10858nam 2200553 450 991055525790332120220328132539.03-527-81455-83-527-81452-33-527-81453-1(CKB)4100000011979067(MiAaPQ)EBC6675280(Au-PeEL)EBL6675280(OCoLC)1260344786(EXLCZ)99410000001197906720220328d2021 uy 0engurcnu||||||||txtrdacontentcrdamediacrrdacarrierRibozymesVolume 1 principles, methods, applications /edited by Sabine Müller, Benoît Masquida, Wade WinklerWeinheim, Germany :Wiley-VCH,[2021]©20211 online resource (1076 pages)3-527-34454-3 Includes bibliographical references and index.Intro -- Table of Contents -- Title Page -- Title Page -- Copyright -- Preface -- Foreword -- References -- Volume 1 -- Part I: Nucleic Acid Catalysis: Principles, Strategies and Biological Function -- 1 The Chemical Principles of RNA Catalysis -- 1.1 RNA Catalysis -- 1.2 Rates of Chemical Reactions and Transition State Theory -- 1.3 Phosphoryl Transfer Reactions in the Ribozymes -- 1.4 Catalysis of Phosphoryl Transfer -- 1.5 General Acid-Base Catalysis in Nucleolytic Ribozymes -- 1.6 pKa Shifting of General Acids and Bases in Nucleolytic Ribozymes -- 1.7 Catalytic Roles of Metal Ions in Ribozymes -- 1.8 The Choice Between General Acid-Base Catalysis and the Use of Metal Ions -- 1.9 The Limitations to RNA Catalysis -- Acknowledgment -- References -- 2 Biological Roles of Self‐Cleaving Ribozymes -- 2.1 Introduction -- 2.2 Use of Self‐cleaving Ribozymes for Replication -- 2.3 Self‐cleaving Ribozymes as Part of Transposable Elements -- 2.4 Hammerhead Ribozymes with Suggested Roles in mRNA Biogenesis -- 2.5 The glmS Ribozyme Regulates Glucosamine‐6‐phosphate Levels in Bacteria -- 2.6 The Biological Roles of Many Ribozymes Are Unknown -- 2.7 Conclusion -- Acknowledgments -- References -- Part II: Naturally Occurring Ribozymes -- 3 Chemical Mechanisms of the Nucleolytic Ribozymes -- 3.1 The Nucleolytic Ribozymes -- 3.2 Some Nucleolytic Ribozymes Are Widespread -- 3.3 Secondary Structures of Nucleolytic Ribozymes - Junctions and Pseudoknots -- 3.4 Catalytic Players in the Nucleolytic Ribozymes -- 3.5 The Hairpin and VS Ribozymes: The G Plus A Mechanism -- 3.6 The Twister Ribozyme: A G Plus A Variant -- 3.7 The Hammerhead Ribozyme: A 2'‐Hydroxyl as a Catalytic Participant -- 3.8 The Hepatitis Delta Virus Ribozyme: A Direct Role for a Metal Ion -- 3.9 The Twister Sister (TS) Ribozyme: Another Metallo‐Ribozyme.3.10 The Pistol Ribozyme: A Metal Ion as the General Acid -- 3.11 The glmS Ribozyme: Participation of a Coenzyme -- 3.12 A Classification of the Nucleolytic Ribozymes Based on Catalytic Mechanism -- Acknowledgments -- References -- Note -- 4 The glmS Ribozyme and Its Multifunctional Coenzyme Glucosamine‐6‐phosphate -- 4.1 Introduction -- 4.2 Ribozymes -- 4.3 Riboswitches -- 4.4 The glmS Riboswitch/Ribozyme -- 4.5 Biological Function of the glmS Ribozyme -- 4.6 glmS Ribozyme Structure and Function - Initial Biochemical Analyses -- 4.7 glmS Ribozyme Structure and Function - Initial Crystallographic Analysis -- 4.8 Metal Ion Usage by the glmS Ribozyme -- 4.9 In Vitro Selected glmS Catalyst Loses Coenzyme Dependence -- 4.10 Essential Coenzyme GlcN6P Functional Groups -- 4.11 Mechanism of glmS Ribozyme Self‐Cleavage -- 4.12 Potential for Antibiotic Development Affecting glmS Ribozyme/Riboswitch Function -- Acknowledgments -- References -- 5 The Lariat Capping Ribozyme -- 5.1 Introduction -- 5.2 Reactions Catalyzed by LCrz -- 5.3 The Structure of the LCrz Core -- 5.4 Communication Between LCrz and Flanking Elements -- 5.5 Reflections on the Evolutionary Aspect of LCrz -- 5.6 LCrz as a Research Tool -- 5.7 Conclusions and Unsolved Problems -- References -- 6 Self‐Splicing Group II Introns -- 6.1 Introduction -- 6.2 Milestones in the Characterization of Group II Introns -- 6.3 Evolutionary Conservation and Biological Role -- 6.4 Structural Architecture -- 6.5 Lessons and Tools from Group II Intron Research -- 6.6 Perspectives and Open Questions -- Acknowledgments -- References -- 7 The Spliceosome: an RNA-Protein Ribozyme Derived From Ancient Mobile Genetic Elements -- 7.1 Discovery of Introns