Literature DB >> 1923764

Effects of an abasic site on triple helix formation characterized by affinity cleaving.

D A Horne1, P B Dervan.   

Abstract

The stability of triple helical complexes of pyrimidine oligodeoxyribonucleotides containing one abasic 1,2-dideoxy-D-ribose (phi) residue was examined by affinity cleaving. Within a pyrimidine third strand, the triplets phi.AT, phi.GC, phi.TA and phi.CG are significantly less stable than the triplets, T.AT, C+GC and G.TA. The decrease in binding produced by an abasic residue is similar to that observed with imperfectly matched natural base triplets, with phi.AT and phi.GC being less stable than phi.TA and phi.CG triplets for the sequences studied.

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Year:  1991        PMID： 1923764      PMCID： PMC328797          DOI： 10.1093/nar/19.18.4963

Source DB:  PubMed          Journal:  Nucleic Acids Res        ISSN： 0305-1048            Impact factor:   16.971


  13 in total

1.  Formation of intramolecular triplex in homopurine-homopyrimidine mirror repeats with point substitutions.

Authors:  B P Belotserkovskii; A G Veselkov; S A Filippov; V N Dobrynin; S M Mirkin; M D Frank-Kamenetskii
Journal:  Nucleic Acids Res       Date:  1990-11-25       Impact factor: 16.971

2.  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

3.  The abasic site as a challenge to DNA polymerase. A nuclear magnetic resonance study of G, C and T opposite a model abasic site.

Authors:  P Cuniasse; G V Fazakerley; W Guschlbauer; B E Kaplan; L C Sowers
Journal:  J Mol Biol       Date:  1990-05-20       Impact factor: 5.469

4.  NMR studies of abasic sites in DNA duplexes: deoxyadenosine stacks into the helix opposite the cyclic analogue of 2-deoxyribose.

Authors:  M W Kalnik; C N Chang; A P Grollman; D J Patel
Journal:  Biochemistry       Date:  1988-02-09       Impact factor: 3.162

5.  Sequence-specific cleavage of double helical DNA by triple helix formation.

Authors:  H E Moser; P B Dervan
Journal:  Science       Date:  1987-10-30       Impact factor: 47.728

6.  Single-site enzymatic cleavage of yeast genomic DNA mediated by triple helix formation.

Authors:  S A Strobel; P B Dervan
Journal:  Nature       Date:  1991-03-14       Impact factor: 49.962

7.  Influence of abasic and anucleosidic sites on the stability, conformation, and melting behavior of a DNA duplex: correlations of thermodynamic and structural data.

Authors:  G Vesnaver; C N Chang; M Eisenberg; A P Grollman; K J Breslauer
Journal:  Proc Natl Acad Sci U S A       Date:  1989-05       Impact factor: 11.205

8.  Synthesis and biophysical studies of short oligodeoxynucleotides with novel modifications: a possible approach to the problem of mixed base oligodeoxynucleotide synthesis.

Authors:  T A Millican; G A Mock; M A Chauncey; T P Patel; M A Eaton; J Gunning; S D Cutbush; S Neidle; J Mann
Journal:  Nucleic Acids Res       Date:  1984-10-11       Impact factor: 16.971

9.  Sequence-specific binding and photocrosslinking of alpha and beta oligodeoxynucleotides to the major groove of DNA via triple-helix formation.

Authors:  D Praseuth; L Perrouault; T Le Doan; M Chassignol; N Thuong; C Hélène
Journal:  Proc Natl Acad Sci U S A       Date:  1988-03       Impact factor: 11.205

10.  Sequence-specific cleavage of single-stranded DNA: oligodeoxynucleotide-EDTA X Fe(II).

Authors:  G B Dreyer; P B Dervan
Journal:  Proc Natl Acad Sci U S A       Date:  1985-02       Impact factor: 11.205
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  10 in total

1.  Triplex formation by oligonucleotides containing novel deoxycytidine derivatives.

Authors:  C Y Huang; G Bi; P S Miller
Journal:  Nucleic Acids Res       Date:  1996-07-01       Impact factor: 16.971

2.  Elucidation of the sequence-specific third-strand recognition of four Watson-Crick base pairs in a pyrimidine triple-helix motif: T.AT, C.GC, T.CG, and G.TA.

Authors:  K Yoon; C A Hobbs; J Koch; M Sardaro; R Kutny; A L Weis
Journal:  Proc Natl Acad Sci U S A       Date:  1992-05-01       Impact factor: 11.205

3.  Triplex targeting of a native gene in permeabilized intact cells: covalent modification of the gene for the chemokine receptor CCR5.

Authors:  E S Belousov; I A Afonina; I V Kutyavin; A A Gall; M W Reed; H B Gamper; R M Wydro; R B Meyer
Journal:  Nucleic Acids Res       Date:  1998-03-01       Impact factor: 16.971

4.  Effect of abasic linker substitution on triplex formation, Sp1 binding, and specificity in an oligonucleotide targeted to the human Ha-ras promoter.

Authors:  C Mayfield; D Miller
Journal:  Nucleic Acids Res       Date:  1994-05-25       Impact factor: 16.971

5.  Azole substituted oligonucleotides promote antiparallel triplex formation at non-homopurine duplex targets.

Authors:  R H Durland; T S Rao; V Bodepudi; D M Seth; K Jayaraman; G R Revankar
Journal:  Nucleic Acids Res       Date:  1995-02-25       Impact factor: 16.971

6.  Single strand targeted triplex formation: targeting purine-pyrimidine mixed sequences using abasic linkers.

Authors:  E R Kandimalla; A N Manning; G Venkataraman; V Sasisekharan; S Agrawal
Journal:  Nucleic Acids Res       Date:  1995-11-11       Impact factor: 16.971

7.  Binding of T and T analogs to CG base pairs in antiparallel triplexes.

Authors:  R H Durland; T S Rao; G R Revankar; J H Tinsley; M A Myrick; D M Seth; J Rayford; P Singh; K Jayaraman
Journal:  Nucleic Acids Res       Date:  1994-08-11       Impact factor: 16.971

8.  Triplex formation inhibits HER-2/neu transcription in vitro.

Authors:  S W Ebbinghaus; J E Gee; B Rodu; C A Mayfield; G Sanders; D M Miller
Journal:  J Clin Invest       Date:  1993-11       Impact factor: 14.808

9.  Pyridazine Nucleobase in Triplex-Forming PNA Improves Recognition of Cytosine Interruptions of Polypurine Tracts in RNA.

Authors:  Nikita Brodyagin; Ilze Kumpina; Justin Applegate; Martins Katkevics; Eriks Rozners
Journal:  ACS Chem Biol       Date:  2021-04-21       Impact factor: 5.100

10.  Four base recognition by triplex-forming oligonucleotides at physiological pH.

Authors:  David A Rusling; Vicki E C Powers; Rohan T Ranasinghe; Yang Wang; Sadie D Osborne; Tom Brown; Keith R Fox
Journal:  Nucleic Acids Res       Date:  2005-05-23       Impact factor: 16.971
  10 in total

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