Literature DB >> 19243182

Extending the range of microsecond-to-millisecond chemical exchange detected in labeled and unlabeled nucleic acids by selective carbon R(1rho) NMR spectroscopy.

Alexandar L Hansen1, Evgenia N Nikolova, Anette Casiano-Negroni, Hashim M Al-Hashimi.   

Abstract

We present an off-resonance carbon R(1rho) NMR experiment utilizing weak radiofrequency fields and selective polarization transfers for quantifying chemical-exchange processes in nucleic acids. The experiment extends the range of accessible time scales to approximately 10 ms, and its time-saving feature makes it possible to thoroughly map out dispersion profiles and conduct measurements at natural abundance. The experiment unveiled microsecond-to-millisecond exchange dynamics in a uniformly labeled A-site rRNA and in unlabeled, damaged DNA that would otherwise be difficult to characterize by conventional methods.

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Year:  2009        PMID: 19243182     DOI: 10.1021/ja8091399

Source DB:  PubMed          Journal:  J Am Chem Soc        ISSN: 0002-7863            Impact factor:   15.419


  62 in total

1.  Sequence-specific B-DNA flexibility modulates Z-DNA formation.

Authors:  Jameson R Bothe; Ky Lowenhaupt; Hashim M Al-Hashimi
Journal:  J Am Chem Soc       Date:  2011-01-28       Impact factor: 15.419

2.  Thermodynamics of RNA melting, one base pair at a time.

Authors:  Evgenia N Nikolova; Hashim M Al-Hashimi
Journal:  RNA       Date:  2010-07-21       Impact factor: 4.942

3.  Probing transient Hoogsteen hydrogen bonds in canonical duplex DNA using NMR relaxation dispersion and single-atom substitution.

Authors:  Evgenia N Nikolova; Federico L Gottardo; Hashim M Al-Hashimi
Journal:  J Am Chem Soc       Date:  2012-02-16       Impact factor: 15.419

4.  3D maps of RNA interhelical junctions.

Authors:  Maximillian H Bailor; Anthony M Mustoe; Charles L Brooks; Hashim M Al-Hashimi
Journal:  Nat Protoc       Date:  2011-09-15       Impact factor: 13.491

5.  A Conformational Switch in the Zinc Finger Protein Kaiso Mediates Differential Readout of Specific and Methylated DNA Sequences.

Authors:  Evgenia N Nikolova; Robyn L Stanfield; H Jane Dyson; Peter E Wright
Journal:  Biochemistry       Date:  2020-05-12       Impact factor: 3.162

6.  NMR paves the way for atomic level descriptions of sparsely populated, transiently formed biomolecular conformers.

Authors:  Ashok Sekhar; Lewis E Kay
Journal:  Proc Natl Acad Sci U S A       Date:  2013-07-18       Impact factor: 11.205

7.  Visualizing transient Watson-Crick-like mispairs in DNA and RNA duplexes.

Authors:  Isaac J Kimsey; Katja Petzold; Bharathwaj Sathyamoorthy; Zachary W Stein; Hashim M Al-Hashimi
Journal:  Nature       Date:  2015-03-11       Impact factor: 49.962

8.  Evaluating the uncertainty in exchange parameters determined from off-resonance R1ρ relaxation dispersion for systems in fast exchange.

Authors:  Jameson R Bothe; Zachary W Stein; Hashim M Al-Hashimi
Journal:  J Magn Reson       Date:  2014-04-20       Impact factor: 2.229

Review 9.  Characterizing excited conformational states of RNA by NMR spectroscopy.

Authors:  Bo Zhao; Qi Zhang
Journal:  Curr Opin Struct Biol       Date:  2015-03-10       Impact factor: 6.809

10.  Base-pair conformational switch modulates miR-34a targeting of Sirt1 mRNA.

Authors:  Ileana Guzzetti; Parisa Ebrahimi; Sarah Friebe Sandoz; Emilie Steiner; Lorenzo Baronti; Judith Schlagnitweit; Bastian Fromm; Luis Silva; Carolina Fontana; Alan A Chen; Katja Petzold
Journal:  Nature       Date:  2020-05-27       Impact factor: 49.962

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