Moldave Progress in Nucleic Acid Research and Molecular Biology

1. Auflage 2002
ISBN: 978-0-08-052266-1
Verlag: Elsevier Science & Techn.
Format: PDF
Kopierschutz: 1 - PDF Watermark

E-Book, Englisch, Band Volume 71, 569 Seiten, Web PDF

Reihe: Progress in Nucleic Acid Research and Molecular Biology

Progress in Nucleic Acid Research and Molecular Biology provides a forum for discussion of new discoveries, approaches, and ideas in molecular biology. It contains contributions from leaders in their fields and abundant references. - Nucleic acids are the fundamental building blocks of DNA and RNA and are found in virtually every living cell - Molecular biology is a branch of science that studies the physicochemical properties of molecules in a cell, including nucleic acids, proteins, and enzymes

Autoren/Hrsg.

Moldave, Kivie

Inhaltsverzeichnis

1;Cover;1
2;Contents;6
3;Some Articles Planned for Future Volumes;12
4;Chapter 1. DNA Modifications by Antitumor Platinum and Ruthenium Compounds: Their Recognition and Repair ;14
4.1;I. Introduction;15
4.2;II. Current State of Knowledge on DNA Interactions of ClassicalŽ Antitumor Cisplatin and Its Clinically Ineffective trans Isomer ;16
4.3;III. DNA Interactions of Cisplatin Analogs ;38
4.4;IV. Activation of trans Geometry;51
4.5;V. Polynuclear Platinum Antitumor Drugs;55
4.6;VI. Antitumor Ruthenium Compounds ;62
4.7;VII. Concluding Remarks;67
4.8;References;67
5;Chapter 2. AMP- and Stress-Activated Protein Kinases: Key Regulators of Glucose-Dependent Gene Transcription in Mammalian Cells? ;82
5.1;I. AMP-Activated Protein Kinase;83
5.2;II. SNF1 and Glucose Repression in Yeast;84
5.3;III. AMPK and Regulation of Gene Transcription in Mammals;84
5.4;IV. Downstream Targets of AMPK and Gene Transcription;90
5.5;V. Mitogen- and Stress-Activated Protein Kinases;91
5.6;VI. Conclusions;95
5.7;References;95
6;Chapter 3. Molecular Basis of Fidelity of DNA Synthesis and Nucleotide Specificity of Retroviral Reverse Transcriptases;104
6.1;I. Introduction;105
6.2;II. The Role of Reverse Transcriptase in Retroviral Mutagenesis;106
6.3;III. Retroviral Reverse Transcriptases;107
6.4;IV. Fidelity of Retroviral Reverse Transcriptases;110
6.5;V. Control of Fidelity at Initiation of Reverse Transcription;121
6.6;VI. Fidelity of Strand Transfer: Implications for Retroviral Recombination;122
6.7;VII. Contribution of Accessory Proteins to Fidelity of Reverse Transcription;123
6.8;VIII. Mutational Analysis of HIV-1 Reverse Transcriptase: The Effects of Mutations on Fidelity of DNA Synthesis ;125
6.9;IX. Biological Consequences of Increasing or Decreasing Fidelity;142
6.10;X. Conclusions and Future Perspectives ;144
6.11;References;145
7;Chapter 4. Muc4/Sialomucin Complex, the Intramembrane ErbB2 Ligand, in Cancer and Epithelia: To Protect and To Survive;162
7.1;I. Membrane Mucins;163
7.2;II. Muc4/SMC Structure and Functions;166
7.3;III. Muc4/SMC Contributions to Tumor Progression;173
7.4;IV. Muc4/SMC in Simple Epithelia;176
7.5;V. Muc4/SMC in Glandular Secretory Epithelia;183
7.6;VI. Muc4/SMC in Stratified Epithelia;190
7.7;VII. Conclusions and Future Directions;192
7.8;References;193
8;Chapter 5. Functions of Alphavirus Nonstructural Proteins in RNA Replication ;200
8.1;I. Introduction;200
8.2;II. Replication Cycle of Alphaviruses;201
8.3;III. Alphavirus-Like Superfamily;203
8.4;IV. Replication of Alphavirus RNAs;205
8.5;V. Processing of Alphavirus Nonstructural Polyprotein P1234;210