and Splicing -- 7.2 snRNPs and the Spliceosome -- 7.3 The Spliceosomal Cycle -- 7.4 Chemistry of Splicing -- 7.5 Spliceosome Structural Analysis.7.6 Spliceosome Structures -- 7.7 Insights from Spliceosome Disassembly -- 7.8 Conservation of Spliceosomal and Group II Active Sites -- 7.9 Summary and Perspectives -- References -- 8 The Ribosome and Protein Synthesis -- 8.1 Central Dogma of Molecular Biology -- 8.2 Structure of the E. coli Ribosome -- 8.3 Translation Cycle -- References -- 9 The RNase P Ribozyme -- 9.1 Introduction -- 9.2 Bacterial RNase P -- 9.3 Substrate Interaction -- 9.4 RNA‐based Metal Ion Catalysis -- 9.5 RNase P as an Antibiotic Target -- 9.6 Application of RNase P as a Tool in Gene Inactivation -- References -- 10 Ribozyme Discovery in Bacteria -- 10.1 Introduction -- 10.2 Protein Takeover -- 10.3 Ribozymes as Evolutionary Holdouts -- 10.4 The Role of Serendipity in Early Ribozyme Discoveries -- 10.5 Ribozymes Emerge from Structured Noncoding RNA Searches -- 10.6 Ribozymes Beget Ribozymes -- 10.7 Ribozyme Dispersal Driven by Association with Selfish Elements -- 10.8 Domesticated Ribozymes -- 10.9 New Ribozymes from Old -- 10.10 Will New ncRNAs Broaden the Scope of RNA Catalysis? -- Acknowledgments -- References -- 11 Small Self‐Cleaving Ribozymes in the Genomes of Vertebrates -- 11.1 The Family of Small Self‐Cleaving Ribozymes in Eukaryotic Genomes: From Retrotransposition to Domestication -- 11.2 The Widespread Case of the Hammerhead Ribozyme: From Bacteria to Vertebrate Genomes -- 11.3 Other Intronic HHRs in Amniotes: Small Catalytic RNAs in Search of a Function -- 11.4 The Family of the Hepatitis D Virus Ribozymes -- 11.5 Other Small Self‐Cleaving Ribozymes Hidden in the Genomes of Vertebrates? -- References -- Part III: Engineered Ribozymes -- 12 Phosphoryl Transfer Ribozymes -- 12.1 Introduction -- 12.2 Kinase Ribozymes -- 12.3 Glycosidic Bond Forming Ribozymes -- 12.4 Capping Ribozymes -- 12.5 Ligase Ribozymes -- 12.6 Polymerase Ribozymes -- 12.7 Summary.References -- 13 RNA Replication and the RNA Polymerase Ribozyme -- 13.1 Introduction -- 13.2 Nonenzymatic RNA Polymerization -- 13.3 Enzymatic RNA Polymerization -- 13.4 Essential Requirements for an RNA Replicator -- 13.5 The Class I Ligase and the First RNA Polymerase Ribozymes -- 13.6 Structural Insight into the Catalytic Core of the RNA Polymerase Ribozyme -- 13.7 Selection for Improved Polymerase Activity I -- 13.8 Selection for Improved Polymerase Activity II -- 13.9 Conclusion and Outlook -- References -- 14 Maintenance of Genetic Information in the First Ribocell -- 14.1 The Ribocell and the Stages of the RNA World -- 14.2 The Error Thresholds -- 14.3 Compartmentalization -- 14.4 Minimal Gene Content of the First Ribocell -- Acknowledgments -- References -- 15 Ribozyme‐Catalyzed RNA Recombination -- 15.1 Introduction -- 15.2 RNA Recombination Chemistry -- 15.3 Azoarcus Group I Intron -- 15.4 Crystal Structure -- 15.5 Mechanism -- 15.6 Model for Prebiotic Chemistry -- 15.7 Spontaneous Self‐assembly of Azoarcus RNA Fragments -- 15.8 Autocatalysis -- 15.9 Cooperative Self‐assembly -- 15.10 Game Theoretic Treatment -- 15.11 Significance of Game Theoretic Treatments -- 15.12 Other Recombinase Ribozymes -- 15.13 Conclusions -- References -- 16 Engineering of Hairpin Ribozymes for RNA Processing Reactions -- 16.1 Introduction -- 16.2 The Naturally Occurring Hairpin Ribozyme -- 16.3 Structural Variants of the Hairpin Ribozyme -- 16.4 Hairpin Ribozymes that are Regulated by External Effectors -- 16.5 Twin Ribozymes for RNA Repair and Recombination -- 16.6 Hairpin Ribozymes as RNA Recombinases -- 16.7 Self‐Splicing Hairpin Ribozymes -- 16.8 Closing Remarks -- References -- 17 Engineering of the Neurospora Varkud Satellite Ribozyme for Cleavage of Nonnatural Stem‐Loop Substrates -- 17.1 Introduction.17.2 Simple Primary and Secondary Structure Changes Compatible with Substrate Cleavage by the VS Ribozyme -- 17.3 The Structural Context -- 17.4 Structure‐Guided Engineering Studies -- 17.5 Summary