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Mg2+-induced variations in the conformation and dynamics of HIV-1 TAR RNA probed using NMR residual dipolar couplings.

Publication ,  Journal Article
Al-Hashimi, HM; Pitt, SW; Majumdar, A; Xu, W; Patel, DJ
Published in: J Mol Biol
June 20, 2003

The effects of divalent Mg(2+) on the conformation and dynamics of the stem-loop transactivation response element (TAR) RNA from HIV-1 have been characterized using NMR residual dipolar couplings (RDCs). Order matrix analysis of one bond 13C-1H RDCs measured in TAR at [Mg(2+)]:[TAR] stoichiometric ratios of approximately 3:1 (TAR(3.0Mg)) and approximately 4.5:1 (TAR(4.5Mg)) revealed that Mg(2+) reduces the average inter-helical angle from 47(+/-5) degrees in TAR(free) to 5(+/-7) degrees in TAR(4.5Mg). In contrast to the TAR(free) state, the generalized degree of order for the two stems in TAR(4.5Mg) is found to be identical within experimental uncertainty, indicating that binding of Mg(2+) leads to an arrest of inter-helical motions in TAR(free). Results demonstrate that RDC-NMR methodology can provide new insight into the effects of Mg(2+) on both the conformation and dynamics of RNA.

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Published In

J Mol Biol

DOI

ISSN

0022-2836

Publication Date

June 20, 2003

Volume

329

Issue

5

Start / End Page

867 / 873

Location

Netherlands

Related Subject Headings

  • Solutions
  • RNA, Viral
  • Nucleic Acid Conformation
  • Models, Molecular
  • Magnetic Resonance Spectroscopy
  • Magnesium
  • HIV-1
  • HIV Long Terminal Repeat
  • Biochemistry & Molecular Biology
  • 3107 Microbiology
 

Citation

APA
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ICMJE
MLA
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Al-Hashimi, H. M., Pitt, S. W., Majumdar, A., Xu, W., & Patel, D. J. (2003). Mg2+-induced variations in the conformation and dynamics of HIV-1 TAR RNA probed using NMR residual dipolar couplings. J Mol Biol, 329(5), 867–873. https://doi.org/10.1016/s0022-2836(03)00517-5
Al-Hashimi, Hashim M., Stephen W. Pitt, Ananya Majumdar, Weijun Xu, and Dinshaw J. Patel. “Mg2+-induced variations in the conformation and dynamics of HIV-1 TAR RNA probed using NMR residual dipolar couplings.J Mol Biol 329, no. 5 (June 20, 2003): 867–73. https://doi.org/10.1016/s0022-2836(03)00517-5.
Al-Hashimi HM, Pitt SW, Majumdar A, Xu W, Patel DJ. Mg2+-induced variations in the conformation and dynamics of HIV-1 TAR RNA probed using NMR residual dipolar couplings. J Mol Biol. 2003 Jun 20;329(5):867–73.
Al-Hashimi, Hashim M., et al. “Mg2+-induced variations in the conformation and dynamics of HIV-1 TAR RNA probed using NMR residual dipolar couplings.J Mol Biol, vol. 329, no. 5, June 2003, pp. 867–73. Pubmed, doi:10.1016/s0022-2836(03)00517-5.
Al-Hashimi HM, Pitt SW, Majumdar A, Xu W, Patel DJ. Mg2+-induced variations in the conformation and dynamics of HIV-1 TAR RNA probed using NMR residual dipolar couplings. J Mol Biol. 2003 Jun 20;329(5):867–873.
Journal cover image

Published In

J Mol Biol

DOI

ISSN

0022-2836

Publication Date

June 20, 2003

Volume

329

Issue

5

Start / End Page

867 / 873

Location

Netherlands

Related Subject Headings

  • Solutions
  • RNA, Viral
  • Nucleic Acid Conformation
  • Models, Molecular
  • Magnetic Resonance Spectroscopy
  • Magnesium
  • HIV-1
  • HIV Long Terminal Repeat
  • Biochemistry & Molecular Biology
  • 3107 Microbiology