Conformational Transitions of Flanking Purines in HIV-1 RNA Dimerization Initiation Site Kissing Complexes Studied by Charmm Explicit Solvent Molecular Dynamics

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Authors	SARZYNSKA Joanna REBLOVA Kamila SPONER Jiri KULINSKI Tadeusz
Year of publication	2008
Type	Article in Periodical
Magazine / Source	Biopolymers
MU Faculty or unit	Faculty of Science
Citation
Field	Biophysics
Keywords	molecular dynamics methods; RNA
Description	Study of flanking bases in RNA kissing loop complexes using Charmm force field shows good agreement with experiments carried out by Amber and with X-ray crystalography. The study describes multiple conformations, which flanking bases may adopt on nanosecond time scale.
Related projects:	Proteins in metabolism and interaction of organisms with the environment