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  • PANGAEA  (5)
  • The American Society for Biochemistry and Molecular Biology (ASBMB)  (3)
  • Jena
  • 2015-2019  (8)
Document type
Keywords
Publisher
Years
Year
  • 1
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    Analysis of the Catalytic Site of the GTPase Ran [Protein Structure and Folding] (2015)
    The American Society for Biochemistry and Molecular Biology (ASBMB)
    Details
    Publication Date: 2015-10-03
    Description: Small GTPases regulate key processes in cells. Malfunction of their GTPase reaction by mutations is involved in severe diseases. Here, we compare the GTPase reaction of the slower hydrolyzing GTPase Ran with Ras. By combination of time-resolved FTIR difference spectroscopy and QM/MM simulations we elucidate that the Mg2+ coordination by the phosphate groups, which varies largely among the x-ray structures, is the same for Ran and Ras. A new x-ray structure of a Ran·RanBD1 complex with improved resolution confirmed this finding and revealed a general problem with the refinement of Mg2+ in GTPases. The Mg2+ coordination is not responsible for the much slower GTPase reaction of Ran. Instead, the location of the Tyr-39 side chain of Ran between the γ-phosphate and Gln-69 prevents the optimal positioning of the attacking water molecule by the Gln-69 relative to the γ-phosphate. This is confirmed in the RanY39A·RanBD1 crystal structure. The QM/MM simulations provide IR spectra of the catalytic center, which agree very nicely with the experimental ones. The combination of both methods can correlate spectra with structure at atomic detail. For example the FTIR difference spectra of RasA18T and RanT25A mutants show that spectral differences are mainly due to the hydrogen bond of Thr-25 to the α-phosphate in Ran. By integration of x-ray structure analysis, experimental, and theoretical IR spectroscopy the catalytic center of the x-ray structural models are further refined to sub-Å resolution, allowing an improved understanding of catalysis.
    Print ISSN: 0021-9258
    Electronic ISSN: 1083-351X
    Topics: Biology , Chemistry and Pharmacology
    Published by The American Society for Biochemistry and Molecular Biology (ASBMB)
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    PAPER CURRENT
  • 2
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    A {mu}O-Conotoxin with Improved Potency for NaV1.8 [Neurobiology] (2016)
    The American Society for Biochemistry and Molecular Biology (ASBMB)
    Details
    Publication Date: 2016-05-28
    Description: The μO-conotoxins MrVIA, MrVIB, and MfVIA inhibit the voltage-gated sodium channel NaV1.8, a well described target for the treatment of pain; however, little is known about the residues or structural elements that define this activity. In this study, we determined the three-dimensional structure of MfVIA, examined its membrane binding properties, performed alanine-scanning mutagenesis, and identified residues important for its activity at human NaV1.8. A second round of mutations resulted in (E5K,E8K)MfVIA, a double mutant with greater positive surface charge and greater affinity for lipid membranes compared with MfVIA. This analogue had increased potency at NaV1.8 and was analgesic in the mouse formalin assay.
    Print ISSN: 0021-9258
    Electronic ISSN: 1083-351X
    Topics: Biology , Chemistry and Pharmacology
    Published by The American Society for Biochemistry and Molecular Biology (ASBMB)
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    PAPER CURRENT
  • 3
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    Inhibitory Activity of hNaV1.7 by ProTx-II, the Membrane Link [Lipids] (2016)
    The American Society for Biochemistry and Molecular Biology (ASBMB)
    Details
    Publication Date: 2016-08-13
    Description: ProTx-II is a disulfide-rich peptide toxin from tarantula venom able to inhibit the human voltage-gated sodium channel 1.7 (hNaV1.7), a channel reported to be involved in nociception, and thus it might have potential as a pain therapeutic. ProTx-II acts by binding to the membrane-embedded voltage sensor domain of hNaV1.7, but the precise peptide channel-binding site and the importance of membrane binding on the inhibitory activity of ProTx-II remain unknown. In this study, we examined the structure and membrane-binding properties of ProTx-II and several analogues using NMR spectroscopy, surface plasmon resonance, fluorescence spectroscopy, and molecular dynamics simulations. Our results show a direct correlation between ProTx-II membrane binding affinity and its potency as an hNaV1.7 channel inhibitor. The data support a model whereby a hydrophobic patch on the ProTx-II surface anchors the molecule at the cell surface in a position that optimizes interaction of the peptide with the binding site on the voltage sensor domain. This is the first study to demonstrate that binding of ProTx-II to the lipid membrane is directly linked to its potency as an hNaV1.7 channel inhibitor.
