Conformation and dynamics of short dna duplexes: (dc-dg)3 and (dc-dg)4

Philip N. Borer, Nilo Zanatta, Tadeusz A. Holak, George C. Levy, Jacques H. Van Boom, Andrew H.J. Wang

Research output: Contribution to journalArticle

25 Scopus citations

Abstract

Natural abundance 13C NMR spectra of duplexed (dC-dG)3 and (dC-dG)4 exhibit resolved resonances for most of the carbons at 0.1M NaCl in aqueous solution. Large transitions in chemical shift for many of the hexamer carbons (up to 1.8 ppm) are observed in variable temperature measurements. Determination of spin-lattice relaxation times and nuclear Overhauser enhancements in 0.1M NaCl indicate that the duplexes tumble almost isotropically, with overall correlation times near 5 nsec; the sugar carbons experience more rapid local motions than do the base carbons. The relaxation data are also consistent with the most rapid local motions occurring at the chain-terminal residues, especially in the Cyd(l) sugar. 4M NaCl causes changes in the 13C chemical shifts of most of the guanine base carbons, and rearrangements in the deoxyribose carbon shifts; this is consistent with changes predicted by a salt-induced B to Z transition, viz. conversion of the guanylates from the anti to syn range about the glycosyl bond, and from the S to N pseudorotational state of the deoxyribose ring.

Original languageEnglish (US)
Pages (from-to)1373-1387
Number of pages15
JournalJournal of Biomolecular Structure and Dynamics
Volume1
Issue number6
DOIs
StatePublished - Jun 1984

ASJC Scopus subject areas

  • Structural Biology
  • Molecular Biology

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    Borer, P. N., Zanatta, N., Holak, T. A., Levy, G. C., Van Boom, J. H., & Wang, A. H. J. (1984). Conformation and dynamics of short dna duplexes: (dc-dg)3 and (dc-dg)4. Journal of Biomolecular Structure and Dynamics, 1(6), 1373-1387. https://doi.org/10.1080/07391102.1984.10507526