domain of Science and Technology, Technology, Department of Engineering Sciences, Nanotechnology and Functional Materials.
    Mihranyan, Albert
    Uppsala University, Disciplinary Domain of Science and Technology, Technology, Department of Engineering Sciences, Nanotechnology and Functional Materials.
    Aspirin stability in anionically charged crystalline nanocellulose2013Conference paper (Refereed)
  • 24. Carrick, C.
    et al.
    Ruda, M.
    Pettersson, B.
    Larsson, P.T.
    RISE, Innventia.
    Wågberg, L.
    Hollow cellulose capsules from CO2 saturated cellulose solutions: Their preparation and characterization2013In: RSC Advances, ISSN  2046-2069, no 7, p. 2462-2469Article in journal (Refereed)
  • 25. Cervin, Nicholas T.
    et al.
    Andersson, Linnea
    Stockholm University, Faculty of Science, Department of Materials and Environmental Chemistry (MMK).
    Ng, Jovice Boon Sing
    Stockholm University, Faculty of Science, Department of Materials and Environmental Chemistry (MMK).
    Olin, Pontus
    Bergström, Lennart
    Stockholm University, Faculty of Science, Department of Materials and Environmental Chemistry (MMK).
    Wågberg, Lars
    Lightweight and Strong Cellulose Materials Made from Aqueous Foams Stabilized by Nanofibrillated Cellulose2013In: Biomacromolecules, ISSN 1525-7797, E-ISSN 1526-4602, Vol. 14, no 2, p. 503-511Article in journal (Refereed)
    Abstract [en]

    A lightweight and strong porous cellulose material has been prepared by drying aqueous foams stabilized with surface-modified nanofibrillated cellulose (NFC). This material differs from other dry, particle stabilized foams in that renewable cellulose is used as stabilizing particles. Confocal microscopy and high speed video imaging show that the octylamine-coated, rod-shaped NFC nanoparticles residing at the air-liquid interface prevent the air bubbles from collapsing or coalescing. Stable wet foams can be achieved at solids content around 1% by weight. Careful removal of the water results in a cellulose-based material with a porosity of 98% and a density of 30 mg cm(-3). These porous cellulose materials have a higher Young's modulus than porous cellulose materials made from freeze-drying, at comparable densities, and have a compressive energy absorption of 56 kJ m(-3) at 80% strain. Measurement with the aid of an autoporosimeter revealed that most pores are in the range of 300 to 500 mu m.

  • 26. Chassagne, Pierre
    et al.
    Fontana, Carolina
    Stockholm University, Faculty of Science, Department of Organic Chemistry.
    Guerreiro, Catherine
    Gauthier, Charles
    Phalipon, Armelle
    Widmalm, Göran
    Stockholm University, Faculty of Science, Department of Organic Chemistry.
    Mulard, Laurence A.
    Structural Studies of the O-Acetyl-Containing O-Antigen from a Shigella flexneri Serotype 6 Strain and Synthesis of Oligosaccharide Fragments Thereof2013In: European Journal of Organic Chemistry, ISSN 1434-193X, E-ISSN 1099-0690, no 19, p. 4085-4106Article in journal (Refereed)
    Abstract [en]

    Extensive analysis by NMR spectroscopy of the delipidated lipopolysaccharide of Shigella flexneri serotype 6 strain MDC 2924-71 confirmed the most recently reported structure of the O-antigen repeating unit as {4)--D-GalpA-(13)--D-GalpNAc-(12)--L-Rhap3Ac/4Ac-(12)--L-Rhap-(1}, and revealed the non-stoichiometric acetylation at O-3C/4C. Input from the CASPER program helped to ascertain the fine distribution of the three possible patterns of O-acetylation. The non-O-acetylated repeating unit (ABCD) corresponded to about 2/3 of the population, while 1/4 was acetylated at O-3C (3AcCDAB), and 1/10 at O-4C (4AcCDAB). Di- to tetrasaccharides with a GalpA residue (A) at their reducing end were synthesized as their propyl glycosides following a multistep linear strategy relying on late-stage acetylation at O-3C. Thus, the 3C-O-acetylated and non-O-acetylated targets were synthesized from common protected intermediates. Rhamnosylation was most efficiently achieved by using imidate donors, including at O-4 of a benzyl galacturonate acceptor. In contrast, a thiophenyl 2-deoxy-2-trichloroacetamido-D-galactopyranoside precursor was preferred for chain elongation involving residue B. Final Pd/C-mediated deprotection ensured O-acetyl stability. All of the target molecules represent parts of the O-antigen of S. flexneri 6, a prevalent serotype. Non-O-acetylated oligosaccharides are also fragments of the Escherichia coli O147 O-antigen.

