Literature DB >> 16125393

Solution conformations of two naturally occurring RNA nucleosides: 3-methyluridine and 3-methylpseudouridine.

Jean-Paul Desaulniers1, Helen M-P Chui, Christine S Chow.   

Abstract

The conformations of 3-methyluridine and 3-methylpseudouridine are determined using a combination of sugar proton coupling constants from 1D NMR spectra and 1D NOE difference spectroscopy. Both C2'-endo and C3'-endo conformations are observed for 3-methyluridine (59:41, 37 degrees C, D2O) and 3-methylpseudouridine (51:49, 37 degrees C, D2O). 3-Methyluridine preferentially adopts an anti conformation in solution, whereas 3-methylpseudouridine is primarily in a syn conformation. anti/syn-Relationships are deduced by 1D NOE difference spectroscopy.

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Year:  2005        PMID： 16125393     DOI： 10.1016/j.bmc.2005.07.061

Source DB:  PubMed          Journal:  Bioorg Med Chem        ISSN： 0968-0896            Impact factor:   3.641


  7 in total

1.  Synthesis and solution conformation studies of the modified nucleoside N(4),2'-O-dimethylcytidine (m(4)Cm) and its analogues.

Authors:  Santosh K Mahto; Christine S Chow
Journal:  Bioorg Med Chem       Date:  2008-09-09       Impact factor: 3.641

2.  Reparameterization of RNA chi Torsion Parameters for the AMBER Force Field and Comparison to NMR Spectra for Cytidine and Uridine.

Authors:  Ilyas Yildirim; Harry A Stern; Scott D Kennedy; Jason D Tubbs; Douglas H Turner
Journal:  J Chem Theory Comput       Date:  2010-04-16       Impact factor: 6.006

3.  Synthesis and solution conformation studies of 3-substituted uridine and pseudouridine derivatives.

Authors:  Yu-Cheng Chang; Jayatilake Herath; Tony H-H Wang; Christine S Chow
Journal:  Bioorg Med Chem       Date:  2007-11-19       Impact factor: 3.641

4.  A Small Molecule that Binds an RNA Repeat Expansion Stimulates Its Decay via the Exosome Complex.

Authors:  Alicia J Angelbello; Raphael I Benhamou; Suzanne G Rzuczek; Shruti Choudhary; Zhenzhi Tang; Jonathan L Chen; Madhuparna Roy; Kye Won Wang; Ilyas Yildirim; Albert S Jun; Charles A Thornton; Matthew D Disney
Journal:  Cell Chem Biol       Date:  2020-11-05       Impact factor: 8.116

5.  2'-Methylseleno-modified oligoribonucleotides for X-ray crystallography synthesized by the ACE RNA solid-phase approach.

Authors:  Barbara Puffer; Holger Moroder; Michaela Aigner; Ronald Micura
Journal:  Nucleic Acids Res       Date:  2007-12-20       Impact factor: 16.971

6.  Additive CHARMM force field for naturally occurring modified ribonucleotides.

Authors:  You Xu; Kenno Vanommeslaeghe; Alexey Aleksandrov; Alexander D MacKerell; Lennart Nilsson
Journal:  J Comput Chem       Date:  2016-02-03       Impact factor: 3.376

7.  Data-informed reparameterization of modified RNA and the effect of explicit water models: application to pseudouridine and derivatives.

Authors:  Nivedita Dutta; Indrajit Deb; Joanna Sarzynska; Ansuman Lahiri
Journal:  J Comput Aided Mol Des       Date:  2022-03-26       Impact factor: 4.179
  7 in total

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