and Future Prospects for VS Ribozyme Engineering -- References -- 18 Chemical Modifications in Natural and Engineered Ribozymes -- 18.1 Introduction -- 18.2 Chemical Modifications to Study Natural Ribozymes -- 18.3 In Vitro Selection with Chemically Modified Nucleotides: Expanding the Scope of DNA and RNA Catalysis -- 18.4 Outlook -- References -- 19 Ribozymes for Regulation of Gene Expression -- 19.1 Introduction -- 19.2 Conditional Gene Expression Control by Riboswitches -- 19.3 Allosteric Ribozymes as Engineered Riboswitches -- 19.4 In Vitro Selection Methods -- 19.5 In Vivo Screening Methods -- 19.6 Rational Design of Allosteric Ribozymes -- 19.7 Applications of Aptazymes for Gene Regulation -- References -- 20 Development of Flexizyme Aminoacylation Ribozymes and Their Applications -- 20.1 Introduction -- 20.2 The First Ribozymes Catalyzing Acyl Transfer to RNAs -- 20.3 The ATRib Variant Family: Ribozymes Catalyzing tRNA Aminoacylation via Self‐Acylated Intermediates -- 20.4 Prototype Flexizymes: Ribozymes Catalyzing Direct tRNA Aminoacylation -- 20.5 Flexizymes: Versatile Ribozymes for the Preparation of Aminoacyl‐tRNAs -- 20.6 Application of Flexizymes to Genetic Code Reprogramming -- 20.7 Development of Orthogonal tRNA/Ribosome Pairs Using Mutant Flexizymes -- 20.8 In Vitro Selection of Bioactive Peptides Containing nPAAs Through RaPID Display -- 20.9 tRid: A Method for Selective Removal of tRNAs from an RNA Pool -- 20.10 Use of a Natural Small RNA Library Lacking tRNA for In Vitro Selection of a Folic Acid Aptamer: Small RNA Transcriptomic SELEX -- 20.11 Summary and Perspective -- Acknowledgments -- References.21 In Vitro Selected (Deoxy)ribozymes that Catalyze Carbon-Carbon Bond Formation.Genetic regulationCatalytic RNAElectronic books.Genetic regulation.Catalytic RNA.572.88Masquida BenoîtWinkler Wade C.1972-Müller Sabine1954-MiAaPQMiAaPQMiAaPQBOOK9910555257903321Ribozymes2820858UNINA03193nam 2200733 450 991027505550332120170810194308.02-7606-2963-5979-1-03-650194-42-7606-2421-810.4000/books.pum.9164(CKB)2470000000002211(SSID)ssj0000734879(PQKBManifestationID)12307230(PQKBTitleCode)TC0000734879(PQKBWorkID)10743572(PQKB)10644562(MiAaPQ)EBC4750013(CaPaEBR)406467(CaBNvSL)slc00207730(MiAaPQ)EBC3248976(FrMaCLE)OB-pum-9164(oapen)https://directory.doabooks.org/handle/20.500.12854/46921(VaAlCD)20.500.12592/f5cqv4(schport)gibson_crkn/2009-12-01/3/406467(PPN)225781859(EXLCZ)99247000000000221120161213h20042004 uy 0freurcnu||||||||txtccrEt si nous dansions? pour une politique du bien commun au Canada /Charles Blattberg ; Traduit de l'anglais par Isabelle ChaînonPresses de l’Université de Montréal2004Montréal, Quebec :Presses de l'Université de Montréal,2004.©20041 online resource (217 pages)Champ libre (Presses de l'Université de Montréal)Traduction de: Shall we dance?2-7606-1948-6 Includes bibliographical references.Pourquoi un si grand nombre de Canadiens ne se sentent pas chez eux dans leur propre pays ? Certains de nos principaux problèmes et controverses politiques ne pourraient-ils pas trouver leur résolution dans une nouvelle forme de dialogue ? Ce sont les questions que développe ici le philosophe politique Charles Blattberg, qui affirme que la voie que nous devrions privilégier aujourd'hui en politique canadienne est la conversation. Selon lui, toutes les formes de dialogue auxquelles nous avons eu recours jusqu'à présent sont inadéquates et seule la conversation permettra des rapprochements réels en cas de conflit et pourra mener à une pleine réalisation du bien commun. Dans cet essai étonnant, Blattberg défend une nouvelle conception de ce qu'est ou devrait être un pays : une communauté de citoyens.Champ libre (Presses de l'Université de Montréal)Communication in politicsCanadaCommon goodCanadaPolitics and governmentCanadaEthnic relationsPolitical aspectsdialogue socialbien communpolitique publiquecitoyennetéCommunication in politicsCommon good.320.014Blattberg Charles906535Chaînon IsabelleMiAaPQMiAaPQMiAaPQBOOK9910275055503321Et si nous dansions2027535UNINA