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  1. Using dynamics-based comparisons to predict nucleic acid binding sites in proteins: An application to OB-fold domains
    Author: Zen A.; De Chiara C.; Pastore A.; Micheletti C.
    Published: 2009

    Motivation: We have previously demonstrated that proteins may be aligned not only by sequence or structural homology, but also using their dynamical properties. Dynamics-based alignments are sensitive and powerful tools to compare even structurally... more

     

    Motivation: We have previously demonstrated that proteins may be aligned not only by sequence or structural homology, but also using their dynamical properties. Dynamics-based alignments are sensitive and powerful tools to compare even structurally dissimilar protein families. Here, we propose to use this method to predict protein regions involved in the binding of nucleic acids. We have used the OB-fold, a motif known to promote protein-nucleic acid interactions, to validate our approach. Results: We have tested the method using this well-characterized nucleic acid binding family. Protein regions consensually involved in statistically significant dynamics-based alignments were found to correlate with nucleic acid binding regions. The validated scheme was next used as a tool to predict which regions of the AXH-domain representatives (a sub-family of the OB-fold for which no DNA/RNA complex is yet available) are putatively involved in binding nucleic acids. The method, therefore, is a promising general approach for predicting functional regions in protein families on the basis of comparative large-scale dynamics. © The Author 2009. Published by Oxford University Press. All rights reserved.

     
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    Source: BASE Selection for Comparative Literature
    Language: English
    Media type: Article (journal)
    Format: Online
    Subjects: Amino Acid Motif; Binding Site; DNA; DNA-Binding Protein; Nucleic Acid Conformation; Protein Folding; RNA; RNA-Binding Protein; Sequence Alignment; Sequence Analysis; Protein; Software
  2. RNA and DNA editing
    molecular mechanisms and their integration into biological systems
    Published: 2008
    Publisher:  Wiley-Interscience, Hoboken, N.J.

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    Universitätsbibliothek Bayreuth
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    Universitätsbibliothek Regensburg
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    Content information
    Source: Union catalogues
    Language: English
    Media type: Book
    ISBN: 9780470109915
    RVK Categories: WD 5355 ; WG 1700 ; WG 1800
    Subjects: Base Sequence; DNA; Genetic transcription; Genomics; Nucleotide sequence; RNA Editing; RNA editing; Transcription, Genetic; Transkription <Genetik>; RNS-Edierung
    Scope: XXIII, 426 S., Ill., graph. Darst.
    Notes:

    Includes bibliographical references and index
  3. RNA and DNA editing
    molecular mechanisms and their integration into biological systems
    Published: 2008
    Publisher:  Wiley-Interscience, Hoboken, N.J.

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    Humboldt-Universität zu Berlin, Universitätsbibliothek, Jacob-und-Wilhelm-Grimm-Zentrum
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    Source: Union catalogues
    Language: English
    Media type: Book
    ISBN: 9780470109915
    RVK Categories: WD 5355 ; WG 1700 ; WG 1800
    Subjects: Base Sequence; DNA; Genetic transcription; Genomics; Nucleotide sequence; RNA Editing; RNA editing; Transcription, Genetic; Transkription <Genetik>; RNS-Edierung
    Scope: XXIII, 426 S., Ill., graph. Darst.
    Notes:

    Includes bibliographical references and index
  4. RNA and DNA Editing
    Molecular Mechanisms and Their Integration into Biological Systems
    Author: Smith, Harold C.
    Published: 2008; ©2008.
    Publisher:  John Wiley & Sons, Incorporated, Hoboken

    Harold C. Smith, PhD, is Professor in the Department of Biochemistry and Biophysics at the University of Rochester and the founder and Chief Scientific Officerof OyaGen, a biotech company that develops drugs that target editing enzymes. Dr. Smith... more

