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  1. Article ; Online: Tustep. Review of the Tübinger System von Textverarbeitungs-Programmen

    Christian Griesinger

    RIDE, Vol

    2020  Volume 11

    Abstract: This review deals with the Tübinger System von Textverarbeitungs-Programmen called TUSTEP. It describes some of the principal functions of TUSTEP, outlines sample use cases and shows benefits and downsides. While TUSTEP is one of the oldest and long- ... ...

    Abstract This review deals with the Tübinger System von Textverarbeitungs-Programmen called TUSTEP. It describes some of the principal functions of TUSTEP, outlines sample use cases and shows benefits and downsides. While TUSTEP is one of the oldest and long-lasting applications in the area of text processing, its flexibility and functional scope make it worth to consider for present and future scientific projects dealing with text edition, manipulation and publishing.
    Keywords digital scholarly edition ; text manipulation ; text processing ; tustep ; History of scholarship and learning. The humanities ; AZ20-999 ; Information resources (General) ; ZA3040-5185
    Language German
    Publishing date 2020-01-01T00:00:00Z
    Publisher Institut für Dokumentologie und Editorik e. V.
    Document type Article ; Online
    Database BASE - Bielefeld Academic Search Engine (life sciences selection)

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  2. Article ; Online: Metal Binding to Sodium Heparin Monitored by Quadrupolar NMR

    Daniel Sieme / Christian Griesinger / Nasrollah Rezaei-Ghaleh

    International Journal of Molecular Sciences, Vol 23, Iss 13185, p

    2022  Volume 13185

    Abstract: Heparins and heparan sulfate polysaccharides are negatively charged glycosaminoglycans and play important roles in cell-to-matrix and cell-to-cell signaling processes. Metal ion binding to heparins alters the conformation of heparins and influences their ...

    Abstract Heparins and heparan sulfate polysaccharides are negatively charged glycosaminoglycans and play important roles in cell-to-matrix and cell-to-cell signaling processes. Metal ion binding to heparins alters the conformation of heparins and influences their function. Various experimental techniques have been used to investigate metal ion-heparin interactions, frequently with inconsistent results. Exploiting the quadrupolar 23 Na nucleus, we herein develop a 23 Na NMR-based competition assay and monitor the binding of divalent Ca 2+ and Mg 2+ and trivalent Al 3+ metal ions to sodium heparin and the consequent release of sodium ions from heparin. The 23 Na spin relaxation rates and translational diffusion coefficients are utilized to quantify the metal ion-induced release of sodium ions from heparin. In the case of the Al 3+ ion, the complementary approach of 27 Al quadrupolar NMR is employed as a direct probe of ion binding to heparin. Our NMR results demonstrate at least two metal ion-binding sites with different affinities on heparin, potentially undergoing dynamic exchange. For the site with lower metal ion binding affinity, the order of Ca 2+ > Mg 2+ > Al 3+ is obtained, in which even the weakly binding Al 3+ ion is capable of displacing sodium ions from heparin. Overall, the multinuclear quadrupolar NMR approach employed here can monitor and quantify metal ion binding to heparin and capture different modes of metal ion-heparin binding.
    Keywords metal ; sodium ; heparin ; NMR ; diffusion ; relaxation ; Biology (General) ; QH301-705.5 ; Chemistry ; QD1-999
    Subject code 333
    Language English
    Publishing date 2022-10-01T00:00:00Z
    Publisher MDPI AG
    Document type Article ; Online
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  3. Article ; Online: Atomic resolution dynamics of cohesive interactions in phase-separated Nup98 FG domains

    Eszter E. Najbauer / Sheung Chun Ng / Christian Griesinger / Dirk Görlich / Loren B. Andreas

    Nature Communications, Vol 13, Iss 1, Pp 1-

    2022  Volume 16

    Abstract: The permeability barrier of nuclear pores is formed by disordered and yet self-interacting FG repeat domains, whose sequence heterogeneity is a challenge for mechanistic insights. Here the authors overcome this challenge and characterize the protein’s ... ...

