Nucleic Acids Research, Vol 26, Issue 20 4688-4695, Copyright © 1998 by Oxford University Press
LR Comolli, JG Pelton and I Tinoco Jr
An RNA 'kissing' complex is formed by the association of two hairpins via
base pairing of their complementary loops. This sense-antisense RNA motif
is used in the regulation of many cellular processes, including Escherichia
coli ColE1 plasmid copy number. The RNA one modulator protein (Rom) acts as
a co-regulator of ColE1 plasmid copy number by binding to the kissing
hairpins and stabilizing their interaction. We have used heteronuclear
two-dimensional NMR spectroscopy to map the interface between Rom and a
kissing complex formed by the loop of the trans -activation response (Tar)
element of immunodeficiency virus 1 (HIV-1) and its complement. The protein
binding interface was obtained from changes in amide proton signals of
uniformly 15N-labeled Rom with increasing concentrations of unlabeled
Tar-Tar*. Similarly, the RNA- binding interface was obtained from changes
in imino proton signals of uniformly 15N-labeled Tar with increasing
concentrations of unlabeled Rom. Our results are in agreement with previous
mutagenesis studies and provide additional information on Rom residues
involved in RNA binding. The kissing hairpin interface with Rom leads to a
model in which the protein contacts the minor groove of the loop-loop helix
and, to a lesser extent, the major groove of the stems.
ARTICLES
Mapping of a protein-RNA kissing hairpin interface: Rom and Tar-Tar*
Department of Chemistry, University of California at Berkeley and Structural Biology Department, Physical Biosciences Division, Lawrence Berkeley National Laboratory, Berkeley, CA 94720-1460, USA.
CiteULike 
Connotea 
Del.icio.us What's this?
This article has been cited by other articles:
|
|
 |
|
  I. Lebars, P. Legrand, A. Aime, N. Pinaud, S. Fribourg, and C. Di Primo Exploring TAR-RNA aptamer loop-loop interaction by X-ray crystallography, UV spectroscopy and surface plasmon resonance Nucleic Acids Res., December 1, 2008; 36(22): 7146 - 7156. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 S. Dalal, D. Canet, S. E. Kaiser, C. M. Dobson, and L. Regan Conservation of mechanism, variation of rate: folding kinetics of three homologous four-helix bundle proteins Protein Eng. Des. Sel., March 1, 2008; 21(3): 197 - 206. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 D. Christ and G. Winter Identification of functional similarities between proteins using directed evolution PNAS, November 11, 2003; 100(23): 13202 - 13206. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
F. Beaurain, C. Di Primo, J. J. Toulme, and M. Laguerre Molecular dynamics reveals the stabilizing role of loop closing residues in kissing interactions: comparison between TAR-TAR* and TAR-aptamer Nucleic Acids Res., July 15, 2003; 31(14): 4275 - 4284. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
P. Fojtik and M. Vorlickova The fragile X chromosome (GCC) repeat folds into a DNA tetraplex at neutral pH Nucleic Acids Res., November 15, 2001; 29(22): 4684 - 4690. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
F. A. Kolb, E. Westhof, C. Ehresmann, B. Ehresmann, E. G. H. Wagner, and P. Romby Bulged residues promote the progression of a loop-loop interaction to a stable and inhibitory antisense-target RNA complex Nucleic Acids Res., August 1, 2001; 29(15): 3145 - 3153. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
A. A. Andersen and R. A. Collins Intramolecular secondary structure rearrangement by the kissing interaction of the Neurospora VS ribozyme PNAS, June 20, 2001; (2001) 141039198. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
Y. Ding and C. E. Lawrence Statistical prediction of single-stranded regions in RNA secondary structure and application to predicting effective antisense target sites and beyond Nucleic Acids Res., March 1, 2001; 29(5): 1034 - 1046. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
A. A. Andersen and R. A. Collins Intramolecular secondary structure rearrangement by the kissing interaction of the Neurospora VS ribozyme PNAS, July 3, 2001; 98(14): 7730 - 7735. [Abstract] [Full Text] [PDF]
|
|