RNA Biochemistry and Biotechnology

1. Front Matter

   Pages i-xv

   PDF

2. Why RNA?

   • J. Barciszewski, B. F. C. Clark

   Pages 1-9

3. Algorithms and Thermodynamics for RNA Secondary Structure Prediction: A Practical Guide

   • M. Zuker, D. H. Mathews, D. H. Turner

   Pages 11-43

4. Recurrent RNA Motifs

   • N. B. Leontis, E. Westhof

   Pages 45-61

5. Towards the 3D Structure of 5s rRNA

   • M. Perbandt, S. Lorenz, M. Vallazza, V. A. Erdmann, C. Betzel

   Pages 63-71

6. Structure and Dynamics of Adenosine Loops in RNA Bulge Duplexes. RNA Hydration at the Bulge Site

   • Łukasz Bielecki, Tadeusz Kuliński, Ryszard W. Adamiak

   Pages 73-87

7. The Structure and Function of the Ribozyme Rnase P RNA is Dictated by Magnesium(II) Ions

   • Leif A. Kirsebom

   Pages 89-109

8. Metal Ion - Induced Cleavages in Probing of RNA Structure

   • Jerzy Ciesiołka

   Pages 111-121

9. Protein-DNA Recognition

   • Daniela Rhodes

   Pages 123-126

10. Specific Interaction Between Damaged Bases in DNA and Repair Enzymes

    • Kosuke Morikawa

    Pages 127-138

11. Telomeric DNA Recognition

    • Daniela Rhodes

    Pages 139-142

12. Recognition of One tRNA by Two Classes of Aminoacyl-tRNA Synthetase

    • M. Ibba, S. Bunjun, H. Losey, B. Min, D. Söll

    Pages 143-148

13. Functional Structures of Class-I Aminoacyl-tRNA Synthetases

    • Osamu Nureki, Shun-ichi Sekine, Atsushi Shimada, Takashi Nakama, Shuya Fukai, Dmitry G. Vassylyev et al.

    Pages 149-158

14. Aminoacylation of tRNA Induces a Conformational Switch on the 3’-Terminal Ribose

    • Andreas Schlosser, Bernd Blechschmidt, Barbara Nawrot, Mathias Sprinzl

    Pages 159-168

15. Point Mutants of Elongation Factor Tu from E. Coli Impaired in Binding Aminoacyl-tRNA

    • C. R. Knudsen, F. Mansilla, G. N. Pedersen, B. F. C. Clark

    Pages 169-193

16. RNA Structure and RNA-Protein Recognition During Regulation of Eukaryotic Gene Expression

    • Gabriele Varani, Peter Bayer, Paul Cole, Andres Ramos, Luca Varani

    Pages 195-216

17. RNA-Aptamers for Studying RNA Protein Interactions

    • M. Sprinzl, H.-P. Hoffmann, S. Brock, M. Nanninga, V. Hornung

    Pages 217-228

18. Probing of Ribonucleoprotein Complexes with Site-Specifically Derivatized RNAs

    • Maria M. Konarska, Pavol Kois, Ma Sha, Naïma Ismaïli, E. Hilary Gustafson, Jeffrey McCloskey

    Pages 229-240

19. The IRE Model for Families of RNA Structures

    • E. C. Theil, Y. Ke, Z. Gdaniec, H. Sierzputowska-Gracz

    Pages 241-247

20. Functional Analysis of RNA Signals in the HIV-1 Genome by Forced Evolution

    • Ben Berkhout, Atze T. Das

    Pages 249-275

RNA Biochemistry and Biotechnology describes various aspects of nucleic acid and protein structure, mainly RNA structure and proteins, interacting with specific RNA species. Papers deal with DNA protein interactions, telomerase, aminoacyl-tRNA synthetases, elongation factor Tu, DNA repair, RNA structure, NMR technology, RNA aptamer interaction of biological macromolecules with metal ions. Two papers deal with theoretical aspects of RNA structure production and computer modelling. Many papers describe the possibility of commercial application of RNA biotechnology. One article discusses the impact of direct democracy on basic science supporting biotechnology.
Readership: Advanced graduate students, Ph.D. students and young scientists as well as specialists in the field.

• DNA
• Elongation
• Nucleotide
• RNA
• biochemistry
• evolution
• gene expression
• mutant
• proteins
• tRNA
• thoracic surgery

• Institute of Bioorganic Chemistry of the Polish Academy of Sciences, Poznan, Poland

  Jan Barciszewski

• Institute of Molecular and Structural Biology, University of Aarhus, Denmark

  Brian F. C. Clark

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