Literature DB >> 17701076

13C-detected NMR experiments for measuring chemical shifts and coupling constants in nucleic acid bases.

Radovan Fiala1, Vladimír Sklenár.   

Abstract

The paper presents a set of two-dimensional experiments that utilize direct (13)C detection to provide proton-carbon, carbon-carbon and carbon-nitrogen correlations in the bases of nucleic acids. The set includes a (13)C-detected proton-carbon correlation experiment for the measurement of (13)C-(13)C couplings, the CaCb experiment for correlating two quaternary carbons, the HCaCb experiment for the (13)C-(13)C correlations in cases where one of the carbons has a proton attached, the HCC-TOCSY experiment for correlating a proton with a network of coupled carbons, and a (13)C-detected (13)C-(15)N correlation experiment for detecting the nitrogen nuclei that cannot be detected via protons. The IPAP procedure is used for extracting the carbon-carbon couplings and/or carbon decoupling in the direct dimension, while the S(3)E procedure is preferred in the indirect dimension of the carbon-nitrogen experiment to obtain the value of the coupling constant. The experiments supply accurate values of (13)C and (15)N chemical shifts and carbon-carbon and carbon-nitrogen coupling constants. These values can help to reveal structural features of nucleic acids either directly or via induced changes when the sample is dissolved in oriented media.

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Year:  2007        PMID: 17701076     DOI: 10.1007/s10858-007-9184-4

Source DB:  PubMed          Journal:  J Biomol NMR        ISSN: 0925-2738            Impact factor:   2.582


  26 in total

Review 1.  NMR spectroscopy of RNA.

Authors:  Boris Fürtig; Christian Richter; Jens Wöhnert; Harald Schwalbe
Journal:  Chembiochem       Date:  2003-10-06       Impact factor: 3.164

2.  New NMR experiments for RNA nucleobase resonance assignment and chemical shift analysis of an RNA UUCG tetraloop.

Authors:  Boris Fürtig; Christian Richter; Wolfgang Bermel; Harald Schwalbe
Journal:  J Biomol NMR       Date:  2004-01       Impact factor: 2.835

3.  Internal consistency of NMR data obtained in partially aligned biomacromolecules.

Authors:  Lukás Zídek; Petr Padrta; Josef Chmelík; Vladimír Sklenár
Journal:  J Magn Reson       Date:  2003-06       Impact factor: 2.229

4.  Analysis of (1)H chemical shifts in DNA: Assessment of the reliability of (1)H chemical shift calculations for use in structure refinement.

Authors:  S S Wijmenga; M Kruithof; C W Hilbers
Journal:  J Biomol NMR       Date:  1997-12       Impact factor: 2.835

5.  13C direct detected NMR increases the detectability of residual dipolar couplings.

Authors:  Stéphane Balayssac; Ivano Bertini; Claudio Luchinat; Giacomo Parigi; Mario Piccioli
Journal:  J Am Chem Soc       Date:  2006-11-29       Impact factor: 15.419

6.  A selective experiment for the sequential protein backbone assignment from 3D heteronuclear spectra.

Authors:  Wolfgang Bermel; Ivano Bertini; Isabella C Felli; Roberta Pierattelli; Paul R Vasos
Journal:  J Magn Reson       Date:  2005-02       Impact factor: 2.229

7.  Measurement of small scalar and dipolar couplings in purine and pyrimidine bases.

Authors:  L Zídek; H Wu; J Feigon; V Sklenár
Journal:  J Biomol NMR       Date:  2001-10       Impact factor: 2.835

8.  Accurate measurement of 15N-13C residual dipolar couplings in nucleic acids.

Authors:  Christopher P Jaroniec; Jérôme Boisbouvier; Izabela Tworowska; Edward P Nikonowicz; Ad Bax
Journal:  J Biomol NMR       Date:  2005-03       Impact factor: 2.835

9.  [(13)C,(13)C]- and [(13)C,(1)H]-TROSY in a triple resonance experiment for ribose-base and intrabase correlations in nucleic acids.

