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Literature DB >> 1614865

The influence of single base triplet changes on the stability of a pur.pur.pyr triple helix determined by affinity cleaving.

Abstract

The influence of sixteen base triplet changes at a single position within a pur.pur.pyr triple helix was examined by affinity cleaving. For the 15 base pair target site studied here, G.GC, A.AT and T.AT triplets stabilize a triple helix to a greater extent than the other 13 natural triplets (pH = 7.4, 25 degrees C). Weaker interactions were detected for the C.AT, A.GC and T.CG triplets. The absence of specific, highly stabilizing interactions between third strand bases and the CG or TA base pairs demonstrates a current sequence limitation to formation of this structure. Models for the two dimensional base triplet interactions for all possible 16 natural triplets are presented.

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Year: 1992 PMID： 1614865 PMCID： PMC336921 DOI： 10.1093/nar/20.11.2773

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

15 in total

1. Flanking sequence effects within the pyrimidine triple-helix motif characterized by affinity cleaving.

Authors: L L Kiessling; L C Griffin; P B Dervan
Journal: Biochemistry Date: 1992-03-17 Impact factor: 3.162

2. Structure, stability, and thermodynamics of a short intermolecular purine-purine-pyrimidine triple helix.

Authors: D S Pilch; C Levenson; R H Shafer
Journal: Biochemistry Date: 1991-06-25 Impact factor: 3.162

3. Second structural motif for recognition of DNA by oligonucleotide-directed triple-helix formation.

Authors: P A Beal; P B Dervan
Journal: Science Date: 1991-03-15 Impact factor: 47.728

4. DNA triplex formation of oligonucleotide analogues consisting of linker groups and octamer segments that have opposite sugar-phosphate backbone polarities.

Authors: A Ono; C N Chen; L S Kan
Journal: Biochemistry Date: 1991-10-15 Impact factor: 3.162

5. Autoradiography using storage phosphor technology.

Authors: R F Johnston; S C Pickett; D L Barker
Journal: Electrophoresis Date: 1990-05 Impact factor: 3.535

6. NMR studies of triple-strand formation from the homopurine-homopyrimidine deoxyribonucleotides d(GA)4 and d(TC)4.

Authors: P Rajagopal; J Feigon
Journal: Biochemistry Date: 1989-09-19 Impact factor: 3.162

7. Site-specific oligonucleotide binding represses transcription of the human c-myc gene in vitro.

Authors: M Cooney; G Czernuszewicz; E H Postel; S J Flint; M E Hogan
Journal: Science Date: 1988-07-22 Impact factor: 47.728

8. 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

9. NMR structural studies of intramolecular (Y+)n.(R+)n(Y-)nDNA triplexes in solution: imino and amino proton and nitrogen markers of G.TA base triple formation.

Authors: I Radhakrishnan; X Gao; C de los Santos; D Live; D J Patel
Journal: Biochemistry Date: 1991-09-17 Impact factor: 3.162

10. Intramolecular triple-helix formation at (PunPyn).(PunPyn) tracts: recognition of alternate strands via Pu.PuPy and Py.PuPy base triplets.

Authors: S D Jayasena; B H Johnston
Journal: Biochemistry Date: 1992-01-21 Impact factor: 3.162

35 in total

8. Polyamine effects on purine-purine-pyrimidine triple helix formation by phosphodiester and phosphorothioate oligodeoxyribonucleotides.

Authors: M Musso; M W Van Dyke
Journal: Nucleic Acids Res Date: 1995-06-25 Impact factor: 16.971

9. Friedreich's ataxia-associated GAA repeats induce replication-fork reversal and unusual molecular junctions.

Authors: Cindy Follonier; Judith Oehler; Raquel Herrador; Massimo Lopes
Journal: Nat Struct Mol Biol Date: 2013-03-03 Impact factor: 15.369

10. 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

The influence of single base triplet changes on the stability of a pur.pur.pyr triple helix determined by affinity cleaving.

1. Flanking sequence effects within the pyrimidine triple-helix motif characterized by affinity cleaving.

2. Structure, stability, and thermodynamics of a short intermolecular purine-purine-pyrimidine triple helix.

3. Second structural motif for recognition of DNA by oligonucleotide-directed triple-helix formation.

4. DNA triplex formation of oligonucleotide analogues consisting of linker groups and octamer segments that have opposite sugar-phosphate backbone polarities.

5. Autoradiography using storage phosphor technology.

6. NMR studies of triple-strand formation from the homopurine-homopyrimidine deoxyribonucleotides d(GA)4 and d(TC)4.

7. Site-specific oligonucleotide binding represses transcription of the human c-myc gene in vitro.

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

9. NMR structural studies of intramolecular (Y+)n.(R+)n(Y-)nDNA triplexes in solution: imino and amino proton and nitrogen markers of G.TA base triple formation.

10. Intramolecular triple-helix formation at (PunPyn).(PunPyn) tracts: recognition of alternate strands via Pu.PuPy and Py.PuPy base triplets.

1. Triplex hydration: nanosecond molecular dynamics simulation of the solvated triplex formed by mixed sequences.

2. Recognition of Single-Stranded Nucleic Acids by Triplex Formation: The Binding of Pyrimidine-Rich Sequences.

3. Triplex formation by oligonucleotides containing novel deoxycytidine derivatives.

4. DNA sequence specificity of a naphthylquinoline triple helix-binding ligand.

5. NGG-triplet repeats form similar intrastrand structures: implications for the triplet expansion diseases.

6. Targeting pyrimidine single strands by triplex formation: structural optimization of binding.

7. Design of artificial sequence-specific DNA bending ligands.

8. Polyamine effects on purine-purine-pyrimidine triple helix formation by phosphodiester and phosphorothioate oligodeoxyribonucleotides.

9. Friedreich's ataxia-associated GAA repeats induce replication-fork reversal and unusual molecular junctions.

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