@article{TrautweinFredrikssonMoelleretal.2016, author = {Trautwein, Matthias and Fredriksson, Kai and M{\"o}ller, Heiko Michael and Exner, Thomas E.}, title = {Automated assignment of NMR chemical shifts based on a known structure and 4D spectra}, series = {Journal of biomolecular NMR}, volume = {65}, journal = {Journal of biomolecular NMR}, publisher = {Springer}, address = {Dordrecht}, issn = {0925-2738}, doi = {10.1007/s10858-016-0050-0}, pages = {217 -- 236}, year = {2016}, abstract = {Apart from their central role during 3D structure determination of proteins the backbone chemical shift assignment is the basis for a number of applications, like chemical shift perturbation mapping and studies on the dynamics of proteins. This assignment is not a trivial task even if a 3D protein structure is known and needs almost as much effort as the assignment for structure prediction if performed manually. We present here a new algorithm based solely on 4D [H-1, N-15]-HSQC-NOESY-[H-1, N-15]-HSQC spectra which is able to assign a large percentage of chemical shifts (73-82 \%) unambiguously, demonstrated with proteins up to a size of 250 residues. For the remaining residues, a small number of possible assignments is filtered out. This is done by comparing distances in the 3D structure to restraints obtained from the peak volumes in the 4D spectrum. Using dead-end elimination, assignments are removed in which at least one of the restraints is violated. Including additional information from chemical shift predictions, a complete unambiguous assignment was obtained for Ubiquitin and 95 \% of the residues were correctly assigned in the 251 residue-long N-terminal domain of enzyme I. The program including source code is available at https://github.com/thomasexner/4Dassign.}, language = {en} } @article{MaierPoluektovJesteretal.2016, author = {Maier, Stefan K. and Poluektov, Georgiy and Jester, Stefan-S. and M{\"o}ller, Heiko Michael and Hoeger, Sigurd}, title = {Fast Oxidative Cyclooligomerization towards Low- and High-Symmetry Thiophene Macrocycles}, series = {Chemistry - a European journal}, volume = {22}, journal = {Chemistry - a European journal}, publisher = {Wiley-VCH}, address = {Weinheim}, issn = {0947-6539}, doi = {10.1002/chem.201503211}, pages = {1379 -- 1384}, year = {2016}, abstract = {Macrocycles with quaterthiophene subunits were obtained by cyclooligomerization by direct oxidative coupling of unsubstituted dithiophene moieties. The rings were closed with high selectivity by an \&\#945;,\&\#946;\&\#8242;-connection of the thiophenes as proven by NMR spectroscopy. The reaction of the precursor with terthiophene moieties yielded the symmetric \&\#945;,\&\#945;\&\#8242;-linked macrocycle in low yield together with various differently connected isomers. Blocking of the \&\#946;-position of the half-rings yielded selectively the \&\#945;,\&\#945;\&\#8242;-linked macrocycle. Selected cyclothiophenes were investigated by scanning tunneling microscopy, which displayed the formation of highly ordered 2D crystalline monolayers.}, language = {en} } @article{PrestelMoeller2016, author = {Prestel, Andreas and M{\"o}ller, Heiko Michael}, title = {Spatio-temporal control of cellular uptake achieved by photoswitchable cell-penetrating peptides}, series = {Chemical communications}, volume = {52}, journal = {Chemical communications}, publisher = {Royal Society of Chemistry}, address = {Cambridge}, issn = {1359-7345}, doi = {10.1039/c5cc06848g}, pages = {701 -- 704}, year = {2016}, abstract = {The selective uptake of compounds into specific cells of interest is a major objective in cell biology and drug delivery. By incorporation of a novel, thermostable azobenzene moiety we generated peptides that can be switched optically between an inactive state and an active, cell-penetrating state with excellent spatio-temporal control.