    Print ISSN: 0021-9258
    Electronic ISSN: 1083-351X
    Topics: Biology , Chemistry and Pharmacology
    Published by The American Society for Biochemistry and Molecular Biology (ASBMB)
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    PAPER CURRENT
  • 4
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    Technical comments on the data records from the Gletschermitte station, Vernagtferner, Oetztal Alps, for the period 1968 to 1987 (2015)
    PANGAEA
    In:  EPIC3Bremerhaven, PANGAEA
    Details
    Publication Date: 2015-07-01
    Repository Name: EPIC Alfred Wegener Institut
    Type: PANGAEA Documentation , notRev
    Format: application/pdf
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    PAPER (OA)
  • 5
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    Magnesium/Calcium in foraminifera: core top, culture, and seawater datasets (2019)
    PANGAEA
    In:  Supplement to: Tierney, Jessica E; Malevich, Steven Brewster; Gray, William; Vetter, Leal; Thirumalai, Kaustubh (2019): Bayesian calibration of the Mg/Ca paleothermometer in planktic foraminifera. EarthArXiv, https://doi.org/10.31223/osf.io/y3xdg
    Details
    Publication Date: 2023-01-30
    Description: This dataset contains a modern core top collection of Mg/Ca in planktic foraminifera; the same dataset averaged to 1 x 1 grids; a collection of Mg/Ca in culture experiments with planktic foraminifera; a collection of Mg/Ca and Mg/Ca of seawater in culture experiments with planktic and benthic foraminifera; and a collection of geological estimates of the Mg/Ca of seawater.
    Keywords: File content; File format; File name; File size; Mg/Ca; Mg/Ca seawater; planktic foraminifera; Uniform resource locator/link to file
    Type: Dataset
    Format: text/tab-separated-values, 25 data points
    Location Call Number Limitation Availability
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    DATA PANGAEA
  • 6
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    Glacier mass balance Vernagtferner, Ötztal Alps, Austria, 1889-2010 (2015)
    PANGAEA
    In:  Supplement to: Escher-Vetter, Heidi (2015): 400 Jahre Feldforschung am Vernagtferner (Ötztal, Österreich) (400 years of field research on Vernagtferner (Oetztal Alps, Austria)). In: Lozán, José L.; Grassl, Hartmut; Kasang, Dieter; Notz, Dirk & Escher-Vetter, Heidi (Hrsg.): Wissenschaftliche Auswertungen. Warnsignal Klima: Das Eis der Erde, 146-154, https://doi.org/10.2312/warnsignal.klima.eis-der-erde.22
    Details
    Publication Date: 2023-01-30
    Description: In this article, methods and results are presented for the analysis of the behaviour of an alpine glacier, the Vernagtferner, Oetztal Alps, Austria. Since 1601, the advances and retreats of Vernagtferner are documented and analysed with rising temporal and spa- tial precision. Early pictorial documents (from 1601 to 1844), high-resolution maps since 1889, mass balance investigations with the glaciological method since 1964 and meteorological-hydrological records and models since 1974 deliver, with increasing temporal resolution, a consistent pattern of the continual ice loss of this glacier over more than 30 years.
    Keywords: Area; Calculated; DATE/TIME; GLAC; Glacier mass; Glaciers Austria; Mass change; Sampling/measurements on glacier; Total area; Vernagtferner; Vernagtferner, Ötztaler Alpen, Austria
    Type: Dataset
    Format: text/tab-separated-values, 56 data points
    Location Call Number Limitation Availability
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    DATA PANGAEA
  • 7
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    Whole rock geochemistry of Forearc Basalts from IODP Expedition 352 (2018)
    PANGAEA
    In:  Supplement to: Shervais, John W; Reagan, Mark; Haugen, Emily; Almeev, Renat; Pearce, Julian; Prytulak, Julie; Ryan, Jeffrey G; Whattam, Scott Andrew; Godard, Marguerite; Chapman, Timothy; Li, Hongyan; Kurz, Walter; Nelson, Wendy R; Heaton, Daniel; Kirchenbaur, Maria; Shimizu, Kenji; Sakuyama, Tetsuya; Li, Yibing; Vetter, Scott K (2018): Magmatic Response to Subduction Initiation, Part I: Forearc basalts of the Izu-Bonin Arc from IODP Expedition 352. Geochemistry, Geophysics, Geosystems, 19, https://doi.org/10.1029/2018GC007731
    Details
    Publication Date: 2023-07-10
    Description: These basalts represent the earliest response to subduction initiation in the Izu-Bonin arc system during the early Eocene. They are highly refractory and formed by high degrees of partial melting of a previously depleted source.
