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  • 1
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    Role of 4.5S RNA in assembly of the bacterial signal recognition particle with its receptor (2000)
    American Association for the Advancement of Science (AAAS)
    Details
    Publication Date: 2000-06-02
    Description: The mechanism by which a signal recognition particle (SRP) and its receptor mediate protein targeting to the endoplasmic reticulum or to the bacterial plasma membrane is evolutionarily conserved. In Escherichia coli, this reaction is mediated by the Ffh/4.5S RNA ribonucleoprotein complex (Ffh/4.5S RNP; the SRP) and the FtsY protein (the SRP receptor). We have quantified the effects of 4.5S RNA on Ffh-FtsY complex formation by monitoring changes in tryptophan fluorescence. Surprisingly, 4.5S RNA facilitates both assembly and disassembly of the Ffh-FtsY complex to a similar extent. These results provide an example of an RNA molecule facilitating protein-protein interactions in a catalytic fashion.〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Peluso, P -- Herschlag, D -- Nock, S -- Freymann, D M -- Johnson, A E -- Walter, P -- GM 26494/GM/NIGMS NIH HHS/ -- GM 32384/GM/NIGMS NIH HHS/ -- New York, N.Y. -- Science. 2000 Jun 2;288(5471):1640-3.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉Howard Hughes Medical Institute and Department of Biochemistry and Biophysics, University of California, San Francisco, CA 94143, USA.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/10834842" target="_blank"〉PubMed〈/a〉
    Keywords: Bacterial Proteins/chemistry/*metabolism ; Catalysis ; Escherichia coli/metabolism ; *Escherichia coli Proteins ; Guanosine Diphosphate/metabolism ; Guanosine Triphosphate/metabolism ; Guanylyl Imidodiphosphate/metabolism ; Kinetics ; Models, Chemical ; Nucleic Acid Conformation ; Protein Binding ; Protein Conformation ; Protein Structure, Tertiary ; RNA, Bacterial/chemistry/*metabolism ; Receptors, Cytoplasmic and Nuclear/chemistry/*metabolism ; Ribonucleoproteins/chemistry/metabolism ; Signal Recognition Particle/chemistry/*metabolism ; Spectrometry, Fluorescence ; Thermodynamics ; Tryptophan
    Print ISSN: 0036-8075
    Electronic ISSN: 1095-9203
    Topics: Biology , Chemistry and Pharmacology , Computer Science , Medicine , Natural Sciences in General , Physics
    Published by American Association for the Advancement of Science (AAAS)
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  • 2
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    Real-time DNA sequencing from single polymerase molecules (2008)
    American Association for the Advancement of Science (AAAS)
    Details
    Publication Date: 2008-11-22
    Description: We present single-molecule, real-time sequencing data obtained from a DNA polymerase performing uninterrupted template-directed synthesis using four distinguishable fluorescently labeled deoxyribonucleoside triphosphates (dNTPs). We detected the temporal order of their enzymatic incorporation into a growing DNA strand with zero-mode waveguide nanostructure arrays, which provide optical observation volume confinement and enable parallel, simultaneous detection of thousands of single-molecule sequencing reactions. Conjugation of fluorophores to the terminal phosphate moiety of the dNTPs allows continuous observation of DNA synthesis over thousands of bases without steric hindrance. The data report directly on polymerase dynamics, revealing distinct polymerization states and pause sites corresponding to DNA secondary structure. Sequence data were aligned with the known reference sequence to assay biophysical parameters of polymerization for each template position. Consensus sequences were generated from the single-molecule reads at 15-fold coverage, showing a median accuracy of 99.3%, with no systematic error beyond fluorophore-dependent error rates.〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Eid, John -- Fehr, Adrian -- Gray, Jeremy -- Luong, Khai -- Lyle, John -- Otto, Geoff -- Peluso, Paul -- Rank, David -- Baybayan, Primo -- Bettman, Brad -- Bibillo, Arkadiusz -- Bjornson, Keith -- Chaudhuri, Bidhan -- Christians, Frederick -- Cicero, Ronald -- Clark, Sonya -- Dalal, Ravindra -- Dewinter, Alex -- Dixon, John -- Foquet, Mathieu -- Gaertner, Alfred -- Hardenbol, Paul -- Heiner, Cheryl -- Hester, Kevin -- Holden, David -- Kearns, Gregory -- Kong, Xiangxu -- Kuse, Ronald -- Lacroix, Yves -- Lin, Steven -- Lundquist, Paul -- Ma, Congcong -- Marks, Patrick -- Maxham, Mark -- Murphy, Devon -- Park, Insil -- Pham, Thang -- Phillips, Michael -- Roy, Joy -- Sebra, Robert -- Shen, Gene -- Sorenson, Jon -- Tomaney, Austin -- Travers, Kevin -- Trulson, Mark -- Vieceli, John -- Wegener, Jeffrey -- Wu, Dawn -- Yang, Alicia -- Zaccarin, Denis -- Zhao, Peter -- Zhong, Frank -- Korlach, Jonas -- Turner, Stephen -- R01HG003710/HG/NHGRI NIH HHS/ -- New York, N.Y. -- Science. 2009 Jan 2;323(5910):133-8. doi: 10.1126/science.1162986. Epub 2008 Nov 20.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉Pacific Biosciences, 1505 Adams Drive, Menlo Park, CA 94025, USA.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/19023044" target="_blank"〉PubMed〈/a〉
    Keywords: Base Sequence ; Consensus Sequence ; DNA/biosynthesis ; DNA, Circular/chemistry ; DNA, Single-Stranded/chemistry ; DNA-Directed DNA Polymerase/*metabolism ; Deoxyribonucleotides/metabolism ; Enzymes, Immobilized ; Fluorescent Dyes ; Kinetics ; Nanostructures ; Sequence Analysis, DNA/*methods ; Spectrometry, Fluorescence
    Print ISSN: 0036-8075
    Electronic ISSN: 1095-9203
    Topics: Biology , Chemistry and Pharmacology , Computer Science , Medicine , Natural Sciences in General , Physics
    Published by American Association for the Advancement of Science (AAAS)
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  • 3
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    Chiral Hexahalogenated 4,4′-Bipyridines (2016)
    American Chemical Society (ACS)
    Details
    Publication Date: 2016-05-18
    Description: The Journal of Organic Chemistry DOI: 10.1021/acs.joc.6b00413
    Print ISSN: 0022-3263
    Electronic ISSN: 1520-6904
    Topics: Chemistry and Pharmacology
    Published by American Chemical Society (ACS)
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  • 4
    Electronic Resource
    Electronic Resource
    1,3,5-Triazine multiselector systems: New tools for chiral discrimination (1997)
    New York, NY [u.a.] : Wiley-Blackwell
    Chirality 9 (1997), S. 113-121 
    Details
    ISSN: 0899-0042
    Keywords: 1,3,5-triazine ; chiral discrimination ; Chemistry ; Organic Chemistry
    Source: Wiley InterScience Backfile Collection 1832-2000
    Topics: Chemistry and Pharmacology
    Notes: 2-Hexylamino-4-[(S)-1-(1-naphthyl)ethylamino]-6-L-valyl-L-valyl-L-valine isopropylester-1,3,5-triazine (1), a molecule characterized by two different chiral selectors, and 2-hexylamino-4,6-bis-L-valyl-L-valyl-L-valine isopropylester-1,3,5-triazine (2) and 2-ethoxy-4-hexylamino-6-[(S)-1-(1-naphthyl) ethylamino]-1,3,5-triazine (3), systems in which a single kind of chiral selector is present, have been prepared. The enantiodiscriminating ability in solution of the three compounds toward the N-3,5-dinitrobenzoyl derivatives of 1-phenylethylamine (4) or valine methylester (5) has been investigated by 1H nuclear magnetic resonance (NMR) spectroscopy: 1 shows an improved versatility, relative to 2 and 3, as a chiral solvating agent for NMR spectroscopy. On the basis of the indications obtained, the usefulness of 2-chloro-4-[(S)-1-(1-naphthyl)ethylamino]-6-L-val-L-val-L-valine isopropylester-1,3,5-triazine (1a), a direct precursor of 1, as chiral solvating agent for the determination by NMR of the enantiomeric compositions of derivatives of amines, amino alcohols, amino acids, and carboxyl acids bearing a 3,5-dinitrophenyl moiety, has been demonstrated. Chirality 9:113-121, 1997. © 1997 Wiley-Liss, Inc.
