Riboswitches: Natural SELEXion

Cellular and Molecular Life Sciences

Volumn 62, Issue 21, 2005, Pages 2401-2404

  Gilbert, S D ^a   Batey, R T ^a  

^a UNIVERSITY OF COLORADO   (United States)

Author keywords

Aptamer; Riboswitch; RNA; Structure; X ray crystallography

Indexed keywords

ADENOSINE TRIPHOSPHATE; APTAMER; CYANOCOBALAMIN; ENZYME; GUANINE; MESSENGER RNA; RIBOZYME; RNA; S ADENOSYLMETHIONINE; THEOPHYLLINE;

ARTICLE; ARTIFICIAL SELECTION; GENE EXPRESSION REGULATION; GENETIC REGULATION; MESSENGER RNA SYNTHESIS; MOLECULAR RECOGNITION; NATURAL SELECTION; REGULATORY RNA SEQUENCE; RIBOSWITCH; RNA STRUCTURE; X RAY CRYSTALLOGRAPHY;

APTAMERS, NUCLEOTIDE; NUCLEIC ACID CONFORMATION; RNA; SELEX APTAMER TECHNIQUE;

EID: 29144494152     PISSN: 1420682X     EISSN: 15691632     Source Type: Journal    
DOI: 10.1007/s00018-005-5345-3     Document Type: Article

References (23)

1. Joyce G. F. (2004) Directed evolution of nucleic acid enzymes. Annu. Rev. Biochem. 73: 791-836
2. Wilson D. S. and Szostak J. W. (1999) In vitro selection of functional nucleic acids. Annu. Rev. Biochem. 68: 611-647
3. Silverman S. K. (2003) Rube Goldberg goes (ribo)nuclear? Molecular switches and sensors made from RNA. RNA 9: 377-383
4. Nudler, E. and Mironov A. S. (2004) The riboswitch control of bacterial metabolism. Trends Biochem. Sci. 29: 11-17
5. Tucker B. J. and Breaker R. R. (2005) Riboswitches as versatile gene control elements. Curr. Opin. Struct. Biol. 15: 342-348
6. Mandal M., Boese B., Barrick J. E., Winkler W. C. and Breaker R. R. (2003) Riboswitches control fundamental biochemical pathways in Bacillus subtilis and other bacteria. Cell 113: 577-586
7. Batey R. T., Gilbert S. D. and Montange R. K. (2004) Structure of a natural guanine-responsive riboswitch complexed with the metabolite hypoxanthine. Nature 432: 411-415
8. Serganov A., Yuan Y. R., Pikovskaya O., Polonskaia A., Malinina L., Phan A. T. et al. (2004) Structural basis for discriminative regulation of gene expression by adenine- and guanine-sensing mRNAs. Chem. Biol. 11: 1729-1741
9. Sussman D., Nix J. C. and Wilson C. (2000) The structural basis for molecular recognition by the vitamin B 12 RNA aptamer. Nat. Struct. Biol. 7: 53-57
10. Nahvi A., Barrick J. E. and Breaker R. R. (2004) Coenzyme B12 riboswitches are widespread genetic control elements in prokaryotes. Nucleic Acids Res. 32: 143-150
11. Rodionov D. A., Vitreschak A. G., Mironov A. A. and Gelfand M. S. (2003). Comparative genomics of the vitamin B12 metabolism and regulation in prokaryotes. J. Biol. Chem. 278: 41148-41159
12. Vitreschak A. G., Rodionov D. A., Mironov A. A. and Gelfand M. S. (2003) Regulation of the vitamin B12 metabolism and transport in bacteria by a conserved RNA structural element. RNA 9: 1084-1097
13. Winkler W. C., Nahvi A., Sudarsan N., Barrick J. E. and Breaker R. R. (2003) An mRNA structure that controls gene expression by binding S-adenosylmethionine. Nat. Struct. Biol. 10: 701-707
14. Klein D. J., Schmeing T. M., Moore P. B. and Steitz T. A. (2001) The kink-turn: a new RNA secondary structure motif. EMBO J. 20: 4214-4221
15. Mandal M. and Breaker R. R. (2004) Adenine riboswitches and gene activation by disruption of a transcription terminator. Nat. Struct. Mol. Biol. 11: 29-35
16. Jenison R. D., Gill S. C., Pardi A. and Polisky B. (1994) High-resolution molecular discrimination by RNA. Science 263: 1425-1429
17. Nahvi A., Sudarsan N., Ebert M. S., Zou X., Brown K. L. and Breaker R. R. (2002) Genetic control by a metabolite binding mRNA. Chem. Biol. 9: 1043
18. Leulliot N. and Varani G. (2001) Current topics in RNA-protein recognition: control of specificity and biological function through induced fit and conformational capture. Biochemistry. 40: 7947-7956
19. Williamson J. R. (2000) Induced fit in RNA-protein recognition. Nat. Struct. Biol. 7: 834-837
20. Wickiser J. K., Winkler W. C., Breaker R. R. and Crothers D. M. (2005) The speed of RNA transcription and metabolite binding kinetics operate an FMN riboswitch. Mol. Cell 18: 49-60
21. Jucker F. M., Phillips R. M., McCallum S. A. and Pardi A. (2003) Role of a heterogeneous free state in the formation of a specific RNA-theophylline complex. Biochemistry 42: 2560-2567
22. Koizumi M., Soukup G. A., Kerr J. N. and Breaker R. R. (1999) Allosteric selection of ribozymes that respond to the second messengers cGMP and cAMP. Nat. Struct. Biol. 6: 1062-1071
23. Huang Z. and Szostak J. W. (2003) Evolution of aptamers with a new specificity and new secondary structures from an ATP aptamer. RNA 9: 1456-1463