}, language = {en} } @article{HolertYuecelJagmannetal.2016, author = {Holert, Johannes and Y{\"u}cel, Onur and Jagmann, Nina and Prestel, Andreas and M{\"o}ller, Heiko Michael and Philipp, Bodo}, title = {Identification of bypass reactions leading to the formation of one central steroid degradation intermediate in metabolism of different bile salts in Pseudomonas sp strain Chol1}, series = {Environmental microbiology}, volume = {18}, journal = {Environmental microbiology}, publisher = {Wiley-Blackwell}, address = {Hoboken}, issn = {1462-2912}, doi = {10.1111/1462-2920.13192}, pages = {3373 -- 3389}, year = {2016}, language = {en} } @article{VorburgerNedielkovBrosigetal.2016, author = {Vorburger, Thomas and Nedielkov, Ruslan and Brosig, Alexander and Bok, Eva and Schunke, Emina and Steffen, Wojtek and Mayer, Sonja and Goetz, Friedrich and M{\"o}ller, Heiko Michael and Steuber, Julia}, title = {Role of the Na+-translocating NADH:quinone oxidoreductase in voltage generation and Na+ extrusion in Vibrio cholerae}, series = {Biochimica et biophysica acta : Bioenergetics}, volume = {1857}, journal = {Biochimica et biophysica acta : Bioenergetics}, publisher = {Elsevier}, address = {Amsterdam}, issn = {0005-2728}, doi = {10.1016/j.bbabio.2015.12.010}, pages = {473 -- 482}, year = {2016}, abstract = {For Vibrio cholerae, the coordinated import and export of Na+ is crucial for adaptation to habitats with different osmolarities. We investigated the Na+-extruding branch of the sodium cycle in this human pathogen by in vivo Na-23-NMR spectroscopy. The Na+ extrusion activity of cells was monitored after adding glucose which stimulated respiration via the Na+-translocating NADH:quinone oxidoreductase (Na+-NQR). In a V. cholerae deletion mutant devoid of the Na+-NQR encoding genes (nqrA-F), rates of respiratory Na+ extrusion were decreased by a factor of four, but the cytoplasmic Na+ concentration was essentially unchanged. Furthermore, the mutant was impaired in formation of transmembrane voltage (Delta psi, inside negative) and did not grow under hypoosmotic conditions at pH 8.2 or above. This growth defect could be complemented by transformation with the plasmid encoded nqr operon. In an alkaline environment, Na+/H+ antiporters acidify the cytoplasm at the expense of the transmembrane voltage. It is proposed that, at alkaline pH and limiting Na+ concentrations, the Na+-NQR is crucial for generation of a transmembrane voltage to drive the import of H+ by electrogenic Na+/H+ antiporters. Our study provides the basis to understand the role of the Na+-NQR in pathogenicity of V. cholerae and other pathogens relying on this primary Na+ pump for respiration. (C) 2015 Elsevier B.V. All rights reserved.}, language = {en} } @article{KruegerKellingSchildeetal.2016, author = {Kr{\"u}ger, Tobias and Kelling, Alexandra and Schilde, Uwe and Linker, Torsten}, title = {Simple Synthesis of gamma-Spirolactams by Birch Reduction of Benzoic Acids}, series = {European journal of organic chemistry}, journal = {European journal of organic chemistry}, number = {6}, publisher = {Wiley-VCH}, address = {Weinheim}, issn = {1434-193X}, doi = {10.1002/ejoc.201601650}, pages = {1074 -- 1077}, year = {2016}, abstract = {A convenient synthesis of gamma-spirolactams in only two steps was developed. Birch reduction of benzoic acids and immediate alkylation with chloroacetonitrile afforded cyclohexadienes in high yields. The products could be isolated by crystallization on a large scale in analytically pure form. Subsequent hydrogenation with platinum(IV) oxide as the catalyst reduced the nitrile functionality and the double bonds in the same step with excellent stereoselectivity. The relative configurations were determined unequivocally by X-ray analyses. Direct cyclization of the intermediary formed amino acids afforded the desired gamma-spirolactams in excellent overall yields. The procedure is characterized by few steps, cheap reagents, and can be performed on a large scale, interesting for industrial processes.