Internal dynamics of tRNA(Phe) studied by depolarized dynamic light scattering

Biopolymers
A PatkowskiT Dorfmüller

Abstract

The collective internal dynamics of transfer RNA(Phe) from brewer's yeast in solution was studied by depolarized dynamic light scattering (DDLS). Within the melting region of tRNA the depolarized spectra consist of two Lorentzian, where the narrow (slow) component describes the overall rotation of the macromolecule. The broad component is attributed to the collective reorientation of the bases within the biopolymer. At high temperature only this relaxation process is observed in the spectrum. The viscosity dependence of the collective internal relaxation process is described by the Stokes-Einstein-Debye equation for rotational diffusion. Estimates of the internal orientational pair correlation factor from the integral depolarized intensities of tRNA(Phe) solutions indicates that the observed dynamics correspond to the collective reorientation of approximately 5 bases. A comparison of the results presented with DDLS studies on the aggregation of the mononucleotide guanosine-5'-monophosphate confirms this result. For a further characterization of the relaxation process we studied the effect of hydrostatic pressure (1-1000 bar) on the depolarized spectra of tRNA. While other spectroscopic methods like nmr, fluorescence polarizatio...Continue Reading

References

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Citations

Aug 24, 2010·Journal of Fluorescence·Woo Suk HwangJung Sook Kang
Jun 1, 1999·Journal of Biological Physics·S G KamzolovaS S Kamzalov
Oct 1, 2011·Nature Protocols·Maximillian H BailorHashim M Al-Hashimi
Jan 11, 2003·Biotechnology & Genetic Engineering Reviews·Antonio D Molina-García
Feb 11, 1994·Nucleic Acids Research·S Nakamura, J Doi
Mar 6, 2008·Applied Optics·G Chirico, M Gardella

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