  • 27.
    Chorell, Erik
    et al.
    Umeå University, Faculty of Science and Technology, Department of Chemistry.
    Chorell, Elin
    Umeå University, Faculty of Medicine, Department of Public Health and Clinical Medicine, Medicine.
    Efficient Synthesis of 2-Substituted Phthalimides from Phthalic Acids in One Step2013In: European Journal of Organic Chemistry, ISSN 1434-193X, E-ISSN 1099-0690, Vol. 2013, no 33, p. 7512-7516Article in journal (Refereed)
    Abstract [en]

    Efficient procedures for synthesizing 2-substituted phthalimide (isoindole-1,3-dione) analogues starting from phthalic acids have been developed by using experimental design. The phthalimide central fragment frequently appears in biologically active compounds, materials, catalysts, and fluorescent probes, and therefore the development of general, fast, and convenient synthetic methods to this scaffold under neutral, acidic, and basic conditions would be attractive. After an initial screening, the use of acetonitrile, acetic acid, or pyridine in combination with microwave heating proved most promising. Experimental design was applied to these conditions to optimize the time, temperature, and concentration. This strategy has successfully generated synthetic methods that have been used to synthesize a series of phthalimides from phthalic acids and various amines or anilines in excellent yields. The developed methods have proven to be general, fast, convenient, and economic, and thus are expected to have broad utility to efficiently construct novel compounds for future biological and chemical applications.

  • 28. Cosner, Casey C.
    et al.
    Iska, Vijaya Bhaskara Reddy
    Chatterjee, Anamitra
    Markiewicz, John T.
    Corden, Steven J.
    Löfstedt, Joakim
    Ankner, Tobias
    Stockholm University, Faculty of Science, Department of Organic Chemistry.
    Richer, Joshua
    Hulett, Tyler
    Schauer, Douglas J.
    Wiest, Olaf
    Helquist, Paul
    Evolution of Concise and Flexible Synthetic Strategies for Trichostatic Acid and the Potent Histone Deacetylase Inhibitor Trichostatin A2013In: European Journal of Organic Chemistry, ISSN 1434-193X, E-ISSN 1099-0690, no 1, p. 162-172Article in journal (Refereed)
    Abstract [en]

    (R)-(+)-Trichostatic acid and (R)-(+)-trichostatin A (TSA) are natural products that have attracted considerable attention in the field of epigenetic therapies. TSA in particular is a naturally occurring hydroxamic acid having potent activity as a histone deacetylase inhibitor (HDACi) and having significant potential for treatment of a myriad of genetically based diseases. Development of TSA and other trichostatic acid derivatives into useful small-molecule therapies has been hindered by the low natural abundance and high cost associated with these compounds. We report herein our collective efforts towards the development of concise and scalable routes for the synthesis of trichostatic acid and TSA in both racemic and enantioenriched forms. Three independent synthetic pathways were developed with varying degrees of efficiency and convergency. In the first synthesis, the key step was a vinylogous Horner-Wadsworth-Emmons condensation. A Marshall propargylation reaction was used as the key step in the second synthesis, and Pd-catalyzed a-alkenylation of a ketone zinc enolate by using various functionalized alkenyl or dienyl halides was developed for the third synthesis. The second pathway proved to be readily amenable to an enantioselective modification, and both the second and third pathways were straightforwardly adapted for the facile preparation of new analogues of trichostatic acid and TSA.

  • 29. Dasari, Bhanudas
    et al.
    Jogula, Srinivas
    Borhade, Ramdas
    Balasubramanian, Sridhar
    Chandrasekar, Gayathri
    Södertörn University, School of Natural Sciences, Technology and Environmental Studies.
    Kitambi, Satish Srinivas
    Södertörn University, School of Natural Sciences, Technology and Environmental Studies. Karolinska Institute.
    Arya, Prabhat
    Macrocyclic Glycohybrid Toolbox Identifies Novel Antiangiogenesis Agents from Zebrafish Assay2013In: Organic Letters, ISSN 1523-7060, E-ISSN 1523-7052, Vol. 15, no 3, p. 432-435Article in journal (Other academic)
    Abstract [en]

    A practical and modular approach to obtain a diverse set of 14-membered macrocyclic compounds from carbohydrates is developed that utilizes functional groups at C-1 and C-5. The evaluation of this toolbox in various zebrafish assays led to the identification of 2.7f as an antianglogenesis agent.