}, language = {en} } @phdthesis{Pape2016, author = {Pape, Simon}, title = {Entwicklung und Evaluierung von Methoden zur Synthese neuartiger Additive f{\"u}r die außenstromlose Nickel-Phosphor-Abscheidung}, school = {Universit{\"a}t Potsdam}, pages = {223}, year = {2016}, language = {de} } @article{ZabelWinterKellingetal.2016, author = {Zabel, Andr{\´e} and Winter, Alette and Kelling, Alexandra and Schilde, Uwe and Strauch, Peter}, title = {Tetrabromidocuprates(II)-Synthesis, Structure and EPR}, series = {International journal of molecular sciences}, volume = {17}, journal = {International journal of molecular sciences}, number = {4}, publisher = {MDPI}, address = {Basel}, doi = {10.3390/ijms17040596}, pages = {14}, year = {2016}, abstract = {Metal-containing ionic liquids (ILs) are of interest for a variety of technical applications, e.g., particle synthesis and materials with magnetic or thermochromic properties. In this paper we report the synthesis of, and two structures for, some new tetrabromidocuprates(II) with several "onium" cations in comparison to the results of electron paramagnetic resonance (EPR) spectroscopic analyses. The sterically demanding cations were used to separate the paramagnetic Cu(II) ions for EPR measurements. The EPR hyperfine structure in the spectra of these new compounds is not resolved, due to the line broadening resulting from magnetic exchange between the still-incomplete separated paramagnetic Cu(II) centres. For the majority of compounds, the principal g values (g|| and gK) of the tensors could be determined and information on the structural changes in the [CuBr4]2- anions can be obtained. The complexes have high potential, e.g., as ionic liquids, as precursors for the synthesis of copper bromide particles, as catalytically active or paramagnetic ionic liquids.}, language = {en} } @phdthesis{Oliveira2016, author = {Oliveira, Joana Santos Lapa}, title = {Role of different ceramides on the nanostructure of Stratum Corneum models and the influence of selected penetration enhancers}, school = {Universit{\"a}t Potsdam}, pages = {125}, year = {2016}, language = {en} } @phdthesis{Wolf2016, author = {Wolf, Felix}, title = {Neuartige Olefine und Aryldiazoniumtetrafluoroborate f{\"u}r die MATSUDA-HECK-Reaktion}, school = {Universit{\"a}t Potsdam}, pages = {158}, year = {2016}, language = {de} } @phdthesis{Kovach2016, author = {Kovach, Ildiko}, title = {Development, characterization of Janus emulsions, and their usage as a template phase for fabricating biopolymer scaffolds}, school = {Universit{\"a}t Potsdam}, year = {2016}, language = {en} } @phdthesis{Draffehn2016, author = {Draffehn, S{\"o}ren}, title = {Optical Spectroscopy-Based Characterization of Micellar and Liposomal Systems with Possible Applications in Drug Delivery}, school = {Universit{\"a}t Potsdam}, pages = {VII, 106, XII}, year = {2016}, language = {en} } @phdthesis{Koenig2016, author = {K{\"o}nig, Jana}, title = {Synthese und Charakterisierung von 3d-4f-Komplexen und deren Vorl{\"a}ufer mit 1,2-Dithiooxalat als Ligand}, school = {Universit{\"a}t Potsdam}, pages = {89, LXIX}, year = {2016}, language = {de} } @article{SchildeKellingUmbreenetal.2016, author = {Schilde, Uwe and Kelling, Alexandra and Umbreen, Sumaira and Linker, Torsten}, title = {Crystal structures of three bicyclic carbohydrate derivatives}, series = {Acta crystallographica Section E ; Crystallographic communications}, volume = {72}, journal = {Acta crystallographica Section E ; Crystallographic communications}, number = {12}, publisher = {IUCR}, address = {Chester}, issn = {2056-9890}, doi = {10.1107/S2056989016018727}, pages = {1839 -- 1844}, year = {2016}, abstract = {The title compounds, [(1R,3R,4R,5R,6S)-4,5-bis(acetyloxy)-7-oxo-2-oxabicyclo- [4.2.0]octan-3-yl]methyl acetate, C14H18O8, (I), [(1S,4R,5S,6R)-5-acetyloxy-7- hydroxyimino-2-oxobicyclo[4.2.0]octan-4-yl acetate, C11H15NO6, (II), and [(3aR,5R,6R,7R,7aS)-6,7-bis(acetyloxy)-2-oxooctahydropyrano[3,2-b]pyrrol-5- yl]methyl acetate, C14H19NO8, (III), are stable bicyclic carbohydrate derivatives. They can easily be synthesized in a few steps from commercially available glycals. As a result of the ring strain from the four-membered rings in (I) and (II), the conformations of the carbohydrates deviate strongly from the ideal chair form. Compound (II) occurs in the boat form. In the five-membered lactam (III), on the other hand, the carbohydrate adopts an almost ideal chair conformation. As a result of the distortion of the sugar rings, the configurations of the three bicyclic carbohydrate derivatives could not be determined from their NMR coupling constants. From our three crystal structure determinations, we were able to establish for the first time the absolute configurations of all new stereocenters of the carbohydrate rings.