Phosphorylation at 5′ end of guanosine stretches inhibits dimerization of G-quadruplexes and formation of a G-quadruplex interferes with the enzymatic activities of DNA enzymes

Nucleic Acids Research

Volumn 32, Issue 15, 2004, Pages 4618-4629

  Uddin, M Khabir ^a   Kato, Yoshio ^a   Takagi, Yasuomi ^a   Mikuma, Toshiyasu ^a,c   Taira, Kazunari ^a,b  

^a NATIONAL INSTITUTE OF ADVANCED INDUSTRIAL SCIENCE AND TECHNOLOGY AIST   (Japan)

^b UNIVERSITY OF TOKYO   (Japan)

^c UNIVERSITY OF TSUKUBA   (Japan)

Author keywords

[No Author keywords available]

Indexed keywords

ADENINE; CYTOSINE; DEZAGUANINE; DIMER; DNA ENZYME; ENZYME; GUANOSINE; OLIGOMER; PHOSPHATE; THYMINE; UNCLASSIFIED DRUG; DEOXYRIBOZYME; DNA; QUADRUPLEX DNA;

5' UNTRANSLATED REGION; ARTICLE; CATALYSIS; CIRCULAR DICHROISM; COMPLEX FORMATION; CONTROLLED STUDY; DIMERIZATION; ENZYME ACTIVE SITE; ENZYME ACTIVITY; ENZYME ANALYSIS; ENZYME CONFORMATION; ENZYME DEGRADATION; ENZYME KINETICS; ENZYME MECHANISM; ENZYME STRUCTURE; GEL ELECTROPHORESIS; PRIORITY JOURNAL; PROTEIN PHOSPHORYLATION; CHEMISTRY; CONFORMATION; METABOLISM; PHOSPHORYLATION; POLYACRYLAMIDE GEL ELECTROPHORESIS;

CIRCULAR DICHROISM; DIMERIZATION; DNA; DNA, CATALYTIC; ELECTROPHORESIS, POLYACRYLAMIDE GEL; GUANOSINE; NUCLEIC ACID CONFORMATION; PHOSPHATES; PHOSPHORYLATION;

EID: 4344603154     PISSN: 03051048     EISSN: None     Source Type: Journal    
DOI: 10.1093/nar/gkh766     Document Type: Article

References (35)