  • 30. de Araujo Filho, Cesar Augusto
    et al.
    Salmi, Tapio Olavi
    Bernas, Andreas
    Mikkola, Jyri-Pekka
    Umeå University, Faculty of Science and Technology, Department of Chemistry.
    Kinetic model for homogeneously catalyzed halogenation of glycerol2013In: Industrial & Engineering Chemistry Research, ISSN 0888-5885, E-ISSN 1520-5045, Vol. 52, no 4, p. 1523-1530Article in journal (Refereed)
    Abstract [en]

    A new kinetic model for the halogenation of polyalcohols, e.g. chlorination of glycerol with gaseous HCl in the presence of homogeneous acid catalysts was developed. The model is based on a reaction mechanism, which includes esterification and epoxidation steps followed by halogenation steps. The principle of quasi-steady state was applied to the ester and ionic intermediates appearing in the model and rate equations were derived. Furthermore, some simplified cases of the rate equations were considered, such as immediate water removal from the reaction mixture and analytical solutions for the simplified kinetic models were derived. The model was verified against experimental data obtained from laboratory-scale semibatch reactors. The conclusion is that the model worked very well, predicting correctly the glycerol conversion and the product distribution of α-, β-, α,β- and α,γ-chlorinated products. The kinetic model can be used for design of reactors for homogeneously catalyzed halogenation.

  • 31.
    Dedic, D.
    et al.
    RISE, Innventia.
    Iversen, T.
    RISE, Innventia.
    Ek, M.
    Cellulose degradation in the Vasa: The role of acids and rust2013In: Studies in Conservation, ISSN 0039-3630, E-ISSN 2047-0584, no 4, p. 308-313Article in journal (Refereed)
  • 32.
    Dedic, Dina
    et al.
    RISE, Innventia.
    Iversen, Tommy
    RISE, Innventia.
    Ek, M.
    Cellulose degradation in the Vasa: The role of acids and rust2013In: Studies in Conservation, ISSN 0039-3630, E-ISSN 2047-0584, Vol. 58, no 4, p. 308-313Article in journal (Refereed)
    Abstract [en]

    The oak timbers of the Swedish warship Vasa are deteriorating. High amounts of oxalic acid have been found along with a low pH and low molecular weight cellulose deep in the wood timbers. The iron-rich surface wood differs from the interior wood in that it displays higher pH and cellulose with higher molecular weight. The objective of this study was to determine why there is a difference in cellulose degradation, pH, and oxalic acid amount between the surface region and the interior of the Vasa timbers. Analysis of cellulose weight average molecular weight by size exclusion chromatography was performed, as well as quantification of oxalic acid and iron by high-performance anion exchange chromatography and atomic emission spectroscopy, respectively. It was found that a decrease in iron content coincides with an increase in oxalic acid concentration and a drop in pH at a certain depth from the wood surface. When iron-rich surface wood samples from the Vasa were mixed with an aqueous solution of oxalic acid, a fast increase of pH over time was observed. Neither interior wood poor in iron nor the fresh oak reference showed the same neutralizing effect during the time of measurement. This indicates that the presence of iron (rust) causes a neutralization of the wood, through the formation of iron(III) oxalato complexes, thus protecting the wood from oxalic acid hydrolysis. This effect was not observed to the same extent for other acids observed in Vasa wood (sulfuric, formic, glycolic, and acetic acids).

  • 33.
    Deiana, Luca
    Stockholm University, Faculty of Science, Department of Organic Chemistry.
    Development of Catalytic Enantioselective Approaches for the Synthesis of Carbocycles and Heterocycles2013Doctoral thesis, comprehensive summary (Other academic)
    Abstract [en]

    In biological systems, most of the active organic molecules are chiral. Some of the main constituents of living organisms are amino acids and sugars. They exist predominantly in only one enantiomerically pure form. For example, our proteins are built-up by L-amino acids and as a consequence they are enatiomerically pure and will interact in different ways with enantiomers of chiral molecules. Indeed, different enantiomers or diastereomers of a molecule could often have a drastically different biological activity. It is of paramount importance in organic synthesis to develop new routes to control and direct the stereochemical outcome of reactions. The aim of this thesis is to investigate new protocols for the synthesis of complex chiral molecules using simple, environmentally friendly proline-based organocatalysts. We have investigated, the aziridination of linear and branched enals, the stereoselective synthesis of β-amino acids with a carbene co-catalyst, the synthesis of pyrazolidines, the combination of heterogeneous transition metal catalysis and amine catalysis to deliver cyclopentenes bearing an all-carbon quaternary stereocenter and a new heterogeneous dual catalyst system for the carbocyclization of enals. The reactions presented in this thesis afforded the corresponding products with high levels of chemo-, diastero- and enantioselectivity.

