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000111910 0247_ $$2pmid$$apmid:22329743
000111910 0247_ $$2DOI$$a10.1021/ja211802z
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000111910 084__ $$2WoS$$aChemistry, Multidisciplinary
000111910 1001_ $$0P:(DE-HGF)0$$aSabir, T.$$b0
000111910 245__ $$aBranchpoint expansion in a fully-complementary three-way DNA junction.
000111910 260__ $$aWashington, DC$$bAmerican Chemical Society$$c2012
000111910 300__ $$a6280 - 6285
000111910 3367_ $$0PUB:(DE-HGF)16$$2PUB:(DE-HGF)$$aJournal Article
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000111910 440_0 $$025743$$aJournal of the American Chemical Society$$v134$$y14
000111910 500__ $$aWe thank the BBSRC for support (BB/G00269X/1); Claus Seidel, Ralf Kuhnemuth, and Stefan Marawske for assistance in developing our MFD setup; Suren Felekyan for help with data analysis; and Jochen Ark for assistance with experiments. S.W.M. acknowledges the award of an EPSRC advanced research fellowship (EP/D073154), and L.M. acknowledges the award of a CSC scholarship.
000111910 520__ $$aBranched nucleic acid molecules serve as key intermediates in DNA replication, recombination, and repair; architectural elements in RNA; and building blocks and functional components for nanoscience applications. Using a combination of high-resolution single-molecule FRET, time-resolved spectroscopy, and molecular modeling, we have probed the local and global structure of a DNA three-way junction (3WJ) in solution. We found that it adopts a Y-shaped, pyramidal structure, in which the bases adjacent to the branchpoint are unpaired, despite the full Watson-Crick complementarity of the molecule. The unpairing allows a nanoscale cavity to form at the junction center. Our structure accounts for earlier observations made of the structure, flexibility, and reactivity of 3WJs. We anticipate that these results will guide the development of new DNA-based supramolecular receptors and nanosystems.
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000111910 588__ $$aDataset connected to Web of Science, Pubmed
000111910 650_2 $$2MeSH$$aComputer Simulation
000111910 650_2 $$2MeSH$$aDNA: chemistry
000111910 650_2 $$2MeSH$$aFluorescence Resonance Energy Transfer: methods
000111910 650_2 $$2MeSH$$aHydrogen Bonding
000111910 650_2 $$2MeSH$$aIons
000111910 650_2 $$2MeSH$$aKinetics
000111910 650_2 $$2MeSH$$aMolecular Dynamics Simulation
000111910 650_2 $$2MeSH$$aNanotechnology: methods
000111910 650_2 $$2MeSH$$aNucleic Acid Conformation
000111910 650_2 $$2MeSH$$aNucleic Acids
000111910 650_2 $$2MeSH$$aNucleotides: chemistry
000111910 650_2 $$2MeSH$$aRNA: chemistry
000111910 650_2 $$2MeSH$$aReproducibility of Results
000111910 650_2 $$2MeSH$$aSpectrophotometry: methods
000111910 650_7 $$00$$2NLM Chemicals$$aIons
000111910 650_7 $$00$$2NLM Chemicals$$aNucleic Acids
000111910 650_7 $$00$$2NLM Chemicals$$aNucleotides
000111910 650_7 $$063231-63-0$$2NLM Chemicals$$aRNA
000111910 650_7 $$09007-49-2$$2NLM Chemicals$$aDNA
000111910 650_7 $$2WoSType$$aJ
000111910 7001_ $$0P:(DE-HGF)0$$aToulmin, A.$$b1
000111910 7001_ $$0P:(DE-HGF)0$$aMa, L.$$b2
000111910 7001_ $$0P:(DE-HGF)0$$aJones, A.C.$$b3
000111910 7001_ $$0P:(DE-HGF)0$$aMcGlynn, P.$$b4
000111910 7001_ $$0P:(DE-Juel1)132018$$aSchröder, G.F.$$b5$$uFZJ
000111910 7001_ $$0P:(DE-HGF)0$$aMagennis, S.W.$$b6
000111910 773__ $$0PERI:(DE-600)1472210-0$$a10.1021/ja211802z$$gVol. 134, p. 6280 - 6285$$p6280 - 6285$$q134<6280 - 6285$$tJournal of the American Chemical Society$$v134$$x0002-7863$$y2012
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