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복잡계자기조립연구단
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Two conformational states in D-shaped DNA: Effects of local denaturation

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dc.contributor.authorO.-chul Lee-
dc.contributor.authorKim C.-
dc.contributor.authorKim J.-Y.-
dc.contributor.authorLee N.K.-
dc.contributor.authorWokyung Sung-
dc.date.available2016-08-08T07:39:43Z-
dc.date.created2016-07-18ko
dc.date.issued2016-06-
dc.identifier.issn2045-2322-
dc.identifier.urihttps://pr.ibs.re.kr/handle/8788114/2719-
dc.description.abstractThe bending of double-stranded(ds) DNA on the nano-meter scale plays a key role in many cellular processes such as nucleosome packing, transcription-control, and viral-genome packing. In our recent study, a nanometer-sized dsDNA bent into a D shape was formed by hybridizing a circular single-stranded(ss) DNA and a complementary linear ssDNA. Our fluorescence resonance energy transfer (FRET) measurement of D-DNA revealed two types of conformational states: a less-bent state and a kinked state, which can transform into each other. To understand the origin of the two deformed states of D-DNA, here we study the presence of open base-pairs in the ds portion by using the breathing-DNA model to simulate the system. We provide strong evidence that the two states are due to the emergence of local denaturation, i.e., a bubble in the middle and two forks at ends of the dsDNA portion. We also study the system analytically and find that the free-energy landscape is bistable with two minima representative of the two states. The kink and fork sizes estimated by the analytical calculation are also in excellent agreement with the results of the simulation. Thus, this combined experimental-simulation-analytical study corroborates that highly bent D-DNA reduces bending stress via local denaturation.-
dc.description.uri1-
dc.language영어-
dc.publisherNATURE PUBLISHING GROUP-
dc.titleTwo conformational states in D-shaped DNA: Effects of local denaturation-
dc.typeArticle-
dc.type.rimsART-
dc.identifier.wosid000378483600001-
dc.identifier.scopusid2-s2.0-84975702016-
dc.identifier.rimsid56110ko
dc.date.tcdate2018-10-01-
dc.contributor.affiliatedAuthorO.-chul Lee-
dc.contributor.affiliatedAuthorWokyung Sung-
dc.identifier.doi10.1038/srep28239-
dc.identifier.bibliographicCitationSCIENTIFIC REPORTS, v.6, pp.28239-
dc.citation.titleSCIENTIFIC REPORTS-
dc.citation.volume6-
dc.citation.startPage28239-
dc.date.scptcdate2018-10-01-
dc.description.scptc0-
dc.description.journalClass1-
dc.description.journalRegisteredClassscie-
dc.description.journalRegisteredClassscopus-
Appears in Collections:
Center for Self-assembly and Complexity(복잡계 자기조립 연구단) > 1. Journal Papers (저널논문)
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