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  • Articles  (57)
  • 550 - Earth sciences  (54)
  • Substrate Specificity  (3)
  • DATE/TIME; Date/time end; Elevation, maximum; Elevation, minimum; GLAC; Glaciers Austria; Kesselwandferner; Kesselwandferner, Ötztaler Alpen, Austria; KWF; Mass balance, total of the altitude zone; Sampling/measurements on glacier; Specific mass balance of the altitude zone; Total area of the altitude zone
  • 2005-2009  (57)
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  • Articles  (57)
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  • 1
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    Deutsche Akademie der Naturforscher Leopoldina, acatech – Deutsche Akademie der Technikwissenschaften Berlin-Brandenburgische, Akademie der Wissenschaften
    Publication Date: 2020-02-12
    Keywords: 550 - Earth sciences
    Type: info:eu-repo/semantics/report
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  • 2
    Publication Date: 2009-11-27
    Description: Translational fidelity, essential for protein and cell function, requires accurate transfer RNA (tRNA) aminoacylation. Purified aminoacyl-tRNA synthetases exhibit a fidelity of one error per 10,000 to 100,000 couplings. The accuracy of tRNA aminoacylation in vivo is uncertain, however, and might be considerably lower. Here we show that in mammalian cells, approximately 1% of methionine (Met) residues used in protein synthesis are aminoacylated to non-methionyl-tRNAs. Remarkably, Met-misacylation increases up to tenfold upon exposing cells to live or non-infectious viruses, toll-like receptor ligands or chemically induced oxidative stress. Met is misacylated to specific non-methionyl-tRNA families, and these Met-misacylated tRNAs are used in translation. Met-misacylation is blocked by an inhibitor of cellular oxidases, implicating reactive oxygen species (ROS) as the misacylation trigger. Among six amino acids tested, tRNA misacylation occurs exclusively with Met. As Met residues are known to protect proteins against ROS-mediated damage, we propose that Met-misacylation functions adaptively to increase Met incorporation into proteins to protect cells against oxidative stress. In demonstrating an unexpected conditional aspect of decoding mRNA, our findings illustrate the importance of considering alternative iterations of the genetic code.〈br /〉〈br /〉〈a href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC2785853/" target="_blank"〉〈img src="https://static.pubmed.gov/portal/portal3rc.fcgi/4089621/img/3977009" border="0"〉〈/a〉   〈a href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC2785853/" target="_blank"〉This paper as free author manuscript - peer-reviewed and accepted for publication〈/a〉〈br /〉〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Netzer, Nir -- Goodenbour, Jeffrey M -- David, Alexandre -- Dittmar, Kimberly A -- Jones, Richard B -- Schneider, Jeffrey R -- Boone, David -- Eves, Eva M -- Rosner, Marsha R -- Gibbs, James S -- Embry, Alan -- Dolan, Brian -- Das, Suman -- Hickman, Heather D -- Berglund, Peter -- Bennink, Jack R -- Yewdell, Jonathan W -- Pan, Tao -- Z01 AI000542-20/Intramural NIH HHS/ -- Z01 AI000653-16/Intramural NIH HHS/ -- Z01 AI000658-16/Intramural NIH HHS/ -- Z01 AI001014-01/Intramural NIH HHS/ -- England -- Nature. 2009 Nov 26;462(7272):522-6. doi: 10.1038/nature08576.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉Laboratory of Viral Diseases, National Institute of Allergy and Infectious Diseases, Bethesda, Maryland 20892, USA.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/19940929" target="_blank"〉PubMed〈/a〉
    Keywords: Adenoviridae/physiology ; Animals ; Genetic Code ; HeLa Cells ; Humans ; *Immunity, Innate ; Ligands ; Methionine/genetics/*metabolism ; Mice ; Models, Genetic ; NADPH Oxidase/metabolism ; Orthomyxoviridae/physiology ; Oxidative Stress/drug effects/genetics/*physiology ; RNA, Transfer, Met/genetics/metabolism ; Reactive Oxygen Species/metabolism ; Substrate Specificity ; Toll-Like Receptors/immunology/metabolism ; Transfer RNA Aminoacylation/drug effects/*physiology
    Print ISSN: 0028-0836
    Electronic ISSN: 1476-4687
    Topics: Biology , Chemistry and Pharmacology , Medicine , Natural Sciences in General , Physics
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  • 3
    Publication Date: 2009-02-20
