Conformational transitions of the phosphodiester backbone in native DNA: two-dimensional magic-angle-spinning 31P-NMR of DNA fibers

Biophys J. 1997 Sep;73(3):1539-52. doi: 10.1016/S0006-3495(97)78186-4.

Abstract

Solid-state 31P-NMR is used to investigate the orientation of the phosphodiester backbone in NaDNA-, LiDNA-, MgDNA-, and NaDNA-netropsin fibers. The results for A- and B-DNA agree with previous interpretations. We verify that the binding of netropsin to NaDNA stabilizes the B form, and find that in NaDNA, most of the phosphate groups adopt a conformation typical of the A form, although there are minor components with phosphate orientations close to the B form. For LiDNA and MgDNA samples, on the other hand, we find phosphate conformations that are in variance with previous models. These samples display x-ray diffraction patterns that correspond to C-DNA. However, we find two distinct phosphate orientations in these samples, one resembling that in B-DNA, and one displaying a twist of the PO4 groups about the O3-P-O4 bisectors. The latter conformation is not in accordance with previous models of C-DNA structure.

Publication types

  • Comparative Study
  • Research Support, Non-U.S. Gov't

MeSH terms

  • Crystallography, X-Ray / methods
  • DNA / chemistry*
  • Lithium
  • Magnesium
  • Magnetic Resonance Spectroscopy / methods
  • Netropsin
  • Nucleic Acid Conformation*
  • Phosphorus
  • Sodium

Substances

  • Phosphorus
  • Netropsin
  • DNA
  • Lithium
  • Sodium
  • Magnesium