Literature DB >> 8202510

Spectrophotometric assay for enzyme-mediated unwinding of double-stranded DNA.

P Houston1, T Kodadek.   

Abstract

A method is described for monitoring the enzyme-mediated unwinding of duplex DNA spectrophotometrically. The assay employs a partially duplex oligonucleotide substrate modified at the complementary end with coumarin and fluorescein moieties. When in close proximity the fluorescein quenches the fluorescence of coumarin. However, when the strands are separated by the action of a DNA helicase, the coumarin fluorescence increases greatly. Therefore, the progress of enzyme-mediated DNA unwinding can be measured in real time by fluorescence spectroscopy. This assay provides a simple method to screen for helicase inhibitors, which are of growing interest as potential anticancer agents. The application of this technique to kinetic analyses of the mechanism of action of DNA helicases is also discussed.

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Year:  1994        PMID: 8202510      PMCID: PMC44017          DOI: 10.1073/pnas.91.12.5471

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


  18 in total

1.  Fluorescence study of the topology of messenger RNA bound to the 30S ribosomal subunit of Escherichia coli.

Authors:  J Czworkowski; O W Odom; B Hardesty
Journal:  Biochemistry       Date:  1991-05-14       Impact factor: 3.162

2.  In vitro replication through nucleosomes without histone displacement.

Authors:  C Bonne-Andrea; M L Wong; B M Alberts
Journal:  Nature       Date:  1990-02-22       Impact factor: 49.962

Review 3.  DNA helicases.

Authors:  S W Matson; K A Kaiser-Rogers
Journal:  Annu Rev Biochem       Date:  1990       Impact factor: 23.643

4.  Characterization of the helicase activity of the Escherichia coli RecBCD enzyme using a novel helicase assay.

Authors:  L J Roman; S C Kowalczykowski
Journal:  Biochemistry       Date:  1989-04-04       Impact factor: 3.162

5.  Reaction of the antitumor antibiotic CC-1065 with DNA. Location of the site of thermally induced strand breakage and analysis of DNA sequence specificity.

Authors:  V L Reynolds; I J Molineux; D J Kaplan; D H Swenson; L H Hurley
Journal:  Biochemistry       Date:  1985-10-22       Impact factor: 3.162

6.  Detection of nucleic acid hybridization by nonradiative fluorescence resonance energy transfer.

Authors:  R A Cardullo; S Agrawal; C Flores; P C Zamecnik; D E Wolf
Journal:  Proc Natl Acad Sci U S A       Date:  1988-12       Impact factor: 11.205

7.  Conformational distributions of a four-way DNA junction revealed by time-resolved fluorescence resonance energy transfer.

Authors:  P S Eis; D P Millar
Journal:  Biochemistry       Date:  1993-12-21       Impact factor: 3.162

8.  Effects of the bacteriophage T4 dda protein on DNA synthesis catalyzed by purified T4 replication proteins.

Authors:  C V Jongeneel; P Bedinger; B M Alberts
Journal:  J Biol Chem       Date:  1984-10-25       Impact factor: 5.157

9.  Unwinding and rewinding of DNA by the RecBC enzyme.

Authors:  A Taylor; G R Smith
Journal:  Cell       Date:  1980-11       Impact factor: 41.582

10.  Stimulation of protein-directed strand exchange by a DNA helicase.

Authors:  T Kodadek; B M Alberts
Journal:  Nature       Date:  1987 Mar 19-25       Impact factor: 49.962

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  14 in total

1.  Simultaneously monitoring DNA binding and helicase-catalyzed DNA unwinding by fluorescence polarization.

Authors:  H Q Xu; A H Zhang; C Auclair; X G Xi
Journal:  Nucleic Acids Res       Date:  2003-07-15       Impact factor: 16.971

2.  The PriA replication restart protein blocks replicase access prior to helicase assembly and directs template specificity through its ATPase activity.

Authors:  Carol M Manhart; Charles S McHenry
Journal:  J Biol Chem       Date:  2012-12-20       Impact factor: 5.157

3.  Identification and analysis of inhibitors targeting the hepatitis C virus NS3 helicase.

Authors:  Alicia M Hanson; John J Hernandez; William R Shadrick; David N Frick
Journal:  Methods Enzymol       Date:  2012       Impact factor: 1.600

4.  Role of divalent metal cations in ATP hydrolysis catalyzed by the hepatitis C virus NS3 helicase: magnesium provides a bridge for ATP to fuel unwinding.

Authors:  David N Frick; Sukalyani Banik; Ryan S Rypma
Journal:  J Mol Biol       Date:  2006-11-07       Impact factor: 5.469

5.  Monitoring helicase activity with molecular beacons.

Authors:  Craig A Belon; David N Frick
Journal:  Biotechniques       Date:  2008-10       Impact factor: 1.993

6.  Chemical modifications of DNA for study of helicase mechanisms.

Authors:  Kevin D Raney
Journal:  Bioorg Med Chem       Date:  2014-06-02       Impact factor: 3.641

7.  General methods for analysis of sequential "n-step" kinetic mechanisms: application to single turnover kinetics of helicase-catalyzed DNA unwinding.

Authors:  Aaron L Lucius; Nasib K Maluf; Christopher J Fischer; Timothy M Lohman
Journal:  Biophys J       Date:  2003-10       Impact factor: 4.033

8.  Real-time fluorescence assays to monitor duplex unwinding and ATPase activities of helicases.

Authors:  Ali R Özeş; Kateryna Feoktistova; Brian C Avanzino; Enoch P Baldwin; Christopher S Fraser
Journal:  Nat Protoc       Date:  2014-06-19       Impact factor: 13.491

9.  A helicase assay based on the displacement of fluorescent, nucleic acid-binding ligands.

Authors:  A K Eggleston; N A Rahim; S C Kowalczykowski
Journal:  Nucleic Acids Res       Date:  1996-04-01       Impact factor: 16.971

10.  Identifying RNA Helicase Inhibitors Using Duplex Unwinding Assays.

Authors:  John C Marecki; Alicia K Byrd; Kevin D Raney
Journal:  Methods Mol Biol       Date:  2021
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