Dynamics of the base of ribosomal A-site finger revealed by molecular dynamics simulations and Cryo-EM.

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Authors	RÉBLOVÁ Kamila RÁZGA Filip LI Wen GAO Haixiao FRANK Joachim ŠPONER Jiří
Year of publication	2010
Type	Article in Periodical
Magazine / Source	Nucleic Acids Research
MU Faculty or unit	Faculty of Science
Citation
Field	Physical chemistry and theoretical chemistry
Keywords	Kink-turn; RNA flexibility; Molecular Dynamics; Ribosome function
Description	We carried out molecular dynamics simulations of the base of the A-site finger from archaeal and three bacterial large subunits. The study showed that despite noticeable differences in the secondary structures, the studied segments adopt almost identical fold and exhibit similar stochastic fluctuations. Geometries of segments from the simulations correspond to structures obtained by Cryo-electron microscopy.
Related projects:	Proteins in metabolism and interaction of organisms with the environment