Journal
NUCLEIC ACIDS RESEARCH
Volume 47, Issue 3, Pages 1544-1556Publisher
OXFORD UNIV PRESS
DOI: 10.1093/nar/gky1167
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Funding
- National Natural Science Foundation of China [31600621, 21372223, U1232145]
- National Key Research and Development Program of China [2016YFA0400900]
- Hefei Science Center CAS [2012FXCX001]
- Major/Innovative Program of Development Foundation of Hefei Center for Physical Science and Technology [2018ZYFX004]
- Anhui Province Grant [1308085MC41]
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Aside from classical loops among G-quadruplexes, the unique leaped V-shape scaffold spans over three G-tetrads, without any intervening residues. This scaffold enables a sharp reversal of two adjacent strand directions and simultaneously participates in forming the G-tetrad core. These features make this scaffold itself distinctive and thus an essentially more accessible target. As an alternative to the conventional antisense method using a complementary chain, forming an intermolecular G-quadruplex from two different oligomers, in which the longer one as the target is captured by a short G-rich fragment, could be helpful for recognizing G-rich sequences and structural motifs. However, such an intermolecular leaped V-shape G-quadruplex consisting of DNA oligomers of quite different lengths has not been evaluated. Here, we present the first nuclear magnetic resonance (NMR) study of an asymmetric intermolecular leaped V-shape G-quadruplex assembled between an Oxytricha nova telomeric sequence d(G(2)T(4)G(4)T(4)G(4)) and a single G-tract fragment d(TG(4)A). Furthermore, we explored the selectivity of this short fragment as a potential probe, examined the kinetic discrimination for probing a specific mutant, and proposed the key sequence motif d(G2NG3NG4) essential for building the leaped V-shape G-quadruplexes.
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