  • 34.
    Deiana, Luca
    et al.
    Stockholm Univ, S-10691 Stockholm, Sweden.
    Cordova, Armando
    Mid Sweden University, Faculty of Science, Technology and Media, Department of Natural Sciences. Stockholm Univ, S-10691 Stockholm, Sweden.
    Nieto, Carlos Palo
    Stockholm Univ, S-10691 Stockholm, Sweden.
    Jiang, Yan
    Stockholm Univ, S-10691 Stockholm, Sweden.
    Johnston, Eric
    Stockholm Univ, S-10691 Stockholm, Sweden.
    Verho, Oscar
    Stockholm Univ, S-10691 Stockholm, Sweden.
    Combined multistep heterogeneous transition metal catalysis and aminocatalysis for asymmetric cascade reactions2013In: Abstract of Papers of the American Chemical Society, ISSN 0065-7727, Vol. 245, p. Meeting abstract 147-ORGN-Article in journal (Other academic)
  • 35.
    Deng, Lingquan
    et al.
    KTH, School of Chemical Science and Engineering (CHE), Chemistry, Organic Chemistry.
    Wang, Xin
    Uppalapati, Suji
    Norberg, Oscar
    KTH, School of Chemical Science and Engineering (CHE), Chemistry, Organic Chemistry.
    Dong, Hai
    KTH, School of Chemical Science and Engineering (CHE), Chemistry, Organic Chemistry.
    Joliton, Adrien
    KTH, School of Chemical Science and Engineering (CHE), Chemistry, Organic Chemistry.
    Yan, Mingdi
    KTH, School of Chemical Science and Engineering (CHE), Chemistry, Organic Chemistry.
    Ramström, Olof
    KTH, School of Chemical Science and Engineering (CHE), Chemistry, Organic Chemistry.
    Stereocontrolled 1-S-glycosylation and comparative binding studies of photoprobe-thiosaccharide conjugates with their O-linked analogs2013In: Pure and Applied Chemistry, ISSN 0033-4545, E-ISSN 1365-3075, Vol. 85, no 9, p. 1789-1801Article in journal (Refereed)
    Abstract [en]

    The use of thioglycosides and other glycan derivatives with anomeric sulfur linkages is gaining increasing interest, both in synthesis and in various biological contexts. Herein, we demonstrate the occurrence and circumvention of anomerization during 1-S-glycosylation reactions, and present highly efficient and stereocontrolled syntheses of a series of photoprobe-thiosaccharide conjugates. Mutarotation of glycosyl thiols proved to be the origin of the anomeric mixtures formed, and kinetic effects could be used to circumvent anomerization. The synthesized carbohydrate conjugates were then evaluated by both solution- and solid-phase-based techniques. Both binding results showed that the S-linked glycosides interact with their cognate lectins comparably to the corresponding O-analogs in the present cases, thus demonstrating the reliability of the solid-support platform built upon our photo-initiated carbohydrate immobilization method for probing protein bindings, and showing the potential of combining these two means for studying carbohydrate-protein inter-actions.

