Literature DB >> 8313958

The R-form of DNA does exist.

A K Shchyolkina1, E N Timofeev, O F Borisova, I A Il'icheva, E E Minyat, E B Khomyakova, V L Florentiev.   

Abstract

Oligonucleotide 5'-d(CATGCTAACT)-L-d(AGTTAGCATG)-L-d(CATGCTAACT)-3' [L = pO(CH2CH2O)3p] is shown to fold back on itself twice forming at pH 7 a sufficiently stable triplex (Tm is about 30 degrees C) with parallel-orientated identical strands (the recombinant or R-form of DNA). Experimental evidence was obtained by studying thermal denaturation, chemical modification and binding of fluorescent probes. The stability of the R-triplex increases in the presence of divalent ions or spermidine. Its structure is characterized by a certain heterogeneity that causes the cooperativity of a triplex-to-duplex transition to decrease. On the basis of conformational modeling, the possible types of base tripling in all four triplets are proposed. The experimental data as well as the molecular mechanic calculations indicate that the stabilities of triplets in the R-triplex decrease in the order: G:C-G = A:T-A >> T:A-T > C:G-C.

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Year:  1994        PMID: 8313958     DOI: 10.1016/0014-5793(94)80396-x

Source DB:  PubMed          Journal:  FEBS Lett        ISSN: 0014-5793            Impact factor:   4.124


  10 in total

1.  Formation of an intramolecular triple-stranded DNA structure monitored by fluorescence of 2-aminopurine or 6-methylisoxanthopterin.

Authors:  Anna K Shchyolkina; Dmitry N Kaluzhny; Olga F Borisova; Mary E Hawkins; Robert L Jernigan; Thomas M Jovin; Donna J Arndt-Jovin; Victor B Zhurkin
Journal:  Nucleic Acids Res       Date:  2004-01-22       Impact factor: 16.971

2.  Intramolecular recombination R-triplex in solution: stabilization by bis-intercalator YOYO.

Authors:  Dmitry N Kaluzhny; Vladimir V Timoshin; Olga F Borisova; Victor B Zhurkin; Vladimir L Florentiev; Anna K Shchyolkina
Journal:  J Biomol Struct Dyn       Date:  2008-12

3.  Parallel and antiparallel A*A-T intramolecular triple helices.

Authors:  C Dagneaux; H Gousset; A K Shchyolkina; M Ouali; R Letellier; J Liquier; V L Florentiev; E Taillandier
Journal:  Nucleic Acids Res       Date:  1996-11-15       Impact factor: 16.971

4.  Anomeric DNA quadruplexes.

Authors:  Natalia A Kolganova; Anna M Varizhuk; Roman A Novikov; Vladimir L Florentiev; Galina E Pozmogova; Olga F Borisova; Anna K Shchyolkina; Igor P Smirnov; Dmitry N Kaluzhny; Edward N Timofeev
Journal:  Artif DNA PNA XNA       Date:  2014

5.  Protein-free parallel triple-stranded DNA complex formation.

Authors:  A K Shchyolkina; E N Timofeev; Y P Lysov; V L Florentiev; T M Jovin; D J Arndt-Jovin
Journal:  Nucleic Acids Res       Date:  2001-02-15       Impact factor: 16.971

6.  Targeting duplex DNA with chimeric α,β-triplex-forming oligonucleotides.

Authors:  N A Kolganova; A K Shchyolkina; A V Chudinov; A S Zasedatelev; V L Florentiev; E N Timofeev
Journal:  Nucleic Acids Res       Date:  2012-05-27       Impact factor: 16.971

7.  Recombination R-triplex: H-bonds contribution to stability as revealed with minor base substitutions for adenine.

Authors:  Anna K Shchyolkina; Dmitry N Kaluzhny; Donna J Arndt-Jovin; Thomas M Jovin; Victor B Zhurkin
Journal:  Nucleic Acids Res       Date:  2006-06-23       Impact factor: 16.971

8.  Dodecamer d-AGATCTAGATCT and a homologous hairpin form triplex in the presence of peptide REWER.

Authors:  Amrita Das; Tapas Saha; Faizan Ahmad; Kunal B Roy; Vikas Rishi
Journal:  PLoS One       Date:  2013-05-21       Impact factor: 3.240

9.  Conformational variability of recombination R-triplex formed by the mammalian telomeric sequence.

Authors:  Anna K Shchyolkina; Dmitry N Kaluzhny; Olga F Borisova; Donna J Arndt-Jovin; Thomas M Jovin; Victor B Zhurkin
Journal:  J Biomol Struct Dyn       Date:  2015-10-15

10.  Parallel triplex structure formed between stretched single-stranded DNA and homologous duplex DNA.

Authors:  Jin Chen; Qingnan Tang; Shiwen Guo; Chen Lu; Shimin Le; Jie Yan
Journal:  Nucleic Acids Res       Date:  2017-09-29       Impact factor: 16.971

  10 in total

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