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Literature DB >> 9482868

Cleaving DNA with DNA.

Abstract

A DNA structure is described that can cleave single-stranded DNA oligonucleotides in the presence of ionic copper. This "deoxyribozyme" can self-cleave or can operate as a bimolecular complex that simultaneously makes use of duplex and triplex interactions to bind and cleave separate DNA substrates. Bimolecular deoxyribozyme-mediated strand scission proceeds with a kobs of 0.2 min-1, whereas the corresponding uncatalyzed reaction could not be detected. The duplex and triplex recognition domains can be altered, making possible the targeted cleavage of single-stranded DNAs with different nucleotide sequences. Several small synthetic DNAs were made to function as simple "restriction enzymes" for the site-specific cleavage of single-stranded DNA.

Entities: Chemical Species

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Year: 1998 PMID： 9482868 PMCID： PMC19303 DOI： 10.1073/pnas.95.5.2233

Source DB: PubMed Journal: Proc Natl Acad Sci U S A ISSN： 0027-8424 Impact factor: 11.205

24 in total

1. Nucleic Acid Selection and the Challenge of Combinatorial Chemistry.

Authors: Scott E. Osborne; Andrew D. Ellington
Journal: Chem Rev Date: 1997-04-01 Impact factor: 60.622

2. Triple helix-mediated single-site enzymatic cleavage of megabase genomic DNA.

Authors: S A Strobel; P B Dervan
Journal: Methods Enzymol Date: 1992 Impact factor: 1.600

3. A catalytic DNA for porphyrin metallation.

Authors: Y Li; D Sen
Journal: Nat Struct Biol Date: 1996-09

4. Evidence for the metal-cofactor independence of an RNA phosphodiester-cleaving DNA enzyme.

Authors: C R Geyer; D Sen
Journal: Chem Biol Date: 1997-08

5. Site-specific cleavage of a yeast chromosome by oligonucleotide-directed triple-helix formation.

Authors: S A Strobel; P B Dervan
Journal: Science Date: 1990-07-06 Impact factor: 47.728

Review 6. Diversity of oligonucleotide functions.

Authors: L Gold; B Polisky; O Uhlenbeck; M Yarus
Journal: Annu Rev Biochem Date: 1995 Impact factor: 23.643

7. A DNA enzyme that cleaves RNA.

Authors: R R Breaker; G F Joyce
Journal: Chem Biol Date: 1994-12

8. A DNA enzyme with Mg(2+)-dependent RNA phosphoesterase activity.

Authors: R R Breaker; G F Joyce
Journal: Chem Biol Date: 1995-10

9. DNA cleavage by Cu(II)-desferal: identification of C1'-hydroxylation as the initial event for DNA damage.

Authors: R R Joshi; S M Likhite; R K Kumar; K N Ganesh
Journal: Biochim Biophys Acta Date: 1994-04-21

10. A DNA metalloenzyme with DNA ligase activity.

Authors: B Cuenoud; J W Szostak
Journal: Nature Date: 1995-06-15 Impact factor: 49.962

53 in total

1. The fidelity of template-directed oligonucleotide ligation and the inevitability of polymerase function.

Authors: K D James; A D Ellington
Journal: Orig Life Evol Biosph Date: 1999-08 Impact factor: 1.950

2. A DNA enzyme with N-glycosylase activity.

Authors: T L Sheppard; P Ordoukhanian; G F Joyce
Journal: Proc Natl Acad Sci U S A Date: 2000-07-05 Impact factor: 11.205

3. A general approach for the use of oligonucleotide effectors to regulate the catalysis of RNA-cleaving ribozymes and DNAzymes.

Authors: Dennis Y Wang; Beatrice H Y Lai; Anat R Feldman; Dipankar Sen
Journal: Nucleic Acids Res Date: 2002-04-15 Impact factor: 16.971

Cleaving DNA with DNA.

1. Nucleic Acid Selection and the Challenge of Combinatorial Chemistry.

2. Triple helix-mediated single-site enzymatic cleavage of megabase genomic DNA.

3. A catalytic DNA for porphyrin metallation.

4. Evidence for the metal-cofactor independence of an RNA phosphodiester-cleaving DNA enzyme.

5. Site-specific cleavage of a yeast chromosome by oligonucleotide-directed triple-helix formation.

Review 6. Diversity of oligonucleotide functions.

7. A DNA enzyme that cleaves RNA.

8. A DNA enzyme with Mg(2+)-dependent RNA phosphoesterase activity.

9. DNA cleavage by Cu(II)-desferal: identification of C1'-hydroxylation as the initial event for DNA damage.

10. A DNA metalloenzyme with DNA ligase activity.

1. The fidelity of template-directed oligonucleotide ligation and the inevitability of polymerase function.

2. A DNA enzyme with N-glycosylase activity.

3. A general approach for the use of oligonucleotide effectors to regulate the catalysis of RNA-cleaving ribozymes and DNAzymes.

4. A ribozyme that ligates RNA to protein.

5. Moving beyond Watson-Crick models of coarse grained DNA dynamics.

6. Analysis of a DNA simulation model through hairpin melting experiments.

7. Functional DNAzymes organized into two-dimensional arrays.

8. In vitro selection of a sodium-specific DNAzyme and its application in intracellular sensing.

9. Biochemical and Biophysical Understanding of Metal Ion Selectivity of DNAzymes.

10. Chemical and enzymatic properties of bridging 5'-S-phosphorothioester linkages in DNA.