  • 36.
    Deng, Youqian
    et al.
    Stockholm University, Faculty of Science, Department of Organic Chemistry.
    Bäckvall, Jan-E.
    Stockholm University, Faculty of Science, Department of Organic Chemistry.
    Palladium-Catalyzed Oxidative Acyloxylation/Carbocyclization of Allenynes2013In: Angewandte Chemie International Edition, ISSN 1433-7851, E-ISSN 1521-3773, Vol. 52, no 11, p. 3217-3221Article in journal (Refereed)
  • 37.
    Dollevoet, Kim
    Uppsala University, Disciplinary Domain of Science and Technology, Chemistry, Department of Chemistry - BMC, Organic Chemistry.
    C-H activation of indoles catalyzed by a ruthenium-complex: Synthesis of 2-3-hexene-1-(pyrimidin-2-yl)1H-indole2013Independent thesis Basic level (degree of Bachelor), 10 credits / 15 HE creditsStudent thesis
  • 38.
    Díaz-Álvarez, Alba E.
    et al.
    Uppsala University, Disciplinary Domain of Science and Technology, Chemistry, Department of Chemistry - BMC.
    Mesas Sanchez, Laura
    Uppsala University, Disciplinary Domain of Science and Technology, Chemistry, Department of Chemistry - BMC.
    Dinér, Peter
    Uppsala University, Disciplinary Domain of Science and Technology, Chemistry, Department of Chemistry - BMC.
    Non-Enzymatic Dynamic Kinetic Resolution of Secondary Aryl Alcohols: Planar Chiral Ferrocene and Ruthenium Catalysts in Cooperation2013In: Angewandte Chemie International Edition, ISSN 1433-7851, E-ISSN 1521-3773, Vol. 52, no 2, p. 502-504Article in journal (Refereed)
  • 39.
    Díaz-Álvarez, Alba E.
    et al.
    Uppsala University, Disciplinary Domain of Science and Technology, Chemistry, Department of Chemistry - BMC.
    Mesas-Sánchez, Laura
    Uppsala University, Disciplinary Domain of Science and Technology, Chemistry, Department of Chemistry - BMC.
    Dinér, Peter
    Uppsala University, Disciplinary Domain of Science and Technology, Chemistry, Department of Chemistry - BMC.
    Nichtenzymatische dynamische kinetische Racematspaltung sekundärer Arylalkohole: planar-chirale Ferrocen- und Rutheniumkatalysatoren im Zusammenspiel2013In: Angewandte Chemie, ISSN 1521-3757, Vol. 125, no 2, p. 522-524Article in journal (Refereed)
  • 40.
    Engström, Karin
    et al.
    Stockholm University, Faculty of Science, Department of Organic Chemistry.
    Johnston, Eric V.
    Stockholm University, Faculty of Science, Department of Organic Chemistry.
    Verho, Oscar
    Stockholm University, Faculty of Science, Department of Organic Chemistry.
    Gustafson, Karl P. J.
    Stockholm University, Faculty of Science, Department of Organic Chemistry.
    Shakeri, Mozaffar
    Stockholm University, Faculty of Science, Department of Organic Chemistry.
    Tai, Cheuk-Wai
    Stockholm University, Faculty of Science, Department of Materials and Environmental Chemistry (MMK), Inorganic and Structural Chemistry.
    Bäckvall, Jan-E.
    Stockholm University, Faculty of Science, Department of Organic Chemistry.
    Co-immobilization of an Enzyme and a Metal into the Compartments of Mesoporous Silica for Cooperative Tandem Catalysis: An Artificial Metalloenzyme2013In: Angewandte Chemie International Edition, ISSN 1433-7851, E-ISSN 1521-3773, Vol. 52, no 52, p. 14006-14010Article in journal (Refereed)
    Abstract [en]

    Surpassing nature: A hybrid catalyst in which Candida antarctica lipase B and a nanopalladium species are co-immobilized into the compartments of mesoporous silica is presented. The metal nanoparticles and the enzyme are in close proximity to one another in the cavities of the support. The catalyst mimics a metalloenzyme and was used for dynamic kinetic resolution of a primary amine in high yield and excellent enantioselectivity.

  • 41.
    Engström, Olof
    Stockholm University, Faculty of Science, Department of Organic Chemistry.
    Carbohydrate dynamics and interactions studied by NMR spectroscopy2013Licentiate thesis, comprehensive summary (Other academic)
    Abstract [en]

