Skip Navigation

This Article
Right arrow Full Text Freely available
Right arrow Print PDF (326K) Freely available
Right arrow Alert me when this article is cited
Right arrow Alert me if a correction is posted
Services
Right arrow Email this article to a friend
Right arrow Similar articles in this journal
Right arrow Similar articles in ISI Web of Science
Right arrow Similar articles in PubMed
Right arrow Alert me to new issues of the journal
Right arrow Add to My Personal Archive
Right arrow Download to citation manager
Right arrow Search for citing articles in:
ISI Web of Science (13)
Right arrowRequest Permissions
Right arrow Commercial Re-use Guidelines
for Open Access NAR Content
Google Scholar
Right arrow Articles by Baumruk, V.
Right arrow Articles by Ghomi, M.
Right arrow Search for Related Content
PubMed
Right arrow PubMed Citation
Right arrow Articles by Baumruk, V.
Right arrow Articles by Ghomi, M.
Social Bookmarking
Add to CiteULike   Add to Connotea   Add to Del.icio.us  
What's this?

Nucleic Acids Research, 2001, Vol. 29, No. 19 4089-4096
© 2001 Oxford University Press

Comparison between CUUG and UUCG tetraloops: thermodynamic stability and structural features analyzed by UV absorption and vibrational spectroscopy

Vladimir Baumruk1,2, Catherine Gouyette3, Tam Huynh-Dinh3, Jian-Sheng Sun4 and Mahmoud Ghomi2,*

1Institute of Physics, Charles University, Ke Karlovu 5, 121 16 Prague 2, Czech Republic, 2Laboratoire de Physicochimie Biomoléculaire et Cellulaire, UMR CNRS 7033, Université Pierre et Marie Curie, Case 138, 4 Place Jussieu, 75252 Paris Cedex 05, France, 3Unité de Chimie Organique, URA CNRS 2128, Institut Pasteur, 28 rue du Docteur Roux, 75724 Paris Cedex 15, France and 4Laboratoire de Biophysique, UMR 8646 CNRS, Muséum National d’Histoire Naturelle, INSERM U201, 43 rue Cuvier, 75231 Paris Cedex 05, France

CUUG loop is one of the most frequently occurring tetraloops in bacterial 16S rRNA. This tetraloop has a high thermodynamic stability as proved by previous UV absorption and NMR experiments. Here, we present our results concerning the thermodynamic and structural features of the 10mer 5'-r(GCG-CUUG-CGC)-3', forming a highly stable CUUG tetraloop hairpin in aqueous solution, by means of several optical techniques (UV and FT-IR absorption, Raman scattering). UV melting profile of this decamer provides a high melting temperature (60.7°C). A set of Raman spectra recorded at different temperatures allowed us to analyze the order-to-disorder (hairpin-to-random coil) transition. Assignment of vibrational markers led us to confirm the particular nucleoside conformation, and to get information on the base stacking and base pairing in the hairpin structure. Moreover, comparison of the data obtained from two highly stable CUUG and UUCG tetraloops containing the same nucleotides but in a different order permitted an overall discussion of their structural features on the basis of Raman marker evidences.

* To whom correspondence should be addressed. Tel: +33 1 44277555; Fax: +33 1 44277560; Email: ghomi{at}lpbc.jussieu.fr


Add to CiteULike CiteULike   Add to Connotea Connotea   Add to Del.icio.us Del.icio.us    What's this?


This article has been cited by other articles:


Home page
 Nucleic Acids ResHome page
A. Apostolico, G. Ciriello, C. Guerra, C. E. Heitsch, C. Hsiao, and L. D. Williams
Finding 3D motifs in ribosomal RNA structures
Nucleic Acids Res., March 1, 2009; 37(4): e29 - e29.
[Abstract] [Full Text] [PDF]

Home page
 Nucleic Acids ResHome page
A. J. Hobro, M. Rouhi, E. W. Blanch, and G. L. Conn
Raman and Raman optical activity (ROA) analysis of RNA structural motifs in Domain I of the EMCV IRES
Nucleic Acids Res., February 28, 2007; 35(4): 1169 - 1177.
[Abstract] [Full Text] [PDF]

Home page
 Nucleic Acids ResHome page
N. N. Singh, R. N. Singh, and E. J. Androphy
Modulating role of RNA structure in alternative splicing of a critical exon in the spinal muscular atrophy genes
Nucleic Acids Res., January 28, 2007; 35(2): 371 - 389.
[Abstract] [Full Text] [PDF]

Home page
 RNAHome page
V. Reipa, G. Niaura, and D. H. Atha
Conformational analysis of the telomerase RNA pseudoknot hairpin by Raman spectroscopy
RNA, January 1, 2007; 13(1): 108 - 115.
[Abstract] [Full Text] [PDF]

Home page
 Nucleic Acids ResHome page
C. Hsiao, S. Mohan, E. Hershkovitz, A. Tannenbaum, and L. D. Williams
Single nucleotide RNA choreography
Nucleic Acids Res., March 10, 2006; 34(5): 1481 - 1491.
[Abstract] [Full Text] [PDF]

Home page
 Nucleic Acids ResHome page
L. R. Comolli, N. B. Ulyanov, A. M. Soto, L. A. Marky, T. L. James, and W. H. Gmeiner
NMR structure of the 3' stem-loop from human U4 snRNA
Nucleic Acids Res., October 15, 2002; 30(20): 4371 - 4379.
[Abstract] [Full Text] [PDF]


Disclaimer: Please note that abstracts for content published before 1996 were created through digital scanning and may therefore not exactly replicate the text of the original print issues. All efforts have been made to ensure accuracy, but the Publisher will not be held responsible for any remaining inaccuracies. If you require any further clarification, please contact our Customer Services Department.