Structural Dynamics of the Box C/D RNA Kink-Turn and Its Complex with Proteins: The Role of the A-Minor 0 Interaction, Long-Residency Water Bridges, and Structural Ion-Binding Sites Revealed by Molecular Simulations

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Authors	ŠPAČKOVÁ Naděžda RÉBLOVÁ Kamila SPONER Jiri
Year of publication	2010
Type	Article in Periodical
Magazine / Source	Jouranl of Physical Chemistry B
MU Faculty or unit	Faculty of Science
Citation
Field	Biophysics
Keywords	RNA-protein complex; molecular dynamics; kink-turn; A-minor interaction
Description	The study is focused on investigation of Box C/D RNA Kink-Turn with two proteins: native archaeal L7ae protein and human 15.5 kDa protein. The simulations reveal structural details of the studied molecules on nanosecond time scale, i.e. structural dynamics of essential tertiary interaction within kink-turn, reduced kink-turn flexibility upon protein binding, structurally important water molecules and ion binding sites.
Related projects:	Proteins in metabolism and interaction of organisms with the environment