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    Duale Hochschule Baden-Württemberg Heidenheim, Bibliothek
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    Kommunikations-, Informations- und Medienzentrum der Universität Hohenheim
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    Harold C. Smith, PhD, is Professor in the Department of Biochemistry and Biophysics at the University of Rochester and the founder and Chief Scientific Officerof OyaGen, a biotech company that develops drugs that target editing enzymes. Dr. Smith organized the first Gordon Research Conference on RNA Editing in 1997 and holds four patents. Intro -- RNA AND DNA EDITING -- CONTENTS -- PREFACE -- ACKNOWLEDGMENTS -- CONTRIBUTORS -- PART I DIVERSIFICATION OF THE PROTEOME THROUGH RNA AND DNA EDITING -- CHAPTER 1 DIVERSIFYING EXON CODE THROUGH A-TO-I RNA EDITING -- 1.1 Introduction and Background -- 1.1.1 Initial Discovery and Context of A-to-I RNA Editing and ADARs -- 1.1.2 Important Cases of Recoding by A-to-I Modification in Pre-mRNA -- 1.1.3 Cis-Acting Features for A-to-I Editing -- 1.1.4 Properties of the A-to-I Editing Machinery -- 1.2 Main Questions in the Field and Approaches -- 1.2.1 Biochemical Versus Computational Approaches -- 1.2.2 Editing of miRNA Sequences -- 1.3 Future Directions: Evolution of Editing Sites and Machinery -- References -- CHAPTER 2 ANTIBODY GENE DIVERSIFICATION BY AID-CATALYZED DNA EDITING -- 2.1 Introduction -- 2.2 Before AID -- 2.2.1 Without DNA (Darkness) and with DNA (Light) -- 2.2.2 Prominent Early Models for Antibody Diversification -- 2.2.3 How Protein Sequencing Technology Enabled an Understanding of Antibody Diversity -- 2.2.4 Somatic DNA Rearrangements Underpin V(D)J Joining and Create the Primary Antibody Repertoire -- 2.2.5 Additional Antibody Diversity by Somatic Hypermutation (and Gene Conversion in Some Animals) -- 2.2.6 Altering Antibody Function by Class Switch Recombination (Isotype Switching) -- 2.3 After AID -- 2.3.1 A Novel Deaminase Is Required for CSR, SHM, and IGC -- 2.3.2 AID Is a DNA Cytosine Deaminase that Directly Triggers Antibody Diversification -- 2.3.3 The Importance of Uracil Bases in DNA In Vivo -- 2.3.4 Processing of AID-induced Lesions: The Molecular Mechanism of Somatic-Hypermutation -- 2.3.5 Processing of AID-induced Lesions: The Molecular Mechanism of Immunoglobulin Gene Conversion -- 2.3.6 Processing of AID-induced Lesions: The Molecular Mechanism of Class Switch Recombination -- 2.4 Hot Areas and Speculations.

     
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    Content information
    Volltext (lizenzpflichtig)
    Source: Union catalogues
    Language: English
    Media type: Ebook
    Format: Online
    ISBN: 9780470262252
    RVK Categories: WD 5355 ; WD 5360
    Edition: 1st ed.
    Subjects: Nucleotide sequence; DNA; Genetic transcription; Nucleotide sequence; RNA editing; Electronic books
    Scope: 1 online resource (464 pages)
    Notes:

    Description based on publisher supplied metadata and other sources
  5. Burn and Rosalind
    a question of life
    Author: Gearing, Deborah
    Published: 2012
    Publisher:  Oberon Books, London

    Location:
    Ostbayerische Technische Hochschule Amberg-Weiden / Hochschulbibliothek Amberg
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    Ostbayerische Technische Hochschule Amberg-Weiden, Hochschulbibliothek, Standort Weiden
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    Source: Union catalogues
    Language: English
    Media type: Ebook
    Format: Online
    ISBN: 9781849437905; 1849437904; 1840026596; 9781840026597
    Series: Oberon plays for young people
    Subjects: FICTION / General; DNA / Research; Teenagers; Women scientists; Teenagers; Women scientists; DNA
    Scope: 124 pages
    Notes:

    Master and use copy. Digital master created according to Benchmark for Faithful Digital Reproductions of Monographs and Serials, Version 1. Digital Library Federation, December 2002

