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dc.contributor.advisor Olson, John S.
dc.creatorXi, Zhijian (David)
dc.date.accessioned 2009-06-03T23:56:21Z
dc.date.available 2009-06-03T23:56:21Z
dc.date.issued 1995
dc.identifier.urihttp://hdl.handle.net/1911/16901
dc.description.abstract Multidimensional NMR techniques and $\sp{13}$C/$\sp{15}$N isotope labelling have been used to study the structural and dynamic properties of the trans-activation response (TAR) RNA element from HIV-1. Theoretical analysis of the anticodon loop region of yeast tRNA was first performed. High resolution structures were obtainable when coarse distance constraints and the CHARMm forcefield were employed. A medium resolution NMR structure of the active $\Delta$TAR 29mer RNA was also determined, revealing interesting conformations in the bulge and loop regions. The local atomic dynamics of $\Delta$TAR were examined with two-dimensional $\sp{13}$C-$\sp1$H NMR relaxation methods. Pulse sequences were developed to measure relaxation times in fully coupled RNA spin systems. Observed T$\sb1$, T$\sb2$ and NOE values were fit to various forms of the Lipari-Szabo motional model. The resulting order parameters and internal correlation times correlate strongly with local structural features of $\Delta$TAR. Studies on the solution structure of one natural occurring mutant of TAR, the HIVRF loop sequence, indicate that the TAR structure may adopt a more compact loop structure that cannot be fully determined with current NMR methods.
dc.format.extent 202 p.
dc.format.mimetype application/pdf
dc.language.iso eng
dc.subjectMolecular biology
Microbiology
Biophysics
Biology
dc.title Nuclear magnetic resonance studies of the HIV-1 trans-activation response RNA element
dc.type.genre Thesis
dc.type.material Text
thesis.degree.department Biology
thesis.degree.discipline Natural Sciences
thesis.degree.grantor Rice University
thesis.degree.level Doctoral
thesis.degree.name Doctor of Philosophy


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