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Junctions between i-motif tetramers in supramolecular structures.

Guittet E, Renciuk D, Leroy JL - Nucleic Acids Res. (2012)

Bottom Line: The symmetry of i-motif tetramers gives to cytidine-rich oligonucleotides the capacity to associate into supramolecular structures (sms).We show that a stretch of only two cytidines either at the 3'- or 5'-end is long enough to link the tetramers into sms.The analysis of the properties of sms formed by oligonucleotides differing by the length of the oligo-C stretches, the sequence orientation and the nature of the non-C base provides a model of the junction connecting the tetramers in sms.

View Article: PubMed Central - PubMed

Affiliation: Laboratoire de Chimie et Biologie Structurales, Institut de Chimie des Substances Naturelles, Gif-sur-Yvette, France.

ABSTRACT
The symmetry of i-motif tetramers gives to cytidine-rich oligonucleotides the capacity to associate into supramolecular structures (sms). In order to determine how the tetramers are linked together in such structures, we have measured by gel filtration chromatography and NMR the formation and dissociation kinetics of sms built by oligonucleotides containing two short C stretches separated by a non-cytidine-base. We show that a stretch of only two cytidines either at the 3'- or 5'-end is long enough to link the tetramers into sms. The analysis of the properties of sms formed by oligonucleotides differing by the length of the oligo-C stretches, the sequence orientation and the nature of the non-C base provides a model of the junction connecting the tetramers in sms.

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Evolution versus time at 42°C of the sms (red), tetramer (cyan) and monomer + dimer (green) fractions in a 1 mM C3TC3 solution initially monomeric. Sms accumulation in the early stage of the kinetics and final disappearance is typical of kinetics trapping.
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gks161-F4: Evolution versus time at 42°C of the sms (red), tetramer (cyan) and monomer + dimer (green) fractions in a 1 mM C3TC3 solution initially monomeric. Sms accumulation in the early stage of the kinetics and final disappearance is typical of kinetics trapping.

Mentions: The evolution of the species observed in a 1 mM C3TC3 solution during incubation at 42°C gives a valuable indication about the sms formation pathway (Figure 4). The sms fraction first increases with an initial formation rate about one-half that of the tetramer, reaches a maximum value of 20% and slowly decreases to zero while the tetramer fraction increases towards a limit value of ∼75%.Figure 4.


Junctions between i-motif tetramers in supramolecular structures.

Guittet E, Renciuk D, Leroy JL - Nucleic Acids Res. (2012)

Evolution versus time at 42°C of the sms (red), tetramer (cyan) and monomer + dimer (green) fractions in a 1 mM C3TC3 solution initially monomeric. Sms accumulation in the early stage of the kinetics and final disappearance is typical of kinetics trapping.
© Copyright Policy - creative-commons
Related In: Results  -  Collection

License
Show All Figures
getmorefigures.php?uid=PMC3367196&req=5

gks161-F4: Evolution versus time at 42°C of the sms (red), tetramer (cyan) and monomer + dimer (green) fractions in a 1 mM C3TC3 solution initially monomeric. Sms accumulation in the early stage of the kinetics and final disappearance is typical of kinetics trapping.
Mentions: The evolution of the species observed in a 1 mM C3TC3 solution during incubation at 42°C gives a valuable indication about the sms formation pathway (Figure 4). The sms fraction first increases with an initial formation rate about one-half that of the tetramer, reaches a maximum value of 20% and slowly decreases to zero while the tetramer fraction increases towards a limit value of ∼75%.Figure 4.

Bottom Line: The symmetry of i-motif tetramers gives to cytidine-rich oligonucleotides the capacity to associate into supramolecular structures (sms).We show that a stretch of only two cytidines either at the 3'- or 5'-end is long enough to link the tetramers into sms.The analysis of the properties of sms formed by oligonucleotides differing by the length of the oligo-C stretches, the sequence orientation and the nature of the non-C base provides a model of the junction connecting the tetramers in sms.

View Article: PubMed Central - PubMed

Affiliation: Laboratoire de Chimie et Biologie Structurales, Institut de Chimie des Substances Naturelles, Gif-sur-Yvette, France.

ABSTRACT
The symmetry of i-motif tetramers gives to cytidine-rich oligonucleotides the capacity to associate into supramolecular structures (sms). In order to determine how the tetramers are linked together in such structures, we have measured by gel filtration chromatography and NMR the formation and dissociation kinetics of sms built by oligonucleotides containing two short C stretches separated by a non-cytidine-base. We show that a stretch of only two cytidines either at the 3'- or 5'-end is long enough to link the tetramers into sms. The analysis of the properties of sms formed by oligonucleotides differing by the length of the oligo-C stretches, the sequence orientation and the nature of the non-C base provides a model of the junction connecting the tetramers in sms.

Show MeSH
Related in: MedlinePlus