Authors:  R Riek; K Pervushin; C Fernández; M Kainosho; K Wüthrich
Journal:  J Am Chem Soc       Date:  2001-01-31       Impact factor: 15.419

10.  Accurate measurement of small spin-spin couplings in partially aligned molecules using a novel J-mismatch compensated spin-state-selection filter.

Authors:  B Brutscher
Journal:  J Magn Reson       Date:  2001-08       Impact factor: 2.229

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  15 in total

1.  Direct ¹³C-detected NMR experiments for mapping and characterization of hydrogen bonds in RNA.

Authors:  Boris Fürtig; Robbin Schnieders; Christian Richter; Heidi Zetzsche; Sara Keyhani; Christina Helmling; Helena Kovacs; Harald Schwalbe
Journal:  J Biomol NMR       Date:  2016-02-06       Impact factor: 2.835

2.  Independent alignment of RNA for dynamic studies using residual dipolar couplings.

Authors:  Michael F Bardaro; Gabriele Varani
Journal:  J Biomol NMR       Date:  2012-07-18       Impact factor: 2.835

3.  Direct evidence for (G)O6···H2-N4(C)+ hydrogen bonding in transient G(syn)-C+ and G(syn)-m5C+ Hoogsteen base pairs in duplex DNA from cytosine amino nitrogen off-resonance R relaxation dispersion measurements.

Authors:  Atul Rangadurai; Johannes Kremser; Honglue Shi; Christoph Kreutz; Hashim M Al-Hashimi
Journal:  J Magn Reson       Date:  2019-09-05       Impact factor: 2.229

4.  Selective 13C labeling of nucleotides for large RNA NMR spectroscopy using an E. coli strain disabled in the TCA cycle.

Authors:  Chandar S Thakur; Jacob N Sama; Melantha E Jackson; Bin Chen; T Kwaku Dayie
Journal:  J Biomol NMR       Date:  2010-11-06       Impact factor: 2.835

5.  Evaluation of 15N-detected H-N correlation experiments on increasingly large RNAs.

Authors:  Robbin Schnieders; Christian Richter; Sven Warhaut; Vanessa de Jesus; Sara Keyhani; Elke Duchardt-Ferner; Heiko Keller; Jens Wöhnert; Lars T Kuhn; Alexander L Breeze; Wolfgang Bermel; Harald Schwalbe; Boris Fürtig
Journal:  J Biomol NMR       Date:  2017-09-06       Impact factor: 2.835

6.  13C-direct detected NMR experiments for the sequential J-based resonance assignment of RNA oligonucleotides.

Authors:  Christian Richter; Helena Kovacs; Janina Buck; Anna Wacker; Boris Fürtig; Wolfgang Bermel; Harald Schwalbe
Journal:  J Biomol NMR       Date:  2010-06-11       Impact factor: 2.835

7.  NMR structure analysis of uniformly 13C-labeled carbohydrates.

Authors:  Carolina Fontana; Helena Kovacs; Göran Widmalm
Journal:  J Biomol NMR       Date:  2014-04-26       Impact factor: 2.835

8.  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

9.  Site-specific labeling of nucleotides for making RNA for high resolution NMR studies using an E. coli strain disabled in the oxidative pentose phosphate pathway.

Authors:  T Kwaku Dayie; Chandar S Thakur
Journal:  J Biomol NMR       Date:  2010-03-23       Impact factor: 2.835

10.  High-resolution NMR structure of an RNA model system: the 14-mer cUUCGg tetraloop hairpin RNA.

Authors:  Senada Nozinovic; Boris Fürtig; Hendrik R A Jonker; Christian Richter; Harald Schwalbe
Journal:  Nucleic Acids Res       Date:  2009-11-11       Impact factor: 16.971

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