Docstoc

Respiration in Archaea and Bacteria Diversity of Prokaryotic

Document Sample
Respiration in Archaea and Bacteria Diversity of Prokaryotic Powered By Docstoc
					                      of Biology University Transport Carriers
                      ACADEMIC PUBLISHERS
                          Bacteria
                              BOSTON 1 LONDONBologna,
                               Zannoniof
                                   in
                                   by
            of Prokaryotic 1 Electron Archaea




Respiration



              and

Diversity




                           Edited

                      Davide
             Department
                            Italy




                               ""
                               ON

              KLUWER
                  DOFRDRECHT
Contents
Editorial                                                                                  v



Preface

Color Plates                                                                           CP-1

1   Evolution and Phylogenetic Analysis of Respiration                                 1-14
        Jose Castresana
               Summary                                                                      1
               1.     Introduction                                                          2
               Il . Chemical Composition of the Primitive Atmosphere and Oceans             2
               II1 . Heterotrophic vs, Autotrophic Origin of Energy Conversion              3
               IV. The Comparative Genomics Evidence on the Evolution of Respiration        3
               V. Ancient Respiratory Mechanisms                                            5
               V1 . Respiratory Mechanisms Evolved in Archaea                               8
               VII . The Last Universal Ancestor Was a Generalist Organism                  8
               Vlll . The Respiration- Eariy Hypothesis : Photosynthesis Came Later         9
               Acknowledgments                                                             10
               References                                                                  10

2    NADH Dehydrogenase (NADH-Quinone Oxidoreductase)                                  15-40
        Takao Yagi, Salvatore Di Bemardo, Eiko Nakamaru-Ogiso,
            Mou-Chieh Kao, Byoung Boo Seo, and Akemi Matsuno-Magi
               Summary                                                                     15
               I.    Introduction                                                          16
               ii. Genes and Regulations of H+-Translocating NADH-Quinone (Q)
                     Oxidoreductase (NDH-1) and NADH-Q Oxidoreductase (Non-Energy
                     Transducing, NDH-2)                                                   17
               111 . NDH-1                                                                 20
               IV . NDH-2                                                                  31
               Acknowledgments                                                             33
               References                                                                  33

3    Bacterial Hydroquinone:Cytochrome c Oxidoreductases.
     Physiology, Structure and Function                                                41--55
            Jason W, Cooley, Elisabeth Darrouzet and Fevzi DaIdal
                Summary                                                                    41
                I.    Introduction                                                         42
                II. Experimental Systems Used in the Study of the Cyt bc,                  44
                III . Structure of the Cyt be,                                             46
                IV. Function of the Cyt be, The Modified Q cycle
                                          :                                                50
           V. Diseases Associated with the Cyt bc1
           51
           Acknowledgments                                                                    53
           References                                                                         53

4   Structure and Function of Succinate:Quinone Oxidoreductases and
    the Role of Quinol :Fumarate Reductases in Fumarate Respiration 57-85
        C. Roy D, Lancaster
            Summary                                                                           58
            I.     Introduction                                                               58
            II, Organization of the sdh and frd Genes                                         61
            III . Structure and Function of the Quinol : Fumarate Reductase (QFR) Subunits    62
            IV. The Site(s) of Menaquinol Oxidation and Quinone Reduction                     68
            V. Catalytic Properties of Succinate :Quinone Reductases (SQRs) and
                   Quinol :Fumarate Reductases (QFRs)                                         69
            VI   . Electron Transfer                                                          70
            VII, Inhibition of SQR and QFR                                                    74
            VIII . The Function of Menaquinone in W. succinogenes Fumarate Respiration
                   and Reconstitution of the Electron Transfer Chains                         74
            IX. Energetics of Fumarate Respiration and the Mechanism of Ap Generation         77
            X. Conclusions                                                                    80
            Acknowledgments                                                                   81
            References                                                                        81

5   Biochemical and Molecular Features of Terminal Oxidases                              87--113
        Junshi Sakamoto and Nobuhito Sone
            Summary                                                                           88
            I.    Introduction                                                                88
            II . Diversity and Unity of Cytochrome Oxidases                                   89
            II . SoxM-Type Oxidases                                                           91
            IV . SoxB-Type Oxidases                                                           96
            V. FixN-Type Oxidases                                                             98
            VI . Cytochrome bd                                                               100
            VII . Interaction with Cyt c and Quinoi : Cytochrome cOxidoreductase (QCR)       102
            VIII. Energy-Yielding Terminal Oxidases                                          104
            References                                                                       107

