A pseudocatenane structure formed between DNA and A cyclic bisintercalator

Yongjun Chu; David W. Hoffman; Brent L. Iverson

doi:10.1021/ja805676w

A pseudocatenane structure formed between DNA and A cyclic bisintercalator

Yongjun Chu, David W. Hoffman, Brent L. Iverson

Research output: Contribution to journal › Article › peer-review

25 Scopus citations

Abstract

Targeting double-stranded DNA with small molecules remains an active area of basic research. Herein is described a cyclic DNA bisintercalator that is based on two naphthalene diimide (NDI) intercalating units tethered by one linking element specific for binding in the minor groove and the other linking element specific for binding in the major groove. DNase I footprinting revealed a strong preference for binding the sequence 5-GGTACC-3. NMR structural studies of the complex with d(CGGTACCG) ₂ verified a pseudocatenane structure in which the NDI units reside four base pairs apart, with one linker segment located in the minor groove and the other in the major groove consistent with the linker designs. To the best of our knowledge, this is the first structurally well-characterized pseudocatenane complex between a sequence specific cyclic bisintercalator and intact DNA.

Original language	English (US)
Pages (from-to)	3499-3508
Number of pages	10
Journal	Journal of the American Chemical Society
Volume	131
Issue number	10
DOIs	https://doi.org/10.1021/ja805676w
State	Published - Mar 18 2009

ASJC Scopus subject areas

Catalysis
General Chemistry
Biochemistry
Colloid and Surface Chemistry

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abstract = "Targeting double-stranded DNA with small molecules remains an active area of basic research. Herein is described a cyclic DNA bisintercalator that is based on two naphthalene diimide (NDI) intercalating units tethered by one linking element specific for binding in the minor groove and the other linking element specific for binding in the major groove. DNase I footprinting revealed a strong preference for binding the sequence 5-GGTACC-3. NMR structural studies of the complex with d(CGGTACCG) 2 verified a pseudocatenane structure in which the NDI units reside four base pairs apart, with one linker segment located in the minor groove and the other in the major groove consistent with the linker designs. To the best of our knowledge, this is the first structurally well-characterized pseudocatenane complex between a sequence specific cyclic bisintercalator and intact DNA.",

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A pseudocatenane structure formed between DNA and A cyclic bisintercalator

Abstract

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