    The combination of NMR spectroscopy and molecular dynamics (MD) simulations are powerful tools in the studying of bioorganic molecules in solution. In this thesis two such studies are presented with focus on the NMR aspect. The caffeine association to sugars (D-glucose and sucrose) was investigated by NMR titrations and NOESY experiments in paper I. The observations from the NMR experiments confirmed MD simulations showing that the binding occurs by a face-to-face interaction between the aromatic surface of the caffeine and axial protons of the sugar ring. Different sugar molecules and residues have different preferences regarding which side of the sugar ring that are involved in the binding. The sucrose residues bind with only one ring face each whereas β-D-glucopyranose has two sides of similar binding probability and the α-D-glucopyranose has something in between. The MD simulations showed that the driving force of the binding is partly driven by hydration effects that favor the enthalpy of the system. A new approach to calculate NMR relaxation parameters (that is dependent on molecular motions) from computational simulations is presented in paper II. Each sugar residue is assumed to be a rigid unit connected by flexible joints in the approach, thus the name diffusive chain model (DCM). The simplified model together with a stochastic simulation approach lowers the computational cost which makes it possible to acquire long enough trajectories to the calculations of spin relaxation parameters. Two case studies with slightly different methodologies are presented. In one of them, spin relaxation parameters are reproduced for the human milk oligosaccharide LNF-1 in a feasible way by the use of Brownian dynamics.

  • 42.
    Eriksson, Kristofer
    et al.
    Stockholm University, Faculty of Science, Department of Organic Chemistry.
    Gothelid, Emmanuelle
    Puglia, Carla
    Bäckvall, Jan-E.
    Stockholm University, Faculty of Science, Department of Organic Chemistry.
    Oscarsson, Sven
    Stockholm University, Faculty of Science, Department of Organic Chemistry.
    Performance of a biomimetic oxidation catalyst immobilized on silica particles2013In: Journal of Catalysis, ISSN 0021-9517, E-ISSN 1090-2694, Vol. 303, p. 16-21Article in journal (Refereed)
    Abstract [en]

    A biomimetic oxidation catalyst, cobalt porphyrin with thiol linkers, was chemically conjugated to silica particles and utilized in the oxidation of hydroquinone to benzoquinone. The cobalt porphyrin/silica particle catalyst was characterized with Inductively Coupled Plasma (ICP) and X-ray Photoelectron Spectroscopy (XPS). The catalytic performance of the cobalt porphyrin molecules was compared to previous results for the same catalyst grafted to a gold surface and on silicon wafers. The measured catalytic activity, after background correction, was 100 times higher than that of its homogeneous counterpart, 10 times higher than that on a silicon wafer, and almost the same as that on a gold surface. The turnover frequency rates after 400 h are still comparable with initial rates reported for homogeneous porphyrins and salophens, whereas the use of particles as support increases the active surface area, which removes the limitations for scale-up associated with the previously used silicon wafers and gold surfaces.

  • 43.
    Fontana, Carolina
    Stockholm University, Faculty of Science, Department of Organic Chemistry.
    NMR spectroscopy in structural and conformational analysis of bacterial polysaccharides2013Doctoral thesis, comprehensive summary (Other academic)
    Abstract [en]

    Carbohydrates constitute one of the three major classes of biomolecules found in all living cells and, unlike nucleic acids and proteins, their polymeric structures are not based on a template. The structural diversity of these molecules confers them an enormous capacity to encode information in biological systems, acting as efficient mediators in the interaction of the cell with the environment. In order to understand the roles of glycans in biological processes it is of key importance to have a detailed understanding of their structures and conformational preferences, and NMR spectroscopy is one of most powerful techniques for the study of these molecules in solution.

    This thesis is focused on the structural and conformational analysis of lipopolysaccharides from Gram-negative bacteria. In the first two projects (Chapter 2 and 3) the structural analyses of the biological repeating units of the O-antigen polysaccharides from E. coli O174ab and O115 are described; in both cases a combination of NMR spectroscopy and gas chromatography techniques were used. Special emphasis was made in the characterization of the O-acetylation patterns observed in the native O-antigen polysaccharide from E. coli O115. Chapter 4 describes the development of a new methodology for the determination of the absolute configuration of monosaccharide components of glycans. This methodology was used in the structural elucidation of the O-antigen PS of E. coli O155 (Chapter 5) that was carried out in a semi-automated manner using the program CASPER and unassigned NMR data. The conformational preferences of O-antigen PS of E. coli O5ac and O5ab are analyzed in Chapter 6, using a combination of NMR spectroscopy and molecular modeling methods. In Chapter 7 the structural analysis is focused on the core region of the LPS, and the structures of the deacylated lipooligosaccharides of three rough mutants of B. melitesis are reported. In several of the aforementioned chapters, the biosynthetic aspects behind the assembly of the respective PSs were examined on the bases of genetic information available in the NCBI and ECODAB databases.  Finally, in Chapter 8, different NMR pulse sequences available for the study of proteins and nucleic acids were evaluated and optimized for the structural analysis of 13C uniformly-labeled oligo- and polysaccharides.

