Literature DB >> 3714469

Diethyl pyrocarbonate: a chemical probe for DNA cruciforms.

P M Scholten, A Nordheim.   

Abstract

Two palindromic DNA sequences were analyzed with respect to their chemical reactivities with diethyl pyrocarbonate. In negatively supercoiled plasmid templates enhanced N7 carbethoxylation was found with individual purines located in presumptive single-stranded loops of DNA cruciform structures. No enhanced reactivity at these positions was observed in linear, relaxed or low superhelical density plasmids. Hyperreactivity was found over a narrow region only, indicating that stable cruciforms contain loops of minimal size. No enhanced chemical reactivity was found with the four-way junction at the base of cruciforms. Diethyl pyrocarbonate has proved a sensitive structural probe for the analysis, with single nucleotide resolution, of DNA cruciform structures.

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Year:  1986        PMID： 3714469      PMCID： PMC339840          DOI： 10.1093/nar/14.10.3981

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


  24 in total

1.  Cruciform structures in supercoiled DNA.

Authors:  N Panayotatos; R D Wells
Journal:  Nature       Date:  1981-02-05       Impact factor: 49.962

2.  High sequence specificity of micrococcal nuclease.

Authors:  C Dingwall; G P Lomonossoff; R A Laskey
Journal:  Nucleic Acids Res       Date:  1981-06-25       Impact factor: 16.971

3.  The inverted repeat as a recognizable structural feature in supercoiled DNA molecules.

Authors:  D M Lilley
Journal:  Proc Natl Acad Sci U S A       Date:  1980-11       Impact factor: 11.205

Review 4.  The interactions of enzyme and chemical probes with inverted repeats in supercoiled DNA.

Authors:  D M Lilley; L R Hallam
Journal:  J Biomol Struct Dyn       Date:  1983-10

5.  A sharp structural transition in pA03 plasmid DNA caused by increased superhelix density.

Authors:  I G Panyutin; V I Lyamichev
Journal:  FEBS Lett       Date:  1982-11-08       Impact factor: 4.124

6.  Cruciform structures in palindromic DNA are favored by DNA supercoiling.

Authors:  K Mizuuchi; M Mizuuchi; M Gellert
Journal:  J Mol Biol       Date:  1982-04-05       Impact factor: 5.469

7.  Flipping of cloned d(pCpG)n.d(pCpG)n DNA sequences from right- to left-handed helical structure by salt, Co(III), or negative supercoiling.

Authors:  L J Peck; A Nordheim; A Rich; J C Wang
Journal:  Proc Natl Acad Sci U S A       Date:  1982-08       Impact factor: 11.205

8.  Sequencing end-labeled DNA with base-specific chemical cleavages.

Authors:  A M Maxam; W Gilbert
Journal:  Methods Enzymol       Date:  1980       Impact factor: 1.600

9.  Determination of the number of superhelical turns in simian virus 40 DNA by gel electrophoresis.

Authors:  W Keller
Journal:  Proc Natl Acad Sci U S A       Date:  1975-12       Impact factor: 11.205

10.  Chemical probes for higher-order structure in RNA.

Authors:  D A Peattie; W Gilbert
Journal:  Proc Natl Acad Sci U S A       Date:  1980-08       Impact factor: 11.205
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  16 in total

1.  The transcriptional repressor CcpN from Bacillus subtilis uses different repression mechanisms at different promoters.

Authors:  Andreas Licht; Sabine Brantl
Journal:  J Biol Chem       Date:  2009-09-02       Impact factor: 5.157

2.  Superhelical torsion in cellular DNA responds directly to environmental and genetic factors.

Authors:  J A McClellan; P Boublíková; E Palecek; D M Lilley
Journal:  Proc Natl Acad Sci U S A       Date:  1990-11       Impact factor: 11.205

3.  Hoogsteen base pairs proximal and distal to echinomycin binding sites on DNA.

Authors:  D Mendel; P B Dervan
Journal:  Proc Natl Acad Sci U S A       Date:  1987-02       Impact factor: 11.205

4.  The anomalous gel migration of a stable cruciform: temperature and salt dependence, and some comparisons with curved DNA.

Authors:  S Diekmann; D M Lilley
Journal:  Nucleic Acids Res       Date:  1987-07-24       Impact factor: 16.971

5.  The contrasting structures of mismatched DNA sequences containing looped-out bases (bulges) and multiple mismatches (bubbles).

Authors:  A Bhattacharyya; D M Lilley
Journal:  Nucleic Acids Res       Date:  1989-09-12       Impact factor: 16.971

6.  Intermediate range effects in DNA. I: Low pH/stress induced conformational changes in the vicinity of an extruded d(AT)n.d(AT) in cruciform.

Authors:  J N Glover; D B Haniford; D E Pulleyblank
Journal:  Nucleic Acids Res       Date:  1988-06-24       Impact factor: 16.971

7.  Events during eucaryotic rRNA transcription initiation and elongation: conversion from the closed to the open promoter complex requires nucleotide substrates.

Authors:  E Bateman; M R Paule
Journal:  Mol Cell Biol       Date:  1988-05       Impact factor: 4.272

8.  Strand invasion of extended, mixed-sequence B-DNA by gammaPNAs.

Authors:  Gaofei He; Srinivas Rapireddy; Raman Bahal; Bichismita Sahu; Danith H Ly
Journal:  J Am Chem Soc       Date:  2009-09-02       Impact factor: 15.419

9.  Diethyl pyrocarbonate can detect a modified DNA structure induced by the binding of quinoxaline antibiotics.

Authors:  J Portugal; K R Fox; M J McLean; J L Richenberg; M J Waring
Journal:  Nucleic Acids Res       Date:  1988-05-11       Impact factor: 16.971

10.  A historical account of Hoogsteen base-pairs in duplex DNA.

Authors:  Evgenia N Nikolova; Huiqing Zhou; Federico L Gottardo; Heidi S Alvey; Isaac J Kimsey; Hashim M Al-Hashimi
Journal:  Biopolymers       Date:  2013-12       Impact factor: 2.505
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