}, language = {en} } @phdthesis{Limberg2016, author = {Limberg, Felix Rolf Paul}, title = {Synthese und Entwicklung thermisch vernetzbarer OLED-Materialien}, school = {Universit{\"a}t Potsdam}, pages = {206}, year = {2016}, language = {de} } @phdthesis{Rackwitz2016, author = {Rackwitz, Jenny}, title = {A novel approach to study low-energy electron-induced damage to DNA oligonucleotides}, school = {Universit{\"a}t Potsdam}, pages = {137}, year = {2016}, language = {en} } @article{VillatoroZuehlkeRiebeetal.2016, author = {Villatoro, Jos{\´e} Andr{\´e}s and Z{\"u}hlke, Martin and Riebe, Daniel and Riedel, Jens and Beitz, Toralf and L{\"o}hmannsr{\"o}ben, Hans-Gerd}, title = {IR-MALDI ion mobility spectrometry}, series = {Analytical and bioanalytical chemistry : a merger of Fresenius' journal of analytical chemistry and Analusis}, volume = {408}, journal = {Analytical and bioanalytical chemistry : a merger of Fresenius' journal of analytical chemistry and Analusis}, publisher = {Springer}, address = {Heidelberg}, issn = {1618-2642}, doi = {10.1007/s00216-016-9739-x}, pages = {6259 -- 6268}, year = {2016}, abstract = {The novel combination of infrared matrix-assisted laser dispersion and ionization (IR-MALDI) with ion mobility (IM) spectrometry makes it possible to investigate biomolecules in their natural environment, liquid water. As an alternative to an ESI source, the IR-MALDI source was implemented in an in-house-developed ion mobility (IM) spectrometer. The release of ions directly from an aqueous solution is based on a phase explosion, induced by the absorption of an IR laser pulse (lambda = 2.94 mu m, 6 ns pulse width), which disperses the liquid as nano- and micro-droplets. The prerequisites for the application of IR-MALDI-IM spectrometry as an analytical method are narrow analyte ion signal peaks for a high spectrometer resolution. This can only be achieved by improving the desolvation of ions. One way to full desolvation is to give the cluster ions sufficient time to desolvate. Two methods for achieving this are studied: the implementation of an additional drift tube, as in ESI-IM-spectrometry, and the delayed extraction of the ions. As a result of this optimization procedure, limits of detection between 5 nM and 2.5 mu M as well as linear dynamic ranges of 2-3 orders of magnitude were obtained for a number of substances. The ability of this method to analyze simple mixtures is illustrated by the separation of two different surfactant mixtures.}, language = {en} } @article{VillatoroZuehlkeRiebeetal.2016, author = {Villatoro, Jos{\´e} Andr{\´e}s and Z{\"u}hlke, Martin and Riebe, Daniel and Beitz, Toralf and Weber, Marcus and Riedel, Jens and L{\"o}hmannsr{\"o}ben, Hans-Gerd}, title = {IR-MALDI ion mobility spectrometry: physical source characterization and application as HPLC detector}, series = {International journal for ion mobility spectrometry : official publication of the International Society for Ion Mobility Spectrometry}, volume = {19}, journal = {International journal for ion mobility spectrometry : official publication of the International Society for Ion Mobility Spectrometry}, publisher = {Springer}, address = {Heidelberg}, issn = {1435-6163}, doi = {10.1007/s12127-016-0208-1}, pages = {197 -- 207}, year = {2016}, abstract = {Infrared matrix-assisted laser dispersion and ionization (IR-MALDI) in combination with ion mobility (IM) spectrometry enables the direct analysis of biomolecules in aqueous solution. The release of ions directly from an aqueous solution is based on a phase explosion, induced by the absorption of an IR laser pulse, which disperses the liquid as vapor, nano-and micro-droplets. The ionization process is characterized initially by a broad spatial distribution of the ions, which is a result of complex fluid dynamics and desolvation kinetics. These processes have a profound effect on the shape and width