    Description: The complement system is an essential component of the innate and acquired immune system, and consists of a series of proteolytic cascades that are initiated by the presence of microorganisms. In health, activation of complement is precisely controlled through membrane-bound and soluble plasma-regulatory proteins including complement factor H (fH; ref. 2), a 155 kDa protein composed of 20 domains (termed complement control protein repeats). Many pathogens have evolved the ability to avoid immune-killing by recruiting host complement regulators and several pathogens have adapted to avoid complement-mediated killing by sequestering fH to their surface. Here we present the structure of a complement regulator in complex with its pathogen surface-protein ligand. This reveals how the important human pathogen Neisseria meningitidis subverts immune responses by mimicking the host, using protein instead of charged-carbohydrate chemistry to recruit the host complement regulator, fH. The structure also indicates the molecular basis of the host-specificity of the interaction between fH and the meningococcus, and informs attempts to develop novel therapeutics and vaccines.〈br /〉〈br /〉〈a href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC2670278/" target="_blank"〉〈img src="https://static.pubmed.gov/portal/portal3rc.fcgi/4089621/img/3977009" border="0"〉〈/a〉   〈a href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC2670278/" target="_blank"〉This paper as free author manuscript - peer-reviewed and accepted for publication〈/a〉〈br /〉〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Schneider, Muriel C -- Prosser, Beverly E -- Caesar, Joseph J E -- Kugelberg, Elisabeth -- Li, Su -- Zhang, Qian -- Quoraishi, Sadik -- Lovett, Janet E -- Deane, Janet E -- Sim, Robert B -- Roversi, Pietro -- Johnson, Steven -- Tang, Christoph M -- Lea, Susan M -- 083599/Wellcome Trust/United Kingdom -- G0400775/Medical Research Council/United Kingdom -- G0400775(71657)/Medical Research Council/United Kingdom -- G0500367/Medical Research Council/United Kingdom -- G0601195/Medical Research Council/United Kingdom -- G0601195(79743)/Medical Research Council/United Kingdom -- Medical Research Council/United Kingdom -- Wellcome Trust/United Kingdom -- England -- Nature. 2009 Apr 16;458(7240):890-3. doi: 10.1038/nature07769. Epub 2009 Feb 18.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉Centre for Molecular Microbiology and Infection, Imperial College, London SW7 2AZ, UK.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/19225461" target="_blank"〉PubMed〈/a〉
    Keywords: Antigens, Bacterial/*chemistry/*metabolism ; Bacterial Proteins/*chemistry/*metabolism ; Binding Sites ; Carbohydrates/*chemistry ; Complement Factor H/*chemistry/immunology/*metabolism ; Crystallography, X-Ray ; Ligands ; Models, Molecular ; *Molecular Mimicry ; Neisseria meningitidis/chemistry/immunology/*metabolism ; Nuclear Magnetic Resonance, Biomolecular ; Protein Binding ; Protein Conformation ; Structure-Activity Relationship ; Substrate Specificity
    Print ISSN: 0028-0836
    Electronic ISSN: 1476-4687
    Topics: Biology , Chemistry and Pharmacology , Medicine , Natural Sciences in General , Physics
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  • 4
    Publication Date: 2009-09-18
    Description: Many anti-infectives inhibit the synthesis of bacterial proteins, but none selectively inhibits their degradation. Most anti-infectives kill replicating pathogens, but few preferentially kill pathogens that have been forced into a non-replicating state by conditions in the host. To explore these alternative approaches we sought selective inhibitors of the proteasome of Mycobacterium tuberculosis. Given that the proteasome structure is extensively conserved, it is not surprising that inhibitors of all chemical classes tested have blocked both eukaryotic and prokaryotic proteasomes, and no inhibitor has proved substantially more potent on proteasomes of pathogens than of their hosts. Here we show that certain oxathiazol-2-one compounds kill non-replicating M. tuberculosis and act as selective suicide-substrate inhibitors of the M. tuberculosis proteasome by cyclocarbonylating its active site threonine. Major conformational changes protect the inhibitor-enzyme intermediate from hydrolysis, allowing formation of an oxazolidin-2-one and preventing regeneration of active protease. Residues outside the active site whose hydrogen bonds stabilize the critical loop before and after it moves are extensively non-conserved. This may account for the ability of oxathiazol-2-one compounds to inhibit the mycobacterial proteasome potently and irreversibly while largely sparing the human homologue.