Progress in Nucleic Acid Research and Molecular Biology
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Table of contents
- Cover
- Contentsv
- Some Articles Planned For Future Volumeix
- Chapter 1. Viral Strategies of Translation Initiation: Ribosomal Shunt and Reinitiation1
- I. Introduction2
- II. Main Initiation Strategies in Eukaryotes4
- III. Translation and Translation-Dependent Strategies of Pararetroviruses and Retroviruses7
- IV. Shunting Mechanisms12
- V. Polycistronic Translation Strategies21
- VI. Outlook28
- References29
- Chapter 2. Initiation of Eukaryotic DNA Replication: Regulation and Mechanisms41
- I. The Eukaryotic Cell Cycle42
- II. Factors Required for the Initiation of DNA Replication53
- III. The Organization of Replication-Initiation Factors on Chromatin69
- IV. Cell Cycle Control by Checkpoints73
- V. Outlook80
- References81
- Chapter 3. Deoxyribonucleotide Synthesis in Anaerobic Microorganisms: The Class III Ribonucleotide R95
- I. Introduction96
- II. The Anaerobic Ribonucleotide Reductase: A Multicomponent System99
- III. The nrdD Protein: The Reductase Component99
- IV. The nrdG Protein: The Activase114
- V. Gene Organization and Regulation120
- VI. The Anaerobic RNR: The Link between the RNA World and the DNA World120
- References125
- Chapter 4. Regulation of Pathways of mRNA Destabilization and Stabilization129
- I. Life and Half-Life of mRNA130
- II. Degradation of mRNA through the General Pathway; Deadenylation-Dependent mRNA Decay131
- III. Special Pathways for Regulating the Stability of mRNAs133
- IV. Regulation of Vitellogenin and Albumin mRNA Stability142
- References159
- Chapter 5. Jasmonates and Octadecanoids: Signals in Plant Stress Responses and Development165
- I. Introduction166
- II. Occurrence of Jasmonates and Octadecanoids168
- III. Biosynthesis of Jasmonates and Octadecanoids171
- IV. Jasmonate-Induced Gene Expression180
- V. Jasmonates in Stress Response and Signal Transduction Pathways185
- VI. Jasmonates and Octadecanoids in Plant Development196
- VII. Concluding Remarks205
- References206
- Chapter 6. The Ubiquitous Nature of RNA Chaperone Proteins223
- I. Introduction224
- II. RNA Structure and the Folding Problem226
- III. RNA-Binding Proteins229
- IV. Investigating the Biochemical Properties of Nucleic Acid Chaperone Proteins234
- V. How Do RNA Chaperone Proteins Work?246
- VI. Conclusions and Future Prospects258
- References263
- Chapter 7. Mechanisms of Basal and Kinase-Inducible Transcription Activation by CREB269
- I. Introduction270
- II. Distinct CREB Activation Domains Mediate Constitutive and Kinase-Inducible Transcription272
- III. A Concerted Mechanism of Transcription Activation Involving Stimulation of Sequential Steps in284
- IV. Perspectives298
- References299
- Chapter 8. eIF4A: The Godfather of the DEAD Box Helicases307
- I. eIF4A: The Protein308
- II. The Biology of eIF4A312
- III. eIF4A: Biochemical Properties313
- IV. Influence of Other Proteins on eIF4A Function319
- V. Does Any of This Biochemistry Make Sense or Is There a Contradiction Somewhere?321
- VI. The Role of the DEAD Box Sequences323
- VII. The Function of the Helicase Activity of eIF4A324
- VIII. eIF4A and the 80S Initiation Pathway326
- IX. Lessons Learned from eIF4A328
- References329
- Chapter 9. CTD Phosphatase: Role in RNA Polymerase II Cycling and the Regulation of Transcript Elong333
- I. Historical Overview334
- II. General Properties of CTD Phosphatase337
- III. RNAP II Recycling Mediated by CTD Phosphatase346
- IV. Involvement of CTD Phosphatase in the Regulation of Transcript Elongation349
- V. Perspectives and Future Directions357
- References359
- Chapter 10. Translational Control of Gene Expression: Role of IRESs and Consequences for Cell Transf367
- I. Introduction369
- II. Background: Translation Initiation in Eukaryotes371
- III. The Murine Leukemia Virus: The Retroviral Genomic mRNA Codes for Two Gag–Pol Polyproteins fro378
- IV. The FGF-2 mRNA: How Cap-Dependent and IRES-Dependent Translation of a Single mRNA Leads to Expre383
- V. VEGF mRNA: Two Distinct IRESs Control Alternative Initiation of the Translation of Two Isoforms393
- VI. C-myc mRNA: A Natural Multicistronic Messenger396
- VII. IRES-Dependent Translational Control: IRES Activity Enhancement in Transformed Cells398
- VIII. IRES Tissue Specificity in Vivo399
- IX. FGF-2 Translational Silencing by Tumor Suppressor p53400
- X. Concluding Remarks403
- References405
- Chapter 11. Structure and Function of φ29 Hexameric RNA That Drives415
- I. Introduction416
- II. Approaches and Strategies for the Study of pRNA419
- III. Studies of pRNA Structure430
- IV. pRNA–Protein Interactions445
- V. Effect of Mono- and Divalent Cations on pRNA Dimer Formation, Procapsid Binding, and Viral Assemb448
- VI. Functions of pRNA449
- VII. Significance and Application of the Study of pRNA457
- VIII. Concluding Remarks461
- References462
- Index473
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.
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.
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.