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


Authors: Al-Hashimi, H.; Pitt, S. W.; Majumdar, A.; Xu, W.; Patel, D. J.
Article Title: Mg2+-induced variations in the conformation and dynamics of HIV-1 TAR RNA probed using NMR residual dipolar couplings
Abstract: The effects of divalent Mg2+ 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 [Mg2+]:[TAR] stoichiometric ratios of ∼3:1 (TAR(3.0Mg)) and ∼4.5:1 (TAR(4.5Mg)) revealed that Mg2+ reduces the average inter-helical angle from 47(±5)° in TAR(free) to 5(±7)° 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 Mg2+ 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 Mg2+ on both the conformation and dynamics of RNA. © 2003 Elsevier Science Ltd. All rights reserved.
Keywords: genetics; nonhuman; methodology; metabolism; chemistry; virus rna; nucleic acids; magnetic resonance spectroscopy; nuclear magnetic resonance spectroscopy; hydrogen bond; models, molecular; solutions; chemical structure; conformation; nucleic acid conformation; rna structure; dna helix; dna responsive element; solution and solubility; rna, viral; human immunodeficiency virus 1; hiv-1; stoichiometry; long terminal repeat; magnesium; hiv long terminal repeat; rna folding; priority journal; article; collective motions; divalent metal ions; transactivation response element; transactivation responsive element
Journal Title: Journal of Molecular Biology
Volume: 329
Issue: 5
ISSN: 0022-2836
Publisher: Academic Press Inc., Elsevier Science  
Date Published: 2003-06-20
Start Page: 867
End Page: 873
Language: English
DOI: 10.1016/s0022-2836(03)00517-5
PUBMED: 12798678
PROVIDER: scopus
PMCID: PMC4692374
DOI/URL:
Notes: Export Date: 12 September 2014 -- Source: Scopus
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MSK Authors
  1. Dinshaw J Patel
    392 Patel
  2. Stephen William Pitt
    3 Pitt
  3. Wei-Jun   Xu
    7 Xu