    Abstract The permeability barrier of nuclear pores is formed by disordered and yet self-interacting FG repeat domains, whose sequence heterogeneity is a challenge for mechanistic insights. Here the authors overcome this challenge and characterize the protein’s dynamics by applying NMR techniques to an FG phase system that has been simplified to its essentials.
    Keywords Science ; Q
    Language English
    Publishing date 2022-03-01T00:00:00Z
    Publisher Nature Portfolio
    Document type Article ; Online
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  4. Article ; Online: Structure and Absolute Configuration of Phenanthro-perylene Quinone Pigments from the Deep-Sea Crinoid Hypalocrinus naresianus

    Sahithya Phani Babu Vemulapalli / Juan Carlos Fuentes-Monteverde / Niels Karschin / Tatsuo Oji / Christian Griesinger / Klaus Wolkenstein

    Marine Drugs, Vol 19, Iss 445, p

    2021  Volume 445

    Abstract: Two new water-soluble phenanthroperylene quinones, gymnochrome H ( 2 ) and monosulfated gymnochrome A ( 3 ), as well as the known compounds gymnochrome A ( 4 ) and monosulfated gymnochrome D ( 5 ) were isolated from the deep-sea crinoid Hypalocrinus ... ...

    Abstract Two new water-soluble phenanthroperylene quinones, gymnochrome H ( 2 ) and monosulfated gymnochrome A ( 3 ), as well as the known compounds gymnochrome A ( 4 ) and monosulfated gymnochrome D ( 5 ) were isolated from the deep-sea crinoid Hypalocrinus naresianus , which had been collected in the deep sea of Japan. The structures of the compounds were elucidated by spectroscopic analysis including HRMS, 1D 1 H and 13 C NMR, and 2D NMR. The absolute configuration was determined by ECD spectroscopy, analysis of J -couplings and ROE contacts, and DFT calculations. The configuration of the axial chirality of all isolated phenanthroperylene quinones ( 2 – 5 ) was determined to be ( P ). For gymnochrome H ( 2 ) and monosulfated gymnochrome A ( 3 ), a (2′ S ,2″ R ) configuration was determined, whereas for monosulfated gymnochrome D ( 5 ) a (2′ R ,2″ R ), configuration was determined. Acetylated quinones are unusual among natural products from an echinoderm and gymnochrome H ( 2 ) together with the recently reported gymnochrome G ( 1 ) represent the first isolated acetylated phenanthroperylene quinones.
    Keywords crinoid ; Hypalocrinus naresianus ; phenanthroperylene quinones ; gymnochromes ; configuration determination ; Biology (General) ; QH301-705.5
    Subject code 540
    Language English
    Publishing date 2021-08-01T00:00:00Z
    Publisher MDPI AG
    Document type Article ; Online
    Database BASE - Bielefeld Academic Search Engine (life sciences selection)

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  5. Article ; Online: Insight into the molecular recognition mechanism of the coactivator NCoA1 by STAT6

    Luigi Russo / Karin Giller / Edith Pfitzner / Christian Griesinger / Stefan Becker

    Scientific Reports, Vol 7, Iss 1, Pp 1-

    2017  Volume 12

    Abstract: Abstract Crucial for immune and anti-inflammatory cellular responses, signal transducer and activator of transcription 6 (STAT6) regulates transcriptional activation in response to interleukin-4 and -13 -induced tyrosine phosphorylation by direct ... ...

    Abstract Abstract Crucial for immune and anti-inflammatory cellular responses, signal transducer and activator of transcription 6 (STAT6) regulates transcriptional activation in response to interleukin-4 and -13 -induced tyrosine phosphorylation by direct interaction with coactivators. The interaction of STAT6 with nuclear coactivator 1 (NCoA1) is mediated by a short region of the STAT6 transactivation domain that includes the motif LXXLL and interacts with the PAS-B domain of NCoA1. Despite the availability of an X-ray structure of the PAS-B domain/ Leu794-Gly814-STAT6 complex, the mechanistic details of this interaction are still poorly understood. Here, we determine the structure of the NCoA1257–385/STAT6783–814 complex using Nuclear Magnetic Resonance (NMR) and X-ray crystallography. The STAT6783–814 peptide binds with additional N-terminal amino acids to NCoA1257–385, compared to the STAT6794–814 peptide, explaining its higher affinity. Secondary and tertiary structures existing in the free peptide are more highly populated in the complex, suggesting binding by conformational selection.
    Keywords Medicine ; R ; Science ; Q
    Language English
    Publishing date 2017-12-01T00:00:00Z
    Publisher Nature Portfolio
    Document type Article ; Online
    Database BASE - Bielefeld Academic Search Engine (life sciences selection)

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  6. Article ; Online: The 3D structure of lipidic fibrils of α-synuclein

    Benedikt Frieg / Leif Antonschmidt / Christian Dienemann / James A. Geraets / Eszter E. Najbauer / Dirk Matthes / Bert L. de Groot / Loren B. Andreas / Stefan Becker / Christian Griesinger / Gunnar F. Schröder

    Nature Communications, Vol 13, Iss 1, Pp 1-

    2022  Volume 10

    Abstract: Interactions between α-synuclein fibrils and lipids have been associated with the development of Parkinson’s disease. This cryo-EM study reveals structural details of these interactions and suggests a mechanism for fibril-induced lipid extraction. ...

