RNA DNA discrimination by the antitermination protein NusB

Mühlberger, René, Robelek, Rudolf, Eisenreich, Wolfgang, Ettenhuber, Christian, Sinner, Eva Kathrin, Kessler, Horst, Bacher, Adelbert and Richter, Gerald 2003. RNA DNA discrimination by the antitermination protein NusB. Journal of molecular biology 327 (5) , pp. 973-983. 10.1016/S0022-2836(03)00213-4

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Abstract

The regulation of ribosomal RNA biosynthesis in Escherichia coli by antitermination requires binding of NusB protein to a dodecamer sequence designated boxA on the nascent RNA. The affinity of NusB protein for boxA RNA exceeds that for the homologous DNA segment by more than three orders of magnitude as shown by surface plasmon resonance measurements. DNA RNA discrimination by NusB protein was shown to involve methyl groups (i.e. discrimination of uracil versus thymine) and 2′ hydroxyl groups (i.e. discrimination of ribose versus deoxyribose side-chains) in the RNA motif. Ligand perturbation experiments monitored by 1H15N correlation NMR experiments identified amide NH groups whose chemical shifts are affected selectively by ribose/deoxyribose exchange in the 5′ and the central part of the dodecameric boxA motif respectively. The impact of structural modification of the boxA motif on the affinity for NusB protein as observed by 1H15N heterocorrelation was analysed by a generic algorithm.

Item Type:	Article
Date Type:	Publication
Status:	Published
Schools:	Chemistry
Uncontrolled Keywords:	Antitermination ; NMR spectroscopy ; Surface plasmon resonance spectroscopy ; Protein RNA interaction ; DNA RNA discrimination
Publisher:	Elsevier
ISSN:	00222836
Last Modified:	29 Apr 2016 01:33
URI:	https://orca.cardiff.ac.uk/id/eprint/1381

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