〈br /〉〈br /〉〈a href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3172082/" target="_blank"〉〈img src="https://static.pubmed.gov/portal/portal3rc.fcgi/4089621/img/3977009" border="0"〉〈/a〉   〈a href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3172082/" target="_blank"〉This paper as free author manuscript - peer-reviewed and accepted for publication〈/a〉〈br /〉〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Lin, Gang -- Li, Dongyang -- de Carvalho, Luiz Pedro Sorio -- Deng, Haiteng -- Tao, Hui -- Vogt, Guillaume -- Wu, Kangyun -- Schneider, Jean -- Chidawanyika, Tamutenda -- Warren, J David -- Li, Huilin -- Nathan, Carl -- P01 AI056293/AI/NIAID NIH HHS/ -- P01 AI056293-05/AI/NIAID NIH HHS/ -- P01-AI056293/AI/NIAID NIH HHS/ -- R01 AI055549/AI/NIAID NIH HHS/ -- R01 AI055549-01/AI/NIAID NIH HHS/ -- R01AI070285/AI/NIAID NIH HHS/ -- England -- Nature. 2009 Oct 1;461(7264):621-6. doi: 10.1038/nature08357. Epub 2009 Sep 16.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉Department of Microbiology and Immunology, Weill Cornell Medical College, New York, New York 10065, USA. gal2005@med.cornell.edu〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/19759536" target="_blank"〉PubMed〈/a〉
    Keywords: Catalytic Domain/drug effects ; Humans ; Hydrogen Bonding ; Kinetics ; Models, Molecular ; Mycobacterium tuberculosis/*drug effects/*enzymology/growth & development ; Oxazolidinones/metabolism/pharmacology ; Protease Inhibitors/chemistry/*pharmacology ; Proteasome Endopeptidase Complex/chemistry/metabolism ; *Proteasome Inhibitors ; Protein Carbonylation/drug effects ; Protein Conformation/drug effects ; Protein Subunits ; Substrate Specificity ; Thiazoles/pharmacology ; Threonine/metabolism
    Print ISSN: 0028-0836
    Electronic ISSN: 1476-4687
    Topics: Biology , Chemistry and Pharmacology , Medicine , Natural Sciences in General , Physics
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  • 5
    Publication Date: 2020-02-12
    Keywords: 550 - Earth sciences
    Type: info:eu-repo/semantics/article
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  • 6
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    Unknown
    In:  Jahresbericht / Hamburger Synchrotronstrahlungslabor HASYLAB am Deutschen Elektronen-Synchrotron DESY = Annual report
    Publication Date: 2020-02-12
    Keywords: 550 - Earth sciences
    Type: info:eu-repo/semantics/bookPart
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  • 7
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    In:  Petrophysical properties of crystalline rocks | Geological Society special publication ; 240
    Publication Date: 2020-02-12
    Description: Simulating complex flow situations in hydrogeothermal reservoirs requires coupling of flow, heat transfer, transport of dissolved species, and heterogeneous geochemistry. We present results of simulations for typical applications using the numerical simulator SHEMAT/Processing SHEMAT. Heat transfer is non-linear, since all thermal fluid and rock properties depend on temperature. Due to the coupling of fluid density with both temperature and concentrations of dissolved species, the model is well suited to simulate density-driven flow. Dissolution and precipitation of minerals are calculated with an improved version of the geochemical modelling code PHRQPITZ, which accurately calculates geochemical reactions in brines of low to high ionic strength and temperatures of 0–150°C. Changes in pore space structure and porosity are taken into account by updating permeability with respect to porosity changes due to precipitation and dissolution of minerals. This is based on a novel relationship between porosity and permeability, derived from a fractal model of the pore space structure and its changes due to chemical water — rock interaction. A selection of model studies performed with SHEMAT completes the review. Examples highlight both density-driven and reactive flow with permeability feedback. With respect to the former, the thermohaline free convection Elder’s problem, and density-driven free convection in a coastal aquifer with geothermal exploitation, are considered. Mineral redistribution and associated permeability change during a core flooding experiment; reaction front fingering in reservoir sandstone; and long-term changes in reservoir properties during the operation of a geothermal installation, are all considered in relation to reactive flow with permeability feedback.