  • 44.
    Fontana, Carolina
    et al.
    Stockholm University, Faculty of Science, Department of Organic Chemistry.
    Ramström, Kristoffer
    Stockholm University, Faculty of Science, Department of Organic Chemistry.
    Weintraub, Andrej
    Widmalm, Göran
    Stockholm University, Faculty of Science, Department of Organic Chemistry.
    Structural studies of the O-antigen polysaccharide from Escherichia coli O115 and biosynthetic aspects thereof2013In: Glycobiology, ISSN 0959-6658, E-ISSN 1460-2423, Vol. 23, no 3, p. 354-362Article in journal (Refereed)
    Abstract [en]

    The structure of the O-antigen polysaccharide (PS) of Escherichia coliO115 has been investigated using a combination of component analysis and 1D and 2D nuclear magnetic resonance (NMR) spectroscopy experiments. The repeating unit of the O-antigen was elucidated using the O-deacetylated PS and has the following branched pentasaccharide structure: →3)[β-L-Rhap-(1 → 4)]-β-D-GlcpNAc-(1 → 4)-α-D-GalpA-(1 → 3)-α-D-Manp-(1 → 3)-β-D-GlcpNAc-(1→. Cross-peaks of low intensity, corresponding to a β-L-Rhap-(1 → 4)-β-D-GlcpNAc-(1→ structural element, were present in the NMR spectra and attributed to the terminal part of the PS; this information defines the biological repeating unit of the O-antigen by having a 3-substituted N-acetyl-D-glucosamine (GlcNAc) residue at its reducing end. Analysis of the NMR spectra of the native PS revealed O-acetyl groups distributed over different positions of theL-Rhap residue (∼0.70 per repeating unit) as well as at O-2 and O-3 of the D-GalpA residue (∼0.03 and ∼0.25 per repeating unit, respectively), which is in agreement with the presence of two acetyltransferases previously identified in the O-antigen gene cluster (Wang Q, Ruan X, Wei D, Hu Z, Wu L, Yu T, Feng L, Wang L. 2010. Mol Cell Probes. 24:286–290.). In addition, the four glycosyltransferases initially identified in the O-antigen gene cluster of E. coli O115 were analyzed using BLAST, and the function of two of them predicted on the basis of similarities with glycosyltransferases from Shigella dysenteriae type 5 and 12, as well as E. coli O58 and O152.

  • 45.
    Fontana, Carolina
    et al.
    Stockholm University, Faculty of Science, Department of Organic Chemistry.
    Weintraub, Andrej
    Karolinska Institute.
    Widmalm, Göran
    Stockholm University, Faculty of Science, Department of Organic Chemistry.
    Facile Structural Elucidation of Glycans Using NMR Spectroscopy Data and the Program CASPER: Application to the O-Antigen Polysaccharide of Escherichia coli O1552013In: ChemPlusChem, ISSN 2192-6506, Vol. 78, no 11, p. 1327-1329Article in journal (Refereed)
    Abstract [en]

    The program CASPER was successfully employed to rapidly elucidate a new O-antigen polysaccharide structure (obtained from a strain of Escherichia coli serogroup O155), using solelyunassigned NMR spectroscopy data as input information. Thus, what is considered the most tedious and time-consuming part of the structural elucidation process has been reduced from several hours (or even days) of manual interpretation to about four minutes of automated analysis.

  • 46.
    Fuchs, Michael
    et al.
    Karl-FranzensUniversity Graz.
    Schober, Markus
    Karl-FranzensUniversity Graz.
    Orthaber, Andreas
    Uppsala University, Disciplinary Domain of Science and Technology, Chemistry, Department of Chemistry - Ångström, Molecular Biomimetics.
    Faber, Kurt
    Karl-Franzens University Graz.
    Asymmetric Synthesis of β-Substituted α-Methylenebutyro- lactones via TRIP-Catalyzed Allylation: Mechanistic Studies and Application to the Synthesis of (S)-(−)-Hydroxymatairesinol2013In: Advanced Synthesis and Catalysis, ISSN 1615-4150, E-ISSN 1615-4169, Vol. 355, no 13, p. 2499-2505Article in journal (Refereed)
    Abstract [en]

    Asymmetric allylation of (hetero)aromatic aldehydes by a zinc(II)-allylbutyrolactone species catalyzed by a chiral BINOL-type phosphoric acid gave β-substituted α-methylenebutyrolactones in 68 to >99% ee and 52–91% isolated yield. DFT studies on the intermediate Zn2+-complex – crucial for chiral induction – suggest a six-membered ring intermediate, which allows the phosphoric acid moiety to activate the aldehyde. The methodology was applied to the synthesis of the antitumour natural product (S)-(−)-hydroxymatairesinol.

