A ribozyme for the aldol reaction

Chemistry and Biology

Volumn 12, Issue 8, 2005, Pages 941-950

  Fusz, Stefan ^a   Eisenführ, Alexander ^a   Srivatsan, Seergazhi G ^a   Heckel, Alexander ^a   Famulok, Michael ^a  

^a UNIVERSITY OF BONN   (Germany)

Author keywords

[No Author keywords available]

Indexed keywords

3-HYDROXYBUTANAL; ALDEHYDE; ALDOL; BENZALDEHYDE DERIVATIVE; OLIGORIBONUCLEOTIDE; RIBOZYME; ZINC;

ARTICLE; CATALYSIS; CHEMISTRY; CONFORMATION; DIRECTED MOLECULAR EVOLUTION; ISOLATION AND PURIFICATION;

ALDEHYDES; BENZALDEHYDES; CATALYSIS; DIRECTED MOLECULAR EVOLUTION; NUCLEIC ACID CONFORMATION; OLIGORIBONUCLEOTIDES; RNA, CATALYTIC; ZINC;

EID: 23944508560     PISSN: 10745521     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.chembiol.2005.06.008     Document Type: Article

References (39)

1. G.F. Joyce The antiquity of RNA-based evolution Nature 418 2002 214 221
2. J.A. Doudna, and T.R. Cech The chemical repertoire of natural ribozymes Nature 418 2002 222 228
3. N. Ban, P. Nissen, J. Hansen, P.B. Moore, and T.A. Steitz The complete atomic structure of the large ribosomal subunit at 2.4 Å resolution Science 289 2000 905 920
4. S. Valadkhan, and J.L. Manley Splicing-related catalysis by protein-free snRNAs Nature 413 2001 701 707
5. W.C. Winkler, A. Nahvi, A. Roth, J.A. Collins, and R.R. Breaker Control of gene expression by a natural metabolite-responsive ribozyme Nature 428 2004 281 286
6. W.C. Winkler, and R.R. Breaker Genetic control by metabolite-binding riboswitches Chembiochem 4 2003 1024 1032
7. P.J. Unrau, and D.P. Bartel RNA-catalysed nucleotide synthesis Nature 395 1998 260 263
8. S. Tsukiji, S.B. Pattnaik, and H. Suga An alcohol dehydrogenase ribozyme Nat. Struct. Biol. 10 2003 713 717
9. 2+-dependent redox active ribozyme J. Am. Chem. Soc. 126 2004 5044 5045
10. B. Zhang, and T.R. Cech Peptide bond formation by in vitro selected ribozymes Nature 390 1997 96 100
11. T.W. Wiegand, R.C. Janssen, and B.E. Eaton Selection of RNA amide synthases Chem. Biol. 4 1997 675 683
12. X. Dai, A. De Mesmaeker, and G.F. Joyce Cleavage of an amide bond by a ribozyme Science 267 1995 237 240
13. P.A. Lohse, and J.W. Szostak Ribozyme-catalysed amino-acid transfer reactions Nature 381 1996 442 444
14. A. Jenne, and M. Famulok A novel ribozyme with ester transferase activity Chem. Biol. 5 1998 23 34
15. M. Illangasekare, G. Sanchez, T. Nickles, and M. Yarus Aminoacyl-RNA synthesis catalyzed by an RNA Science 267 1995 643 647
16. N. Lee, Y. Bessho, K. Wei, J.W. Szostak, and H. Suga Ribozyme-catalyzed tRNA aminoacylation Nat. Struct. Biol. 7 2000 28 33
17. N. Li, and F. Huang Ribozyme-catalyzed aminoacylation from CoA thioesters Biochemistry 44 2005 4582 4590
18. G. Sengle, A. Eisenführ, P.S. Arora, J.S. Nowick, and M. Famulok Novel RNA catalysts for the Michael reaction Chem. Biol. 8 2001 459 473
19. M.M. Conn, J.R. Prudent, and P.G. Schultz Porphyrin metalation catalyzed by a small RNA molecule J. Am. Chem. Soc. 118 1996 7012 7013
