Literature DB >> 23883004

A geometrical parametrization of C1'-C5' RNA ribose chemical shifts calculated by density functional theory.

Reynier Suardíaz1, Aleksandr B Sahakyan, Michele Vendruscolo.   

Abstract

It has been recently shown that NMR chemical shifts can be used to determine the structures of proteins. In order to begin to extend this type of approach to nucleic acids, we present an equation that relates the structural parameters and the (13)C chemical shifts of the ribose group. The parameters in the equation were determined by maximizing the agreement between the DFT-derived chemical shifts and those predicted through the equation for a database of ribose structures. Our results indicate that this type of approach represents a promising way of establishing quantitative and computationally efficient analytical relationships between chemical shifts and structural parameters in nucleic acids.

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Year:  2013        PMID: 23883004     DOI: 10.1063/1.4811498

Source DB:  PubMed          Journal:  J Chem Phys        ISSN: 0021-9606            Impact factor:   3.488


  5 in total

1.  Accurate ab initio prediction of NMR chemical shifts of nucleic acids and nucleic acids/protein complexes.

Authors:  Andrea Victora; Heiko M Möller; Thomas E Exner
Journal:  Nucleic Acids Res       Date:  2014-11-17       Impact factor: 16.971

2.  Resolving sugar puckers in RNA excited states exposes slow modes of repuckering dynamics.

Authors:  Mary C Clay; Laura R Ganser; Dawn K Merriman; Hashim M Al-Hashimi
Journal:  Nucleic Acids Res       Date:  2017-08-21       Impact factor: 16.971

Review 3.  Advances in the determination of nucleic acid conformational ensembles.

Authors:  Loïc Salmon; Shan Yang; Hashim M Al-Hashimi
Journal:  Annu Rev Phys Chem       Date:  2013-12-16       Impact factor: 12.703

4.  Conformational and NMR study of some furan derivatives by DFT methods.

Authors:  David Santos-Carballal; Reynier Suardíaz; Rachel Crespo-Otero; Leandro González; Carlos S Pérez
Journal:  J Mol Model       Date:  2013-08-22       Impact factor: 1.810

5.  Chemical shifts-based similarity restraints improve accuracy of RNA structures determined via NMR.

Authors:  Chad Lawrence; Alexander Grishaev
Journal:  RNA       Date:  2020-09-11       Impact factor: 4.942

  5 in total

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