    Keywords: 550 - Earth sciences
    Type: info:eu-repo/semantics/bookPart
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  • 8
    Publication Date: 2020-02-12
    Description: The boundaries of the Devonian, Carboniferous, and Permian stages of the Global Stratigraphic Reference Scale (abbreviated to Global Stratigraphic Scale—GSS) are described in relation to the biostratigraphic and/or lithostratigraphic units of the Regional Stratigraphic Reference Scales (abbreviated to Regional Stratigraphic Scales—RSS) of Central and West Europe, East Europe, Tethys, South China (eastern Tethys), and North America. In their type regions the boundaries of GSS units rarely coincide with those of homonymous RSS units. Moreover, the definitions of some RSS units have changed several times over the last decades, and subsequent misunderstanding of the stratigraphical significance of these changes has often introduced errors into proposed global correlation charts. The stratigraphic framework proposed in our global Devonian–Carboniferous–Permian Correlation Chart 2003 [DCP 2003 (Devonian–Carboniferous–Permian Correlation Chart 2003, Menning, M., Schneider, J. W., Alekseev, A. S., Amon, E. O., Becker, G., von Bitter, P. H., Boardman, D. R., Bogoslovskaya, M., Braun, A., Brocke, R., Chernykh, V., Chuvashov, B. I., Clayton, G., Dusar, M., Davydov, V. I., Dybova-Jachowicz, S., Forke, H. C., Gibling, M., Gilmour, E. H., Goretzki, J., Grunt, T. A., Hance, L., Heckel, P. H., Izokh, N. G., Jansen, U., Jin Y.-G., Jones, P., Käding, K.-Ch., Kerp, H., Kiersnowski, H., Klets, A., Klug, Ch., Korn, D., Kossovaya, O., Kotlyar, G. V., Kozur, H. W., Laveine, J.-P., Martens, Th., Nemyrovska, T. I., Nigmadganov, A. I., Paech, H.-J., Peryt, T. M., Rohn, R., Roscher, M., Rubidge, B., Schiappa, T. A., Schindler, E., Skompski, S., Ueno, K., Utting, J., Vdovenko, M. V., Villa, E., Voigt, S., Wahlman, G. P., Wardlaw, B. R., Warrington, G., Weddige, K., Werneburg, R., Weyer, D., Wilde, V., Winkler Prins, C. F., Work, D. M., 2004). Abschlußkolloquium DFG-Schwerpunktprogramm 1054: Evolution des Systems Erde während des jüngeren Paläozoikums im Spiegel der Sedimentgeochemie. Abstracts Univ. Erlangen, Germany, 2004, p. 43.] (herein abbreviated to DCP 2003, and cited as DCP, 2003 in references) is an attempt to reduce these errors. The DCP 2003 is the stratigraphic base for Project 1054 of the Deutsche Forschungsgemeinschaft (DFG) ”The evolution of the Late Palaeozoic in the light of sedimentary geochemistry”. This composite time scale has been carefully balanced, as far as data allows, to remove unnecessary, artificial compression and expansion of time intervals, biozonations and depositional events. The ages selected in DCP 2003 are markedly different to those in the Geologic Time Scale 1989 [GTS 1989 (Harland, W.B., Armstrong, R.L., Cox, A.V., Craig, L.E., Smith, A.G., Smith, D.G., 1990). A geologic time scale 1989. Cambridge Univ. Press, Cambridge.; Harland, W.B., Armstrong, R.L., Cox, A.V., Craig, L.E., Smith, A.G., Smith, D.G., 1990. A geologic time scale 1989. Cambridge Univ. Press, Cambridge, pp. 1–263.] and in Gradstein and Ogg [Gradstein, F.M., Ogg, J., 1996. A Phanerozoic time scale. Episodes 19 (1/2), 3–4, insert.), whereas they are closer to those of the Geologic Time Scale 2004 [GTS 2004; Gradstein, F.M., Ogg, J.G., Smith, A.G., 2004. A Geologic Time Scale 2004. Cambridge Univ. Press, Cambridge, pp. 1–589.]. Mostly, the ages are rounded to the nearest 0.5 Ma in order to avoid estimates of questionable accuracy, whereas ages of 0.1 Ma in the GTS 2004 and their error bars of ± 0.4 Ma to ± 2.8 Ma for the Devonian to Permian stage boundaries suggest an improved accuracy. In contrast, in the DCP 2003 questionable ages and positions of stratigraphic boundaries are marked by arrows.
    Keywords: 550 - Earth sciences
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  • 9
    Publication Date: 2020-02-12
    Keywords: 550 - Earth sciences
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  • 10
    Publication Date: 2020-02-12
    Description: In the temperate zone, the increasing need to replace fossil fuels by renewable energy resources, taking into account the general limiting conditions of climate change, has resulted in alternative land-use systems coming to the fore. Short rotation coppice (SRC) of fast-growing trees such as poplar or black locust offers an approach for the sustainable production of biomass and a prolonged fixation of carbon in the plants and the soil with positive effects on soil humus and general fertility of marginal agricultural sites. In the open-cast mining area of Lusatia in northeast Germany, reclaimed mine sites provide a large area of marginal land. To estimate the benefits for carbon sequestration in the above-ground and below-ground biomass as well as in the soil of a poplar and a black locust SRC, results of several field experiments conducted in that region were evaluated. In addition, the empirical carbon model shortcar was used to simulate the carbon cycle of SRC and to estimate the net primary production, net ecosystem and net biome production of the tree plantations. The results demonstrate that SRC can form an effective carbon sink at least for the considered time period. If the effect of replacing fossil energy fuels by regrowing biomass is taken into account, SRC can be considered to be a permanent carbon sink and may provide a promising alternative for future land use in the temperate zone.
    Keywords: 550 - Earth sciences
    Type: info:eu-repo/semantics/conferenceObject
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