20. Y. Li, and D. Sen A catalytic DNA for porphyrin metallation Nat. Struct. Biol. 3 1996 743 747
21. C. Wilson, and J.W. Szostak In vitro evolution of a self-alkylating ribozyme Nature 374 1995 777 782
22. M. Wecker, D. Smith, and L. Gold In vitro selection of a novel catalytic RNA: characterization of a sulfur alkylation reaction and interaction with a small peptide RNA 2 1996 982 994
23. W.K. Johnston, P.J. Unrau, M.S. Lawrence, M.E. Glasner, and D.P. Bartel RNA-catalyzed RNA polymerization: accurate and general RNA-templated primer extension Science 292 2001 1319 1325
24. T.M. Tarasow, S.L. Tarasow, and B.E. Eaton RNA-catalysed carbon-carbon bond formation Nature 389 1997 54 57
25. B. Seelig, and A. Jäschke A small catalytic RNA motif with Diels-Alderase activity Chem. Biol. 6 1999 167 176
26. C. Tuerk, and L. Gold Systematic evolution of ligands by exponential enrichment: RNA ligands to bacteriophage T4 DNA polymerase Science 249 1990 505 510
27. A.D. Ellington, and J.W. Szostak In vitro selection of RNA molecules that bind specific ligands Nature 346 1990 818 822
28. D.L. Robertson, and G.F. Joyce Selection in vitro of an RNA enzyme that specifically cleaves single-stranded DNA Nature 344 1990 467 468
29. J.J. Marsh, and H.G. Lebherz Fructose-bisphosphate aldolases: an evolutionary history Trends Biochem. Sci. 17 1992 110 113
30. W.-D. Fessner, A. Schneider, H. Held, G. Sinerius, C. Walter, M. Hixon, and J.V. Schloss The mechanism of class II, metal-dependant aldolases Angew. Chem. Int. Ed. Engl. 35 1996 2219 2221
31. M. Hixon, G. Sinerius, A. Schneider, C. Walter, W.D. Fessner, and J.V. Schloss Quo vadis photorespiration: a tale of two aldolases FEBS Lett. 392 1996 281 284
32. D.E. Morse, and B.L. Horecker The mechanism of action of aldolases Adv. Enzymol. Relat. Areas Mol. Biol. 31 1968 125 181
33. J. Wagner, R.A. Lerner, and C.F. Barbas 3rd. Efficient aldolase catalytic antibodies that use the enamine mechanism of natural enzymes Science 270 1995 1797 1800
34. T. Hoffmann, G.F. Zhong, B. List, D. Shabat, J. Anderson, S. Gramatikova, R.A. Lerner, and C.F. Barbas 3rd. Aldolase antibodies of remarkable scope J. Am. Chem. Soc. 120 1998 2768 2779
35. A. Jaschke RNA-catalyzed carbon-carbon bond formation Biol. Chem. 382 2001 1321 1325
36. M. Mandal, M. Lee, J.E. Barrick, Z. Weinberg, G.M. Emilsson, W.L. Ruzzo, and R.R. Breaker A glycine-dependent riboswitch that uses cooperative binding to control gene expression Science 306 2004 275 279
37. B. List, R.A. Lerner, and C.F. Barbas 3rd. Proline-catalyzed direct asymmetric aldol reactions J. Am. Chem. Soc. 122 2000 2395 2396
38. B. List, L. Hoang, and H.J. Martin New mechanistic studies on the proline-catalyzed aldol reaction Proc. Natl. Acad. Sci. USA 101 2004 5839 5842
39. D.H. Mathews, J. Sabina, M. Zuker, and D.H. Turner Expanded sequence dependence of thermodynamic parameters improves prediction of RNA secondary structure J. Mol. Biol. 288 1999 911 940