Boisbouvier Jerome, Wu Zhengrong, Ono Arika, Kainosho Masatsune, Bax Ad
Laboratory of Chemical Physics, National Institute of Diabetes and Digestive and Kidney Diseases, National Institutes of Health, Bethesda, MD 20892-0520, U.S.A.
J Biomol NMR. 2003 Oct;27(2):133-42. doi: 10.1023/a:1024931619957.
Rotational diffusion properties have been derived for the DNA dodecamer d(CGCGAATTCGCG)(2) from (13)C R(1rho) and R(1) measurements on the C(1'), C(3'), and C(4') carbons in samples uniformly enriched in (13)C. The narrow range of C-H bond vector orientations relative to the DNA axis make the analysis particularly sensitive to small structural deviations. As a result, the R(1rho)/R(1) ratios are found to fit poorly to the crystal structures of this dodecamer, but well to a recent solution NMR structure, determined in liquid crystalline media, even though globally the structures are quite similar. A fit of the R(1rho)/R(1) ratios to the solution structure is optimal for an axially symmetric rotational diffusion model, with a diffusion anisotropy, D(|)/D(perpendicular), of 2.1+/-0.4, and an overall rotational correlation time, (2D(|)+4D(perpendicular))(-1), of 3.35 ns at 35 degrees C in D(2)O, in excellent agreement with values obtained from hydrodynamic modeling.