of the peaks in the IM spectra. In this work, the transport of ions by the phase explosion-induced shockwave could be studied independently from the transport by the electric field. The shockwave-induced mean velocities of the ions at different time scales were determined through IM spectrometry and shadowgraphy. The results show a deceleration of the ions from 118 m.s(-1) at a distance of 400 mu m from the liquid surface to 7.1 m.s(-1) at a distance of 10 mm, which is caused by a pile-up effect. Furthermore, the desolvation kinetics were investigated and a first-order desolvation constant of 325 +/- 50 s(-1) was obtained. In the second part, the IR-MALDI-IM spectrometer is used as an HPLC detector for the two-dimensional separation of a pesticide mixture.}, language = {en} } @article{RottkeSchulzRichauetal.2016, author = {Rottke, Falko O. and Schulz, Burkhard and Richau, Klaus and Kratz, Karl and Lendlein, Andreas}, title = {An ellipsometric approach towards the description of inhomogeneous polymer-based Langmuir layers}, series = {Beilstein journal of nanotechnology}, volume = {7}, journal = {Beilstein journal of nanotechnology}, publisher = {Beilstein-Institut zur F{\~A}\Prderung der Chemischen Wissenschaften}, address = {Frankfurt, Main}, issn = {2190-4286}, doi = {10.3762/bjnano.7.107}, pages = {1156 -- 1165}, year = {2016}, abstract = {The applicability of nulling-based ellipsometric mapping as a complementary method next to Brewster angle microscopy (BAM) and imaging ellipsometry (IE) is presented for the characterization of ultrathin films at the air-water interface. First, the methodology is demonstrated for a vertically nonmoving Langmuir layer of star-shaped, 4-arm poly(omega-pentadecalactone) (PPDL-D4). Using nulling-based ellipsometric mapping, PPDL-D4-based inhomogeneously structured morphologies with a vertical dimension in the lower nm range could be mapped. In addition to the identification of these structures, the differentiation between a monolayer and bare water was possible. Second, the potential and limitations of this method were verified by applying it to more versatile Langmuir layers of telechelic poly[(rac-lactide)-co-glycolide]-diol (PLGA). All ellipsometric maps were converted into thickness maps by introduction of the refractive index that was derived from independent ellipsometric experiments, and the result was additionally evaluated in terms of the root mean square roughness, R-q. Thereby, a three-dimensional view into the layers was enabled and morphological inhomogeneity could be quantified.}, language = {en} } @article{RossbergRottkeSchulzetal.2016, author = {Rossberg, Joana and Rottke, Falko O. and Schulz, Burkhard and Lendlein, Andreas}, title = {Enzymatic Degradation of Oligo(epsilon-caprolactone)s End-Capped with Phenylboronic Acid Derivatives at the Air-Water Interface}, series = {Macromolecular rapid communications}, volume = {37}, journal = {Macromolecular rapid communications}, publisher = {Wiley-VCH}, address = {Weinheim}, issn = {1022-1336}, doi = {10.1002/marc.201600471}, pages = {1966 -- 1971}, year = {2016}, abstract = {The influence of terminal functionalization of oligo(epsilon-caprolactone)s (OCL) with phenylboronic acid pinacol ester or phenylboronic acid on the enzymatic degradation behavior at the air-water interface is investigated by the Langmuir monolayer degradation technique. While the unsubstituted OCL immediately degrades after injection of the enzyme lipase from Pseudomonas cepacia, enzyme molecules are incorporated into the films based on end-capped OCL before degradation. This incorporation of enzymes does not inhibit or suppress the film degradation, but retards it significantly. A specific binding of lipase to the polymer monolayer allows studying the enzymatic activity of bound proteins and the influence on the degradation process. The functionalization of a macromolecule with phenyl boronic acid groups is an approach to investigate their interactions with diol-containing biomolecules like sugars and to monitor their specified impact on the enzymatic degradation behavior at the air-water interface.}, language = {en} }