Literature DB >> 9013649

Quantitative nucleic acids footprinting: thermodynamic and kinetic approaches.

V Petri1, M Brenowitz.   

Abstract

Quantitative footprinting techniques allow a detailed analysis of the thermodynamic forces that characterize nucleic acid-ligand interactions and ligand-induced changes in nucleic acid structure by separately resolving the intrinsic and cooperative Gibbs free energy changes describing the reactions being investigated. A new implementation of the quantitative footprinting technique is the application of stopped-flow techniques to the study of kinetic reactions.

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Year:  1997        PMID： 9013649     DOI： 10.1016/s0958-1669(97)80155-3

Source DB:  PubMed          Journal:  Curr Opin Biotechnol        ISSN： 0958-1669            Impact factor:   9.740


  14 in total

1.  Nucleic acid fragmentation on the millisecond timescale using a conventional X-ray rotating anode source: application to protein-DNA footprinting.

Authors:  Arnon Henn; J Halfon; I Kela; I Orion; I Sagi
Journal:  Nucleic Acids Res       Date:  2001-12-15       Impact factor: 16.971

2.  Massive parallel analysis of the binding specificity of histone-like protein HU to single- and double-stranded DNA with generic oligodeoxyribonucleotide microchips.

Authors:  A S Krylov; O A Zasedateleva; D V Prokopenko; J Rouviere-Yaniv; A D Mirzabekov
Journal:  Nucleic Acids Res       Date:  2001-06-15       Impact factor: 16.971

3.  Catching RNA polymerase in the act of binding: intermediates in transcription illuminated by synchrotron footprinting.

Authors:  Michael Brenowitz; Dorothy A Erie; Mark R Chance
Journal:  Proc Natl Acad Sci U S A       Date:  2005-03-21       Impact factor: 11.205

4.  A general method for discovering inhibitors of protein-DNA interactions using photonic crystal biosensors.

Authors:  Leo L Chan; Maria Pineda; James T Heeres; Paul J Hergenrother; Brian T Cunningham
Journal:  ACS Chem Biol       Date:  2008-07-18       Impact factor: 5.100

5.  Orientation of the tRNA anticodon in the ribosomal P-site: quantitative footprinting with U33-modified, anticodon stem and loop domains.

Authors:  S S Ashraf; R Guenther; P F Agris
Journal:  RNA       Date:  1999-09       Impact factor: 4.942

6.  Monitoring equilibrium changes in RNA structure by 'peroxidative' and 'oxidative' hydroxyl radical footprinting.

Authors:  Ravichandra Bachu; Frances-Camille S Padlan; Sara Rouhanifard; Michael Brenowitz; Jörg C Schlatterer
Journal:  J Vis Exp       Date:  2011-10-17       Impact factor: 1.355

7.  Structural changes of tRNA and 5S rRNA induced with magnesium and visualized with synchrotron mediated hydroxyl radical cleavage.

Authors:  M Z Barciszewska; G Rapp; C Betzel; V A Erdmann; J Barciszewski
Journal:  Mol Biol Rep       Date:  2001       Impact factor: 2.316

8.  Semi-automated, single-band peak-fitting analysis of hydroxyl radical nucleic acid footprint autoradiograms for the quantitative analysis of transitions.

Authors:  Keiji Takamoto; Mark R Chance; Michael Brenowitz
Journal:  Nucleic Acids Res       Date:  2004-08-19       Impact factor: 16.971

9.  Complementing global measures of RNA folding with local reports of backbone solvent accessibility by time resolved hydroxyl radical footprinting.

Authors:  Jörg C Schlatterer; Michael Brenowitz
Journal:  Methods       Date:  2009-05-06       Impact factor: 3.608

10.  Statistical mechanical modeling of RNA folding: from free energy landscape to tertiary structural prediction.

Authors:  Song Cao; Shi-Jie Chen
Journal:  Nucleic Acids Mol Biol       Date:  2012-04-07
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