Literature DB >> 17154290

NMR studies of dynamics in RNA and DNA by 13C relaxation.

Zahra Shajani1, Gabriele Varani.   

Abstract

RNA and DNA molecules experience motions on a wide range of time scales, ranging from rapid localized motions to much slower collective motions of entire helical domains. The many functions of RNA in biology very often require this molecule to change its conformation in response to biological signals in the form of small molecules, proteins or other nucleic acids, whereas local motions in DNA may facilitate protein recognition and allow enzymes acting on DNA to access functional groups on the bases that would otherwise be buried in Watson-Crick base pairs. Although these statements make a compelling case to study the sequence dependent dynamics in nucleic acids, there are few residue-specific studies of nucleic acid dynamics. Fortunately, NMR studies of dynamics of nucleic acids and nucleic acids-protein complexes are gaining increased attention. The aim of this review is to provide an update of the recent progress in studies of nucleic acid dynamics by NMR based on the application of solution relaxation techniques.

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Year:  2007        PMID: 17154290     DOI: 10.1002/bip.20650

Source DB:  PubMed          Journal:  Biopolymers        ISSN: 0006-3525            Impact factor:   2.505


  31 in total

1.  Solid-state deuterium NMR studies reveal micros-ns motions in the HIV-1 transactivation response RNA recognition site.

Authors:  Greg L Olsen; Dorothy C Echodu; Zahra Shajani; Michael F Bardaro; Gabriele Varani; Gary P Drobny
Journal:  J Am Chem Soc       Date:  2008-02-15       Impact factor: 15.419

2.  Extensive backbone dynamics in the GCAA RNA tetraloop analyzed using 13C NMR spin relaxation and specific isotope labeling.

Authors:  James E Johnson; Charles G Hoogstraten
Journal:  J Am Chem Soc       Date:  2008-12-10       Impact factor: 15.419

3.  Probing complexes with single fluorophores: factors contributing to dispersion of FRET in DNA/RNA duplexes.

Authors:  Dmitry I Cherny; Ian C Eperon; Clive R Bagshaw
Journal:  Eur Biophys J       Date:  2008-11-18       Impact factor: 1.733

4.  Deriving quantitative dynamics information for proteins and RNAs using ROTDIF with a graphical user interface.

Authors:  Konstantin Berlin; Andrew Longhini; T Kwaku Dayie; David Fushman
Journal:  J Biomol NMR       Date:  2013-10-30       Impact factor: 2.835

5.  Site-specific DNA structural and dynamic features revealed by nucleotide-independent nitroxide probes.

Authors:  Anna M Popova; Tamás Kálai; Kálmán Hideg; Peter Z Qin
Journal:  Biochemistry       Date:  2009-09-15       Impact factor: 3.162

Review 6.  Unwinding RNA's secrets: advances in the biology, physics, and modeling of complex RNAs.

Authors:  Vincent B Chu; Daniel Herschlag
Journal:  Curr Opin Struct Biol       Date:  2008-06       Impact factor: 6.809

7.  Slow conformational dynamics at C2'-endo nucleotides in RNA.

Authors:  Costin M Gherghe; Stefanie A Mortimer; Joseph M Krahn; Nancy L Thompson; Kevin M Weeks
Journal:  J Am Chem Soc       Date:  2008-06-18       Impact factor: 15.419

8.  Hydration dependent dynamics in RNA.

Authors:  Greg L Olsen; Michael F Bardaro; Dorothy C Echodu; Gary P Drobny; Gabriele Varani
Journal:  J Biomol NMR       Date:  2009-08-08       Impact factor: 2.835

9.  Probing sequence-specific DNA flexibility in a-tracts and pyrimidine-purine steps by nuclear magnetic resonance (13)C relaxation and molecular dynamics simulations.

Authors:  Evgenia N Nikolova; Gavin D Bascom; Ioan Andricioaei; Hashim M Al-Hashimi
Journal:  Biochemistry       Date:  2012-10-18       Impact factor: 3.162

10.  Effect of local sugar and base geometry on 13C and 15N magnetic shielding anisotropy in DNA nucleosides.

Authors:  Eva Brumovská; Vladimír Sychrovský; Zuzana Vokácová; Jirí Sponer; Bohdan Schneider; Lukás Trantírek
Journal:  J Biomol NMR       Date:  2008-10-14       Impact factor: 2.835

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