  • 47. Gebremeskel, G.G.
    et al.
    Aldaeus, F.
    RISE, Innventia.
    Determination of lignin content in kraft black liquors by capillary zone electrophoresis (CZE)2013In: Holzforschung, ISSN 0018-3830, E-ISSN 1437-434X, no 8, p. 887-890Article in journal (Refereed)
  • 48.
    Gellerstedt, G.
    et al.
    RISE, Innventia.
    Tomani, P.
    RISE, Innventia.
    Axegård, P.
    RISE, Innventia.
    Backlund, B.
    RISE, Innventia.
    Lignin recovery and lignin-based products2013In: Green Chemistry, ISSN 1463-9262, E-ISSN 1463-9270, p. 180-210Article in journal (Refereed)
  • 49. Harper, James K.
    et al.
    Tishler, Derek
    Richardson, David
    Lokvam, John
    Pendrill, Robert
    Stockholm University, Faculty of Science, Department of Organic Chemistry.
    Widmalm, Göran
    Stockholm University, Faculty of Science, Department of Organic Chemistry.
    Solid-State NMR Characterization of the Molecular Conformation in Disordered Methyl alpha-L-Rhamnofuranoside2013In: Journal of Physical Chemistry A, ISSN 1089-5639, E-ISSN 1520-5215, Vol. 117, no 26, p. 5534-5541Article in journal (Refereed)
    Abstract [en]

    A combination of solid-state C-13 NMR tensor data and DFT computational methods is utilized to predict the conformation in disordered methyl alpha-L-rhamnofuranoside. This previously uncharacterized solid is found to be crystalline and consists of at least six distinct conformations that exchange on the kHz time scale. A total of 66 model structures were evaluated, and six were identified as being consistent with experimental C-13 NMR data. All feasible structures have very similar carbon and oxygen positions and differ most significantly in OH hydrogen orientations. A concerted rearrangement of OH hydrogens is proposed to account for the observed dynamic disorder. This rearrangement is accompanied by smaller changes in ring conformation and is slow enough to be observed on the NMR time scale due to severe steric crowding among ring substituents. The relatively minor differences in non-hydrogen atom positions in the final structures suggest that characterization of a complete crystal structure by X-ray powder diffraction may be feasible.

  • 50. Hayashi, Yukiko
    et al.
    Santoro, Stefano
    Stockholm University, Faculty of Science, Department of Organic Chemistry.
    Azuma, Yuki
    Himo, Fahmi
    Stockholm University, Faculty of Science, Department of Organic Chemistry.
    Ohshima, Takashi
    Mashima, Kazushi
    Enzyme-Like Catalysis via Ternary Complex Mechanism: Alkoxy-Bridged Dinuclear Cobalt Complex Mediates Chemoselective O-Esterification over N-Amidation2013In: Journal of the American Chemical Society, ISSN 0002-7863, E-ISSN 1520-5126, Vol. 135, no 16, p. 6192-6199Article in journal (Refereed)
    Abstract [en]

    Hydroxy group-selective acylation in the presence of more nucleophilic amines was achieved using acetates of first-row late transition metals, such as Mn, Fe, Co, Cu, and Zn. Among them, cobalt(II) acetate was the best catalyst in terms of reactivity and selectivity. The combination of an octanuclear cobalt carboxylate cluster [Co-4(OCOR)(6)O](2) (2a: R = CF3, 2b: R = CH3, 2c: R = Bu-t) with nitrogen-containing ligands, such as 2,2'-bipyridine, provided an efficient catalytic system for transesterification, in which an alkoxide-bridged dinuclear complex, Co-2((OCOBu)-Bu-t)(2)-(bpy)(2)(mu(2)-OCH2-C6H4-4-CH3)(2) (10), was successfully isolated as a key intermediate. Kinetic studies and density functional theory calculations revealed Michaelis-Menten behavior of the complex 10 through an ordered ternary complex mechanism similar to dinuclear metallo-enzymes, suggesting the formation of alkoxides followed by coordination of the ester.

123 1 - 50 of 134
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