PMID: 6166319May 12, 1981Paper

Advanced nuclear magnetic resonance lanthanide probe analyses of short-range conformational interrelations controlling ribonucleic acid structures

Biochemistry
S YokoyamaT Miyazawa

Abstract

An advanced method was developed for lanthanide-probe analyses of the conformations of flexible biomolecules such as nucleotides. The new method is to determine structure parameters (such as internal-rotation angles) and population parameters for local conformational equilibria of flexible sites, together with standard deviations of these parameters. As the prominent advantage of this method, the interrelations among local conformations of flexible sites may be quantitatively elucidated from the experimental data of lanthanide-induced shifts and relaxations and vicinal coupling constants. As a structural unit of ribonucleic acids, the molecular conformations and conformational equilibria of uridine 3'-monophosphate in aqueous solution were analyzed. The stable local conformers about the C3'-O3' bond are the G+ (phi' = 281 +/- 11 degrees) and G- (phi' = 211 +/- 8 degrees) forms. The internal rotation about the C3'-O3' bond and the ribose-ring puckering are interrelated; 97 +/- 5% of the C3'-endo ribose ring is associated with the G- form while 70 +/- 22% o the C2'-endo ribose ring is associated with the G+ form. An interdependency also exists between the internal rotation about the C4'-C5' bond and the ribose-ring puckering. The...Continue Reading

References

Dec 1, 1979·Proceedings of the National Academy of Sciences of the United States of America·M E Hogan, O Jardetzky
Nov 28, 1979·Biochemical and Biophysical Research Communications·K WatanabeT Miyazawa
May 14, 1975·Journal of the American Chemical Society·B BirdsallJ Thornton
Jun 9, 1976·Journal of the American Chemical Society·C H Lee, R H Sarma
Jul 12, 1972·Journal of the American Chemical Society·T A Wittstruck

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Citations

Aug 1, 1985·Proceedings of the National Academy of Sciences of the United States of America·S YokoyamaT Miyazawa
Dec 4, 2010·Journal of Biochemistry·Gota Kawai, Shigeyuki Yokoyama
Mar 15, 1996·Nucleic Acids Research·J J DallugeD R Davis
Apr 5, 2017·Biomolecules·Christian LorenzMario Mörl
Jul 28, 1995·The Journal of Biological Chemistry·J A KowalakJ A McCloskey
Jan 30, 2021·The FEBS Journal·Takeshi Chujo, Kazuhito Tomizawa
Jan 9, 2009·The Journal of Physical Chemistry. B·Zuzana VokácováVladimír Sychrovský
Mar 1, 1997·Journal of Bacteriology·J J DallugeJ A McCloskey
Feb 27, 2019·Journal of Chemical Theory and Computation·Michael J RobertsonWilliam L Jorgensen
Jan 13, 2018·Journal of Chemical Theory and Computation·Hamed S HayatshahiThomas E Cheatham
Nov 10, 2006·The Journal of Physical Chemistry. B·Vladimír SychrovskýBohdan Schneider

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