    Additional Material: 2 Ill.
    Type of Medium: Electronic Resource
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    Paper (German National Licenses)
  • 5
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    Calculation of the Effective Delayed Neutron Fraction by Deterministic and Monte Carlo Methods (2012)
    Hindawi
    Details
    Publication Date: 2012-06-21
    Description: The studies on Accelerator-Driven Systems (ADSs) have renewed the interest in the theoretical and computational evaluation of the main integral parameters characterizing subcritical systems (e.g., reactivity, effective delayed neutron fraction βeff, and mean prompt neutron generation time). In particular, some kinetic parameters, as the effective delayed neutron fraction, are evaluated in Monte Carlo codes by formulations which do not require the calculation of the adjoint flux. This paper is focused on a theoretical and computational analysis about how the different βeff definitions are connected and which are the approximations inherent to the Monte Carlo definition with respect to the standard definition involving weighted integrals. By means of a refined transport computational analysis carried out in a coherent and consistent way, that is, using the same deterministic code and neutron data library for the βeff evaluation in different ways, the theoretical analysis is numerically confirmed. Both theoretical and numerical results confirm the effectiveness of the Monte Carlo βeff evaluation, at least in cases where spectral differences between total and prompt fluxes are negligible with respect to the value of the functionals entering the classical βeff formulation.
    Print ISSN: 1687-6075
    Electronic ISSN: 1687-6083
    Topics: Energy, Environment Protection, Nuclear Power Engineering
    Published by Hindawi
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  • 6
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    Improved equilibrium reconstructions by advanced statistical weighting of the internal magnetic measurements (2014)
    American Institute of Physics (AIP)
    Details
    Publication Date: 2014-12-25
    Description: In a Tokamak the configuration of the magnetic fields remains the key element to improve performance and to maximise the scientific exploitation of the device. On the other hand, the quality of the reconstructed fields depends crucially on the measurements available. Traditionally in the least square minimisation phase of the algorithms, used to obtain the magnetic field topology, all the diagnostics are given the same weights, a part from a corrective factor taking into account the error bars. This assumption unduly penalises complex diagnostics, such as polarimetry, which have a limited number of highly significant measurements. A completely new method to choose the weights, to be given to the internal measurements of the magnetic fields for improved equilibrium reconstructions, is presented in this paper. The approach is based on various statistical indicators applied to the residuals, the difference between the actual measurements and their estimates from the reconstructed equilibrium. The potential of the method is exemplified using the measurements of the Faraday rotation derived from JET polarimeter. The results indicate quite clearly that the weights have to be determined carefully, since the inappropriate choice can have significant repercussions on the quality of the magnetic reconstruction both in the edge and in the core. These results confirm the limitations of the assumption that all the diagnostics have to be given the same weight, irrespective of the number of measurements they provide and the region of the plasma they probe.
    Print ISSN: 0034-6748
    Electronic ISSN: 1089-7623
    Topics: Electrical Engineering, Measurement and Control Technology , Physics
    Published by American Institute of Physics (AIP)
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  • 7
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    Calculation of the Effective Delayed Neutron Fraction by Deterministic and Monte Carlo Methods (2013)
    Hindawi
    Details
    Publication Date: 2013-01-22
    Description: The studies on Accelerator-Driven Systems (ADSs) have renewed the interest in the theoretical and computational evaluation of the main integral parameters characterizing subcritical systems (e.g., reactivity, effective delayed neutron fraction
    Print ISSN: 1687-6075
    Electronic ISSN: 1687-6083
    Topics: Energy, Environment Protection, Nuclear Power Engineering
    Published by Hindawi
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  • 8
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    Chiral Hexahalogenated 4,4′-Bipyridines (2016)
    American Chemical Society
    Details
    Publication Date: 2016-05-17
    Print ISSN: 0022-3263
    Electronic ISSN: 1520-6904
    Topics: Chemistry and Pharmacology
    Published by American Chemical Society
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  • 9
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    1,3,5-Triazine multiselector systems: New tools for chiral discrimination (1997)
    Wiley
    Details
    Publication Date: 1997-01-01
    Print ISSN: 0899-0042
    Electronic ISSN: 1520-636X
    Topics: Chemistry and Pharmacology
    Published by Wiley
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