    Keywords: 352-U1440A; 352-U1440B; 352-U1441A; Aluminium oxide; Barium; Calcium oxide; Calculated from weight loss after ignition at 450 °C; CDRILL; Cerium; Chromium; Cobalt; Core drilling; DEPTH, sediment/rock; Dysprosium; Erbium; Europium; Event label; Event layer type; EXP352; Gadolinium; Hafnium; Holmium; IBM; ICP-MS; Integrated Ocean Drilling Program / International Ocean Discovery Program; IODP; Iron oxide, Fe2O3; Iron oxide, FeO; Izu-Bonin-Mariana fore arc; Joides Resolution; Lanthanum; Lead; Loss on ignition; Lutetium; Magnesium oxide; Manganese oxide; Mass; Neodymium; Nickel; Niobium; Phosphorus pentoxide; Potassium; Potassium oxide; Praseodymium; Rubidium; Samarium; Sample code/label; Sample ID; Scandium; Silicon dioxide; Sodium oxide; Strontium; Sum; Tantalum; Terbium; Thorium; Thulium; Titanium; Titanium dioxide; Unit; Uranium; Vanadium; X-ray fluorescence (XRF); Ytterbium; Yttrium; Zirconium
    Type: Dataset
    Format: text/tab-separated-values, 3494 data points
    Location Call Number Limitation Availability
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    DATA PANGAEA
  • 8
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    The Rofental: a high Alpine research basin (1890 m - 3770 m a.s.l.) in the Ötztal Alps (Austria) with over 150 years of hydro-meteorological and glaciological observations (2017)
    PANGAEA
    In:  Supplement to: Strasser, Ulrich; Marke, Thomas; Braun, Ludwig N; Escher-Vetter, Heidi; Juen, Irmgard; Kuhn, Michael; Maussion, Fabien; Mayer, Christoph; Nicholson, Lindsey; Niedertscheider, Klaus; Sailer, Rudolf; Stötter, Johann; Weber, Markus; Kaser, Georg (2017): The Rofental: a high Alpine research basin (1890 m - 3770 m a.s.l.) in the Ötztal Alps (Austria) with over 150 years of hydro-meteorological and glaciological observations. Special Issue: Hydrometeorological data from mountain and alpine research catchments; 04 Aug 2015-30 Sep 2017; Guest editors: J. Pomeroy and D. Marks, Earth System Science Data Discussions, 27 pp, https://doi.org/10.5194/essd-2017-85
    Details
    Publication Date: 2024-03-23
    Description: A comprehensive hydrometeorological and glaciological data set is presented, originating from a multitude of recordings at several intensively operated research sites in the Rofental (1891 - 3772 m a.s.l., Ötztal Alps, Austria). The data sets are spanning a period of 150 years and hence represent a unique, worldwide unprecedented pool of high mountain observations. Their collection has originally been initiated to support the scientific investigation of the glaciers Hintereis-, Kesselwand- and Vernagtferner. Later, additional measurements of meteorological and hydrological variables have been undertaken; data now comprise records of temperature, relative humidity, short- and longwave radiation, wind speed and direction, air pressure, precipitation and water levels. For the glaciers, annual mass balance, glacier front variation and flow velocities as well as photographic images of the glacier status have been recorded. Since 2001, a series of distributed (airborne and terrestrial) laserscans has been processed. Most recently, a permanent terrestrial laser scanner installed on 'Im hintern Eis' (3244 m a.s.l.) enables to continuously observe almost the entire area of Hintereisferner. The data and research undertaken at the sites of investigation enable combined research of atmospheric, cryospheric and hydrological processes in complex terrain, and support the development of several state-of-the art hydroclimatological and glacier mass balance models. The institutions taking part in the Rofental research framework have joined to a cooperation consortium and promote their site in several international research initiatives. In the framework of INARCH, all original research data sets are now provided to the scientific community according to the Creative Commons Attribution License by means of the PANGAEA repository.
    Type: Dataset
    Format: application/zip, 22 datasets
    Location Call Number Limitation Availability
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    DATA PANGAEA
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