Reference : G-Quadruplex DNA Assemblies: Loop Length, Cation Identity, and Multimer Formation
Scientific journals : Article
Physical, chemical, mathematical & earth Sciences : Chemistry
Life sciences : Biochemistry, biophysics & molecular biology
http://hdl.handle.net/2268/397
G-Quadruplex DNA Assemblies: Loop Length, Cation Identity, and Multimer Formation
English
Smargiasso, Nicolas mailto [Université de Liège - ULg > Département de chimie (sciences) > Chimie physique, spectrométrie de masse >]
Rosu, Frédéric [Université de Liège - ULg > Département de chimie (sciences) > Chimie physique, spectrométrie de masse >]
Hsia, Wei [Université de Liège - ULg > Département de Chimie (sciences) > Chimie physique biologique > >]
Colson, Pierre mailto [Université de Liège - ULg > Département de chimie (sciences) > Chimie physique biologique >]
Baker, Erin Shammel [University of California, Santa Barbara > Department of Chemistry and Biochemistry > > >]
Bowers, Michael T [University of California, Santa Barbara > Department of Chemistry and Biochemistry > > >]
De Pauw, Edwin mailto [Université de Liège - ULg > Département de chimie (sciences) > Chimie physique, spectrométrie de masse >]
Gabelica, Valérie mailto [Université de Liège - ULg > Département de chimie (sciences) > Chimie physique, spectrométrie de masse >]
2008
Journal of the American Chemical Society
American Chemical Society
130
31
10208-10216
Yes
International
0002-7863
1520-5126
Washington
DC
[en] G-quadruplex ; mass spectrometry ; DNA ; structural biology ; ion mobility ; spectroscopy
[en] G-rich DNA sequences are able to fold into structures called G-quadruplexes. To obtain general trends in the influence of loop length on the structure and stability of G-quadruplex structures, we studied oligodeoxynucleotides with random bases in the loops. Sequences studied are dGGGWiGGGWjGGGWkGGG, with W = thymine or adenine with equal probability, and i, j, and k comprised between 1 and 4. All were studied by circular dichroism, native gel electrophoresis, UV-monitored thermal denaturation, and electrospray mass spectrometry, in the presence of 150 mM potassium, sodium, or ammonium cations. Parallel conformations are favored by sequences with short loops, but we also found that sequences with short loops form very stable multimeric quadruplexes, even at low strand concentration. Mass spectrometry reveals the formation of dimers and trimers. When the loop length increases, preferred quadruplex conformations tend to be more intramolecular and antiparallel. The nature of the cation also has an influence on the adopted structures, with K+ inducing more parallel multimers than NH4+ and Na+. Structural possibilities are discussed for the new quadruplex higher-order assemblies.
Giga-Systems Biology and Chemical Biology
Fonds de la Recherche Scientifique (Communauté française de Belgique) - F.R.S.-FNRS ; Fonds pour la formation à la Recherche dans l'Industrie et dans l'Agriculture (Communauté française de Belgique) - FRIA
Researchers
http://hdl.handle.net/2268/397
10.1021/ja801535e

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