Nucleic Acids Research, Vol 27, Issue 15 3104-3110, Copyright © 1999 by Oxford University Press
J Wohnert, AJ Dingley, M Stoldt, M Gorlach, S Grzesiek and LR Brown
It is shown that the recently developed quantitative J(NN)HNN-COSY
experiment can be used for the direct identification of hydrogen bonds in
non-canonical base pairs in RNA. Scalar(2h)J(NN)couplings across NH.N
hydrogen bonds are observed in imino hydrogen bonded GA base pairs of the
hpGA RNA molecule, which contains a tandem GA mismatch, and in the reverse
Hoogsteen AU base pairs of the E-loop of Escherichia coli 5S rRNA. These
scalar couplings correlate the imino donor(15)N nucleus of guanine or
uridine with the acceptor N1 or N7 nucleus of adenine. The values of the
corresponding(2h)J(NN)coupling constants are similar in size to those
observed in Watson-Crick base pairs. The reverse Hoogsteen base pairs could
be directly detected for the E-loop of E.coli 5S rRNA both in the free form
and in a complex with the ribosomal protein L25. This supports the notion
that the E-loop is a pre-folded RNA recognition site that is not subject to
significant induced conformational changes. Since Watson-Crick GC and AU
base pairs are also readily detected the HNN-COSY experiment provides a
useful and sensitive tool for the rapid identification of RNA secondary
structure elements.
ARTICLES
Direct identification of NH...N hydrogen bonds in non-canonical base pairs of RNA by NMR spectroscopy
Abteilung Molekulare Biophysik/NMR-Spektroskopie, Institut fur Molekulare Biotechnologie e. V. Jena, Postfach 100813, 07708 Jena, Germany,
CiteULike 
Connotea 
Del.icio.us What's this?
This article has been cited by other articles:
|
|
 |
|
  M. M. Duszczyk, K. Zanier, and M. Sattler A NMR strategy to unambiguously distinguish nucleic acid hairpin and duplex conformations applied to a Xist RNA A-repeat Nucleic Acids Res., December 1, 2008; 36(22): 7068 - 7077. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
A. N. Lane, J. B. Chaires, R. D. Gray, and J. O. Trent Stability and kinetics of G-quadruplex structures Nucleic Acids Res., October 1, 2008; 36(17): 5482 - 5515. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
J. Noeske, H. Schwalbe, and J. Wohnert Metal-ion binding and metal-ion induced folding of the adenine-sensing riboswitch aptamer domain Nucleic Acids Res., August 7, 2007; (2007) gkm565v1. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
F. Joli, N. Bouchemal, A. Laigle, B. Hartmann, and E. Hantz Solution structure of a purine rich hexaloop hairpin belonging to PGY/MDR1 mRNA and targeted by antisense oligonucleotides Nucleic Acids Res., November 6, 2006; 34(20): 5740 - 5751. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
Q. Zhao, U. Nagaswamy, H. Lee, Y. Xia, H.-C. Huang, X. Gao, and G. E. Fox NMR structure and Mg2+ binding of an RNA segment that underlies the L7/L12 stalk in the E.coli 50S ribosomal subunit Nucleic Acids Res., June 6, 2005; 33(10): 3145 - 3153. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
H. Sotoya, A. Matsugami, T. Ikeda, K. Ouhashi, S. Uesugi, and M. Katahira Method for direct discrimination of intra- and intermolecular hydrogen bonds, and characterization of the G(:A):G(:A):G(:A):G heptad, with scalar couplings across hydrogen bonds Nucleic Acids Res., September 27, 2004; 32(17): 5113 - 5118. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
J. Leppert, C. R. Urbinati, S. Hafner, O. Ohlenschlager, M. S. Swanson, M. Gorlach, and R. Ramachandran Identification of NH...N hydrogen bonds by magic angle spinning solid state NMR in a double-stranded RNA associated with myotonic dystrophy Nucleic Acids Res., February 18, 2004; 32(3): 1177 - 1183. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
M. Hennig and J. R. Williamson Detection of N-H{middle dot}{middle dot}{middle dot}N hydrogen bonding in RNA via scalar couplings in the absence of observable imino proton resonances Nucleic Acids Res., April 1, 2000; 28(7): 1585 - 1593. [Abstract] [Full Text] [PDF]
|
|