6   Structures of Bacterial Herne-Copper Oxidases                                    115-128
        Jeff Abramson, Tatsuro Shimamura and So iwata
            summary                                                                          115
            I.    Introduction                                                               116
            II. Structures of Cytochrome c Oxidases                                          116
            III . Structure of Ubiquinol Oxidase                                             124
            Acknowledgment                                                                   127
            References                                                                       127
7   Functional Aspects of Heme-Copper Terminal Oxidases                            129-153
        Peter Brzezinski, Gisela Larsson and Pia Adelroth
            Summary                                                                       130
            l.    Introduction                                                            130
            11 . Structures                                                               131
            lit . General Design of a Proton Pump                                         134
             IV. Intramolecular Electron and Proton Transfer                              134
            V . Reaction of the Reduced Enzyme With Oxygen                                139
            VI . Putative Specific Proton Pumping Mechanisms                              144
            Vil . Current issues and Unresolved Questions                                 145
            Acknowledgments                                                               145
             References                                                                   146

8   The Nay--Translocating NADH-Quinone Reductase of Marine and
    Moderately Halophilic Bacteria                                                    155-174
        Maki Hayashi and Tsutomu Unemoto
            Summary                                                                       155
            I.     Introduction                                                           156
            11. Redox-Driven Na+ Pump of Vibrio alginolyticus                             156
            Ill . Other Components of the Respiratory Chain of V. alginolyticus           156
            IV. Catalytic Properties and Sub-Unit Structure of Na+-NQR                    159
            V. Mechanism of Energy Coupling                                               164
            VI. Inhibitor Studies                                                         168
            VII. Distribution of the Na+-NQR                                              169
            Vill . Bioenergetics of Marine Bacteria                                       170
            References                                                                    171

9   Microbial Molybdenum-Containing Enzymes in Respiration:
    Structural and Functional Aspects                                                 175-202
         Alastair G. McEwan, Ulrike Kappler and ChristopherA, MCDet%Itt
            Summary                                                                   176
            I.    Introduction                                                        176
            11. Phylogeny of Enzymes of the Dimethylsulfoxide (DMSO) Reductase Family 179
            III . Respiratory Processes Involving Molybdenum Enzymes                  180
            IV . Organization of Electron Transport Pathways                          186
            V . Structural Studies of Prokaryotic Respiratory Molybdenum Enzymes      189
            VI . Mechanism of Molybdenum-Containing Enzymes                           194
            References                                                                196

10 The Pyrroloquinoline Quinone (PQQ)-Containing
   Dehydrogenases                                                                     203-225
         Christopher Anthony
             Summary                                                                      203
             1.    Introduction                                                           204
             11. The Physiological Roles of the Quinoprotein Dehydrogenases and
                   Their Electron Transport Chains                                        205
             111 . The Structures of the PQQ-Containing Quinoprotein Dehydrogenases       208
            IV. The Dehydrogenases                                                209
            Acknowledgments                                                       222
            References                                                            222

11   Biogenesis of Cytochrome c                                               227-250
        Elisabeth Enggist and Linda Thony-Meyer
            Summary                                                               228
            I.    Introduction                                                    228
            II. Prokaryotic Genes for Cytochrome c Maturation                     229
            111 . Apo-Cytochrome c                                                232
            1V. Heme                                                              236
            V. Heme Ligation                                                      242
            VI, Open Questions                                                    244
            Acknowledgment                                                        245
            References                                                            246

12 Bacterial Hemoglobins : Old Proteins with `New' Functions?
   Roles in Respiratory and Nitric Oxide Metabolism                           251-286
        Guanghui Wu, Laura M. Wainwright, Jorge Membrillo-
        Hernandez and Robert K. Poole
            Summary                                                               252
            I.    Introduction to Globins-Definition and the Classical View       253
            II . The Vitreoscilla Globin, Vgb, and other Single Domain
                  Myoglobin-like Globins                                          255
            III . Truncated Globins                                               262
            IV, Flavohemoglobins                                                  266
            V. Evolution of Globins                                               278
            VI. Concluding Remarks                                                279
            Acknowledgments                                                       280
            References                                                            280

13 Oxidases as Redox Sensors in Pigment Synthesis                             287-309
        Jeong-!l Oh and Samuel Kaplan
            Summary                                                               287
             I.   Introduction                                                    288
            11 . Overview of PS Gene Regulation                                   292
            111 . cbb3 Cytochrome c Oxidase                                       295
            IV, cbb~-PrrBA Signal Transduction Pathway                            299
            V. Redox State of the Quinone Pool and PS Gene Expression             302
            VI. Concluding Remarks                                                305
            Addendum Added in Proof                                               305
            Acknowledgments                                                       305
            References                                                            305

Subject Index                                                                    3'11
Species Index                                                                    321
Gene and Gene Product Index                                                      325

				
DOCUMENT INFO
Shared By:
Categories:
Tags:
Stats:
views:7
posted:12/3/2011
language:English
pages:5