    Abstract Interactions between α-synuclein fibrils and lipids have been associated with the development of Parkinson’s disease. This cryo-EM study reveals structural details of these interactions and suggests a mechanism for fibril-induced lipid extraction.
    Keywords Science ; Q
    Language English
    Publishing date 2022-11-01T00:00:00Z
    Publisher Nature Portfolio
    Document type Article ; Online
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  7. Article ; Online: Connection of Isolated Stereoclusters by Combining 13 C-RCSA, RDC, and J -Based Configurational Analyses and Structural Revision of a Tetraprenyltoluquinol Chromane Meroterpenoid from Sargassum muticum

    Juan Carlos C. Fuentes-Monteverde / Nilamoni Nath / Abel M. Forero / Elena M. Balboa / Armando Navarro-Vázquez / Christian Griesinger / Carlos Jiménez / Jaime Rodríguez

    Marine Drugs, Vol 20, Iss 7, p

    2022  Volume 462

    Abstract: The seaweed Sargassum muticum , collected on the southern coast of Galicia, yielded a tetraprenyltoluquinol chromane meroditerpene compound known as 1b , whose structure is revised. The relative configuration of 1b was determined by J -based ... ...

    Abstract The seaweed Sargassum muticum , collected on the southern coast of Galicia, yielded a tetraprenyltoluquinol chromane meroditerpene compound known as 1b , whose structure is revised. The relative configuration of 1b was determined by J -based configurational methodology combined with an i J /DP4 statistical analysis and further confirmed by measuring two anisotropic properties: carbon residual chemical shift anisotropies ( 13 C-RCSAs) and one-bond 1 H- 13 C residual dipolar couplings ( 1 D CH -RDCs). The absolute configuration of 1b was deduced by ECD/OR/TD-DFT methods and established as 3R , 7S , 11R .
    Keywords Sargassum muticum ; meroditerpene ; coupling constants ; J -DP4 ; 13 C-RCSA ; RDC ; Biology (General) ; QH301-705.5
    Language English
    Publishing date 2022-07-01T00:00:00Z
    Publisher MDPI AG
    Document type Article ; Online
    Database BASE - Bielefeld Academic Search Engine (life sciences selection)

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  8. Article: Solution NMR views of dynamical ordering of biomacromolecules

    Ikeya, Teppei / Christian Griesinger / David Ban / Donghan Lee / Koichi Kato / Yutaka Ito

    Biochimica et biophysica acta. 2018 Feb., v. 1862, no. 2

    2018  

    Abstract: To understand the mechanisms related to the ‘dynamical ordering’ of macromolecules and biological systems, it is crucial to monitor, in detail, molecular interactions and their dynamics across multiple timescales. Solution nuclear magnetic resonance (NMR) ...

    Abstract To understand the mechanisms related to the ‘dynamical ordering’ of macromolecules and biological systems, it is crucial to monitor, in detail, molecular interactions and their dynamics across multiple timescales. Solution nuclear magnetic resonance (NMR) spectroscopy is an ideal tool that can investigate biophysical events at the atomic level, in near-physiological buffer solutions, or even inside cells.In the past several decades, progress in solution NMR has significantly contributed to the elucidation of three-dimensional structures, the understanding of conformational motions, and the underlying thermodynamic and kinetic properties of biomacromolecules. This review discusses recent methodological development of NMR, their applications and some of the remaining challenges.Although a major drawback of NMR is its difficulty in studying the dynamical ordering of larger biomolecular systems, current technologies have achieved considerable success in the structural analysis of substantially large proteins and biomolecular complexes over 1MDa and have characterised a wide range of timescales across which biomolecular motion exists. While NMR is well suited to obtain local structure information in detail, it contributes valuable and unique information within hybrid approaches that combine complementary methodologies, including solution scattering and microscopic techniques.For living systems, the dynamic assembly and disassembly of macromolecular complexes is of utmost importance for cellular homeostasis and, if dysregulated, implied in human disease. It is thus instructive for the advancement of the study of the dynamical ordering to discuss the potential possibilities of solution NMR spectroscopy and its applications. This article is part of a Special Issue entitled “Biophysical Exploration of Dynamical Ordering of Biomolecular Systems” edited by Dr. Koichi Kato.
    Keywords homeostasis ; human diseases ; nuclear magnetic resonance spectroscopy ; proteins ; thermodynamics
    Language English
    Dates of publication 2018-02
    Size p. 287-306.
    Publishing place Elsevier B.V.
    Document type Article
    ZDB-ID 840755-1
    ISSN 0304-4165
    ISSN 0304-4165
    DOI 10.1016/j.bbagen.2017.08.020
    Database NAL-Catalogue (AGRICOLA)

