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

0347728 - BFÚ 2011 RIV US eng J - Článek v odborném periodiku
Špačková, Naďa - Réblová, Kamila - Šponer, Jiří
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.
Journal of Physical Chemistry B. Roč. 114, č. 32 (2010), s. 10581-10593. ISSN 1520-6106. E-ISSN 1520-5207
Grant CEP: GA MŠMT(CZ) LC06030; GA AV ČR(CZ) KJB400040901; GA AV ČR(CZ) IAA400040802; GA ČR(CZ) GA203/09/1476
Výzkumný záměr: CEZ:AV0Z50040507; CEZ:AV0Z50040702
Klíčová slova: RNA-protein complex * molecular dynamics * kink-turn
Kód oboru RIV: BO - Biofyzika
Impakt faktor: 3.603, rok: 2010

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.
Trvalý link: http://hdl.handle.net/11104/0006032