8.6;VI. nsP1: A Unique RNA-Capping Enzyme and Membrane Anchor;211
8.7;VII. nsP2: A Multifunctional Enzyme and Regulatory Protein;217
8.8;VIII. nsP3: An Ancient Conserved Protein and Phosphoprotein;221
8.9;IX. nsP4: A Catalytic RNA Polymerase Subunit;223
8.10;X. The Replication Complex;224
8.11;References;227
9;Chapter 6. The Unique Biochemistry of Methanogenesis;236
9.1;I. Introduction;237
9.2;II. Methanogens: A Unique Group of Microorganisms;238
9.3;III. Biochemistry of Methanogenesis;241
9.4;IV. Mechanism of ATP Synthesis in Methanogenic Archaea;253
9.5;V. Energy-Conserving Systems in Methanosarcina Strains;255
9.6;VI. Energy Conservation in Obligate Hydrogenotrophic Methanogens;283
9.7;References;287
10;Chapter 7. A History of Poly A Sequences: From Formation to Factors to Function;298
10.1;I. Introduction;300
10.2;II. From Polymerases to Poly A(+) mRNA;303
10.3;III. Sequences Required for Polyadenylation;304
10.4;IV. The Biochemistry of Polyadenylation;309
10.5;V. Cleavage/Polyadenylation Proteins;319
10.6;VI. The Core Components of Cleavage/Polyadenylation;326
10.7;VII. Cloning, Sequencing, and Expressing the Core Proteins;333
10.8;VIII. Regulation of Polyadenylation;348
10.9;IX. Polyadenylation in Yeast;364
10.10;X. Polyadenylation in E. coli;377
10.11;XI. Polyadenylation in Vaccinia Virus;388
10.12;References;394
11;Chapter 8. A Growing Family of Guanine Nucleotide Exchange Factors Is Responsible for Activation of Ras-Family GTPases;404
11.1;I. Introduction;405
11.2;II. Regulation of in Vivo Ras-GTP Levels by Inhibition of GTPase-Activating Proteins ;407
11.3;III. Early Identification of Ras-Family GEFs;408
11.4;IV. GEF Structure and the Nucleotide Exchange Reaction;411
11.5;V. Dominant Inhibitory Ras Proteins Target GEFs;417
11.6;VI. Biological Assays for GEF Activity;419
11.7;VII. Ras-Family GEFs;420
11.8;VIII. GEFs and Disease;440
11.9;IX. Are There More GEFs in Our Future?;441
11.10;References;441
12;Chapter 9. Practical Approaches to Long Oligonucleotide-Based DNA Microarray: Lessons from Herpesviruses ;458
12.1;I. A Rationale for Developing DNA Microarrays for Herpesviruses;459
12.2;II. Herpes Simplex and Cytomegaloviruses„Two Herpesviruses That Share Features of Productive Infection but Differ Markedly in Patterns of Latency and Reactivation;460
12.3;III. Design Criteria for Herpesvirus DNA Microarrays;464
12.4;IV. The Construction and Validation of an Oligonucleotide-Based Hsv-1 DNA Microarray on Glass Slides ;468
12.5;V. Exemplary Applications;485
12.6;VI. Conclusions;499
12.7;References;500
13;Chapter 10. Sphingosine Kinases: A Novel Family of Lipid Kinases;506
13.1;I. Pleiotropic Functions of Sphingosine-1-Phosphate;507
13.2;II. Sphingosine Kinase and Sphingosine-1-Phosphate in Yeast and Plants;508
13.3;III. Cellular Functions of Sphingosine Kinase in Mammalian Cells;510
13.4;IV. How Is Sphingosine Kinase Activated?;511
13.5;V. Cloning of Mammalian Sphingosine Kinases;513
13.6;VI. Sphingosine Kinase Family;517
13.7;VII. Five Conserved Domains of the SPHK Superfamily;518
13.8;VIII. Phylogenetic Analysis of Sphingosine Kinases;521
13.9;IX. Concluding Remarks;521
13.10;References;522
14;Chapter 11. Mechanisms of EF-Tu, a Pioneer GTPase;526
14.1;I. Introduction;527
14.2;II. Structure–Function Relationships;537
14.3;III. EF-Ts as a Steric Chaperone for EF-Tu Folding;542
14.4;IV. EF-Tu as Target of Antibiotics;544
14.5;V. Specific Aspects of EF-Tu GTPase Activity;551
14.6;VI. Conclusions and Perspectives;555
14.7;References;556
15;Index;566