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  9. Article: Sensitivity-Enhanced Four-Dimensional Amide–Amide Correlation NMR Experiments for Sequential Assignment of Proline-Rich Disordered Proteins

    Wong, Leo E / Christian Griesinger / Joachim Maier / Jürgen Wienands / Stefan Becker

    Journal of the American Chemical Society. 2018 Feb. 28, v. 140, no. 10

    2018  

    Abstract: Proline is prevalent in intrinsically disordered proteins (IDPs). NMR assignment of proline-rich IDPs is a challenge due to low dispersion of chemical shifts. We propose here new sensitivity-enhanced 4D NMR experiments that correlate two pairs of amide ... ...

    Abstract Proline is prevalent in intrinsically disordered proteins (IDPs). NMR assignment of proline-rich IDPs is a challenge due to low dispersion of chemical shifts. We propose here new sensitivity-enhanced 4D NMR experiments that correlate two pairs of amide resonances that are either consecutive (NHi–1, NHi) or flanking a proline at position i–1 (NHi–2, NHi). The maximum 2-fold enhancement of sensitivity is achieved by employing two coherence order-selective (COS) transfers incorporated unconventionally into the pulse sequence. Each COS transfer confers an enhancement over amplitude-modulated transfer by a factor of √2 specifically when transverse relaxation is slow. The experiments connect amide resonances over a long fragment of sequence interspersed with proline. When this method was applied to the proline-rich region of B cell adaptor protein SLP-65 (pH 6.0) and α-synuclein (pH 7.4), which contain a total of 52 and 5 prolines, respectively, 99% and 92% of their nonprolyl amide resonances have been successfully assigned, demonstrating its robustness to address the assignment problem in large proline-rich IDPs.
    Keywords B-lymphocytes ; nuclear magnetic resonance spectroscopy ; pH ; proline ; proteins
    Language English
    Dates of publication 2018-0228
    Size p. 3518-3522.
    Publishing place American Chemical Society
    Document type Article
    ZDB-ID 3155-0
    ISSN 1520-5126 ; 0002-7863
    ISSN (online) 1520-5126
    ISSN 0002-7863
    DOI 10.1021/jacs.8b00215
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  10. Article: Hypalocrinins, Taurine-Conjugated Anthraquinone and Biaryl Pigments from the Deep Sea Crinoid Hypalocrinus naresianus

    Wolkenstein, Klaus / Christian Griesinger / Juan Carlos Fuentes-Monteverde / Nilamoni Nath / Tatsuo Oji

    Journal of natural products. 2018 Dec. 31, v. 82, no. 1

    2018  

    Abstract: Five new water-soluble amido- and aminoanthraquinone pigments, hypalocrinins A–E (1–5), the new amidoanthraquinone biaryls hypalocrinin F (6) and hypalocrinin G (7), and the known compounds 6-bromoemodic acid (8), crinemodin (9), and crinemodin sulfate ( ... ...

    Abstract Five new water-soluble amido- and aminoanthraquinone pigments, hypalocrinins A–E (1–5), the new amidoanthraquinone biaryls hypalocrinin F (6) and hypalocrinin G (7), and the known compounds 6-bromoemodic acid (8), crinemodin (9), and crinemodin sulfate (10) were isolated from the deep sea crinoid Hypalocrinus naresianus collected off Japan. The structures of the compounds were elucidated by NMR spectroscopy and mass spectrometry. Amido- and aminoquinones are quite unusual among natural products. The hypalocrinins are the first naturally occurring anthraquinones and anthraquinone biaryls conjugated with taurine.
    Keywords anthraquinones ; mass spectrometry ; nuclear magnetic resonance spectroscopy ; pigments ; sulfates ; taurine ; water solubility ; Japan
    Language English
    Dates of publication 2018-1231
    Size p. 163-167.
    Publishing place American Chemical Society and American Society of Pharmacognosy
    Document type Article
    ZDB-ID 304325-3
    ISSN 1520-6025 ; 0163-3864
    ISSN (online) 1520-6025
    ISSN 0163-3864
    DOI 10.1021/acs.jnatprod.8b00803
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