1. Bock,L.C., Griffin,L.C., Latham,J.A., Vermaas,E.H. and Toole,J.J. (1992) Selection of single-stranded DNA molecules that bind and inhibit human thrombin. Nature, 355, 564-566.
2. Ellington,A.D. and Szostak,J.W. (1992) Selection in vitro of single-stranded DNA molecules that fold into specific ligand-binding structures. Nature, 355, 850-852.
3. He,Q.-C., Zhou,J.-M., Zhou,D.-M., Nakamatsu,Y., Baba,T. and Taira,K. (2002) Comparison of metal-ion-dependent cleavages of RNA by a DNA enzyme and a hammerhead ribozyme. Biomacromolecules, 3, 69-83.
4. Cuenoud,B. and Szostak,J.W. (1995) A DNA metalloenzyme with DNA ligase activity. Nature, 375, 611-614.
5. Carmi,N., Shultz,L.A. and Breaker,R.R. (1996) In vitro selection of self-cleaving DNAs. Chem. Biol., 3, 1039-1046.
6. Li,Y. and Sen,D. (1997) Toward an efficient DNA enzyme. Biochemistry, 36, 5589-5599.
7. Li,Y. and Breaker,R.R. (1999) Deoxyribozymes: new players in the ancient game of biocatalysis. Curr. Opin. Struct. Biol., 9, 315-323.
8. Li,Y., Liu,Y. and Breaker,R.R. (2000) Capping DNA with DNA. Biochemistry, 39, 3106-3114.
9. Feldman,A.R. and Sen,D. (2001) A new and efficient DNA enzyme for the sequence-specific cleavage of RNA. J. Mol. Biol., 313, 283-294.
10. Wang,D.Y., Lai,B.H.Y., Feldman,A.R. and Sen,D. (2002) A general approach for the use of oligonucleotide effectors to regulate the catalysis of RNA-cleaving ribozymes and DNA enzymes. Nucleic Acids Res., 30, 1735-1742.
11. Breaker,R.R. and Joyce,G.F. (1994) A DNA enzyme that cleaves RNA. Chem. Biol., 1, 223-229.
12. Santoro,S.W. and Joyce,G.F. (1997) A general purpose RNA-cleaving DNA enzyme. Proc. Natl Acad. Sci. USA, 94, 4262-4266.
13. Cox,J.C., Cohen,D.S. and Ellington,A.D. (1999) The complexities of DNA computation. Trends Biotechnol., 17, 151-154.
14. Kuwabara,T., Warashina,M., Tanabe,T., Tani,K., Asano,S. and Taira,K. (1997) Comparison of the specificities and catalytic activities of hammerhead ribozymes and DNA enzymes with respect to the cleavage of BCR-ABL chimeric L6 (b2a2) mRNA. Nucleic Acids Res., 25, 3074-3081.
15. Warashina,M., Kuwabara,T., Nakamatsu,Y. and Taira,K. (1999) Extremely high and specific activity of DNA enzymes in cells with Philadelphia chromosome. Chem. Biol., 6, 237-250.
16. Santoro,S.W. and Joyce,G.F. (1998) Mechanism and utility of an RNA-cleaving DNA enzyme. Biochemistry, 37, 13330-13342.
17. Nowell,P.C. and Hungerford,D.A. (1960) A minute chromosome in human chronic granulocytic leukemia. Science, 132, 1497-1499.
18. Blackburn,E.H. (1994) Telomeres: no end in sight. Cell, 77, 621-623.
19. Sen,D. and Gilbert,W. (1988) Formation of parallel four-stranded complexes by guanine-rich motifs in DNA and its implications for meiosis. Nature, 334, 364-366.
20. Evans,T., Schon,E., Gora-Maslak,G., Patterson,J. and Efstratiadis,A. (1984) S1-hypersensitive sites in eukaryotic promoter regions. Nucleic Acids Res., 12, 8043-8058.
21. Kilpatrick,M.W., Torri,A., Kang,D.S., Engler,J.A. and Wells,R.D. (1986) Unusual DNA structures in the adenovirus genome. J. Biol. Chem., 261, 11350-11354.
22. n nucleotide repeats form a stable tetrahelical structure. Proc. Natl Acad. Sci. USA, 91, 4950-4954.
23. Williamson,J.R. (1993) Guanine quartets. Curr. Opin. Struct. Biol., 3, 357-362.
24. Williamson,J.R. (1994) G-quartet structures in telomeric DNA. Annu. Rev. Biophys. Biomol. Struct., 23, 703-730.
25. Keniry,M.A. (2001) Quadruplex structures in nucleic acids. Biopolymers, 56, 123-146.
26. Henderson,E., Hardin,C.C., Walk,S.K., Tinoco,J.I. and Blackburn,E.H. (1987) Telomeric DNA oligonucleotides form novel intramolecular structures containing guanine-guanine base pairs. Cell, 51, 899-908.
27. Gueschlbauer,W., Chantot,J.-F. and Thiele,D. (1990) Four-stranded nucleic acid structures 25 years later: from guanosine gels to telomer DNA. J. Biomol. Struct. Dyn., 8, 491-511.
28. Balagurumoorthy,P. and Brahmachari,S.K. (1994) Structure and stability of human telomeric sequence. J. Biol. Chem., 269, 21858-21869.
29. Penazova,H. and Vorlickova,M. (1997) Guanine tetraplex formation by short DNA fragments containing runs of guanine and cytosine. Biophys. J., 73, 2054-2063.
30. Protozanova,E. and Macgregor,R.,Jr (1996) Frayed wires: a thermally stable form of DNA with two distinct structural domains. Biochemistry, 35, 16638-16645.
31. Sen,D. and Gilbert,W. (1992) Novel DNA superstructures formed by telomere-like oligomers. Biochemistry, 31, 65-70.
32. 4) form parallel-stranded potassium cation stabilized G-quadruplexes with anti glycosidic torsion angles in solution. Biochemistry, 31, 8112-8119.
33. Li,W., Miyoshi,D., Nakano,S. and Sugimoto,N. (2003) Structural competition involving G-quadruplex DNA and its complement. Biochemistry, 42, 11736-11744.
34. Takagi,Y., Warashina,M., Stec,W.J., Yoshinari,K. and Taira,K. (2001) Recent advances in the elucidation of the mechanisms of action of ribozymes. Nucleic Acids Res., 29, 1815-1834.
35. Cairns,M.J., King,A. and Sun,L.-Q. (2003) Optimization of the 10-23 DNAzyme-substrate pairing interactions enhanced RNA cleavage activity at purine-cytosine target sites. Nucleic Acids Res., 31, 2883-2889.