Structure of a Dicationic Monoimidazole Lexitropsin Bound to DNA

David S. Goodsell, Ho Leung Ng, Mary L. Kopka, J. William Lown, Richard E. Dickerson

Research output: Contribution to journalArticle

36 Scopus citations

Abstract

An X-ray crystal structure has been solved of the complex of a dicationic lexitropsin with a B-DNA duplex of sequence CGCGAATTCGCG. The lexitropsin is identical to netropsin except for replacement of the first methylpyrrole ring by methylimidazole, converting a =CH- to =N-. Crystals are isomorphous with those of the DNA dodecamer in the absence of drug. Although the =N- for =CH- substitution was intended to make that locus on the drug molecule compatible with a G-C base pair, electrostatic attraction for the two cationic ends of the drug predominates, and this lexitropsin binds to the same central AATT site as does the parent netropsin. But unlike netropsin, this lexitropsin exhibits end-for-end disorder in the crystal. Both orientations were refined separately to completion. Final residual errors at 2.25 Å resolution for the 2358 reflections above 2σ in F are R = 0.165 for one orientation (LexA) with 37 water molecules and 0.164 for the inverted dmg orientation (LexB) with 40 water molecules. This molecular disorder is probably attributable to a weakening of binding to the AATT site occasioned by the imidazole-for-pyrrole substitution.

Original languageEnglish (US)
Pages (from-to)16654-16661
Number of pages8
JournalBiochemistry
Volume34
Issue number51
DOIs
StatePublished - Dec 1995
Externally publishedYes

All Science Journal Classification (ASJC) codes

  • Biochemistry

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    Goodsell, D. S., Ng, H. L., Kopka, M. L., Lown, J. W., & Dickerson, R. E. (1995). Structure of a Dicationic Monoimidazole Lexitropsin Bound to DNA. Biochemistry, 34(51), 16654-16661. https://doi.org/10.1021/bi00051a013