    Burn -- Rosalind : a question of life

    "[Burn] is the story of Birdman. Fifteen years old, no family, no friends--a loner with nothing to lose. One lazy afternoon, down on the riverbank, the friends he never had narrate the story of his dramatic last day. [Burn] is a unique portrait of teenage life, drawn with startling and refreshing honesty. Rosalind: A Question of Life tells the story of a passionate scientist who helped to discover the structure of DNA only to be written out of the history books. A moving and brilliantly theatrical exploration of ambition and regret."--Publisher description, from p. [4] of cover
  6. Physikalische und zelluläre Einflussfaktoren auf das Konformationsgleichgewicht nicht-kanonischer DNS-Strukturen
    Author: Knop, Jim-Marcel
    Published: 2021
    Publisher:  Universitätsbibliothek Dortmund, Dortmund

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    Source: Union catalogues
    Contributor: Winter, Roland (Akademischer Betreuer)
    Language: German
    Media type: Dissertation
    Format: Online
    Other identifier:
    hdl: 2003/40494
    Subjects: Fluoreszenz-Resonanz-Energie-Transfer; FRET; DNA
    Other subjects: Single-molecule; FRET; G-Quadruplex; I-Motiv; Hochdruck; DNS
    Scope: Online-Ressource
    Notes:

    Dissertation, Dortmund, Technische Universität, 2021
  7. RNA and DNA editing
    methods and protocols
    Published: 2011
    Publisher:  Humana Pr., New York [u.a.]

    Location:
    Universitätsbibliothek Braunschweig
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    2911-5086
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    Max-Planck-Institut für Molekulare Zellbiologie und Genetik, Bibliothek
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    MMB 718
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    Publikations- und Informationsservice, Max-Planck-Institut für Multidisziplinäre Naturwissenschaften
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    E 4/07
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    Source: Union catalogues
    Language: English
    Media type: Book
    Format: Print
    ISBN: 1617790176; 9781617790171
    RVK Categories: WC 4150 ; WG 1800
    Series: Methods in molecular biology ; 718
    Springer protocols
    Subjects: RNA editing; DNA; Genetic transcription; Nucleotide sequence; RNA Editing; Base Sequence; Transcription, Genetic
    Scope: XIII, 275 S., Ill., graph. Darst.
    Notes:

    Literaturangaben
  8. RNA and DNA editing
    molecular mechanisms and their integration into biological systems
    Contributor: Smith, Harold C. (Hrsg.)
    Published: c 2008
    Publisher:  Wiley-Interscience, Hoboken, NJ

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    Sächsische Landesbibliothek - Staats- und Universitätsbibliothek Dresden
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    Universitätsbibliothek Greifswald
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    Publikations- und Informationsservice, Max-Planck-Institut für Multidisziplinäre Naturwissenschaften
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    E 16 c/70

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    Universitätsbibliothek Heidelberg
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    UBN/WD 5355 S649
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    Karlsruher Institut für Technologie, KIT-Bibliothek
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    2008 A 2491
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    Universitätsbibliothek Kiel, Zentralbibliothek
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    Universität Leipzig, Universitätsbibliothek, Bibliothek Medizin/Naturwissenschaften
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    Universitätsbibliothek Stuttgart
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    Universitätsbibliothek der Eberhard Karls Universität
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    Source: Union catalogues
    Contributor: Smith, Harold C. (Hrsg.)
    Language: English
    Media type: Book
    Format: Print
    ISBN: 0470109912; 9780470109915
    Other identifier:
    2007039289
    RVK Categories: WD 5360 ; WD 5355
    Subjects: RNA editing; DNA; Nucleotide sequence; Genetic transcription; RNA Editing; Base Sequence; Genomics; Transcription, Genetic; RNA editing; DNA; Nucleotide sequence; Genetic transcription
    Scope: XXIII, 426 S., Ill., graph. Darst., 25 cm
    Notes:

    Includes bibliographical references and index