About: Understanding RNA flexibility using explicit solvent simulations: The ribosomal and group I intron reverse kink-turn motifs

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rdf:type	skos:Concept http://linked.opendata.cz/ontology/domain/vavai/Vysledek
Description	We report unrestrained, explicit solvent molecular dynamics simulations of ribosomal and intron reverse kink-turns (54 simulations in total) with different variants (ff94, ff99, ff99bsc0, ff99chiOL, and ff99bsc0chiOL) of the Cornell et al. force field. The simulations characterize the directional intrinsic flexibility of reverse kink-turns pertinent to their folded functional geometries. We report unrestrained, explicit solvent molecular dynamics simulations of ribosomal and intron reverse kink-turns (54 simulations in total) with different variants (ff94, ff99, ff99bsc0, ff99chiOL, and ff99bsc0chiOL) of the Cornell et al. force field. The simulations characterize the directional intrinsic flexibility of reverse kink-turns pertinent to their folded functional geometries. (en)
Title	Understanding RNA flexibility using explicit solvent simulations: The ribosomal and group I intron reverse kink-turn motifs Understanding RNA flexibility using explicit solvent simulations: The ribosomal and group I intron reverse kink-turn motifs (en)
skos:prefLabel	Understanding RNA flexibility using explicit solvent simulations: The ribosomal and group I intron reverse kink-turn motifs Understanding RNA flexibility using explicit solvent simulations: The ribosomal and group I intron reverse kink-turn motifs (en)
skos:notation	RIV/68081707:_____/11:00370399!RIV12-AV0-68081707
http://linked.open...avai/predkladatel	Biofyzikální ústav AV ČR, v.v.i.
http://linked.open...avai/riv/aktivita	P S Z
http://linked.open...avai/riv/aktivity	P(ED2.1.00/03.0058), P(EE2.3.20.0017), P(GA203/09/1476), P(GAP208/11/1822), P(GD203/09/H046), P(GPP301/11/P558), P(IAA400040802), P(KJB400040901), P(LC06030), P(LC512), S, Z(AV0Z40550506), Z(AV0Z50040507), Z(AV0Z50040702), Z(MSM6198959216)
http://linked.open...iv/cisloPeriodika	9
http://linked.open...vai/riv/dodaniDat	2012
http://linked.open...aciTvurceVysledku	Šponer, Jiří Réblová, Kamila
http://linked.open.../riv/druhVysledku	J - Článek v odborném periodiku
http://linked.open...iv/duvernostUdaju	S - Úplné a pravdivé údaje nepodléhající ochraně podle zvláštních právních předpisů
http://linked.open...titaPredkladatele	Biofyzikální ústav AV ČR, v. v. i.
http://linked.open...dnocenehoVysledku	236795
http://linked.open...ai/riv/idVysledku	RIV/68081707:_____/11:00370399
http://linked.open...riv/jazykVysledku	eng - angličtina
http://linked.open.../riv/klicovaSlova	reverse kink-turn; simulation; flexibility (en)
http://linked.open.../riv/klicoveSlovo	reverse kink-turn flexibility simulation
http://linked.open...odStatuVydavatele	US - Spojené státy americké
http://linked.open...ontrolniKodProRIV	[7E9E682CA3F7]
http://linked.open...i/riv/nazevZdroje	Journal of Chemical Theory and Computation
http://linked.open...in/vavai/riv/obor	BO
http://linked.open...ichTvurcuVysledku	2 (xsd:int)
http://linked.open...cetTvurcuVysledku	7 (xsd:int)
http://linked.open...vavai/riv/projekt	Regional Centre of Advanced Technologies and Materials Biomolecular centre Center for biomolecules and complex molecular systems Research team development of the Regional Centre of Advanced Technologies and Materials Structural dynamics, molecular interactions and function of key RNA motifs Biochemistry on the crossroad from in silico to in vitro Structure, dynamics, and reaction mechanism of catalytic RNA Computational study of RNA multiple junctions localized in functionally important sites of the ribosome Structure and dynamics of DNA. Advanced computational studies. Mechanism of catalytical self-cleavage of two non-coding RNAs of human patogens
http://linked.open...UplatneniVysledku	2011
http://linked.open...v/svazekPeriodika	7
http://linked.open...iv/tvurceVysledku	Réblová, Kamila Šponer, Jiří Otyepka, M. Banáš, P. Florová, P. Lankaš, Filip Sklenovský, P.
http://linked.open...ain/vavai/riv/wos	000294790400032
http://linked.open...n/vavai/riv/zamer	Regulace biologických procesů: Chemické modulátory vybraných systémů významných pro medicínu a zemědělství Biophysics of dynamic structures and functions of biological systems Genome and epigenome: 1D and 3D Structure, Dynamics, Interactions with Proteins and Functions Modulation of signalling and regulatory pathways in normal and cancer cells
issn	1549-9618
number of pages	18 (xsd:int)
http://bibframe.org/vocab/doi	10.1021/ct200204t
is http://linked.open...avai/riv/vysledek of	Understanding RNA flexibility using explicit solvent simulations: The ribosomal and group I intron reverse kink-turn motifs Understanding RNA flexibility using explicit solvent simulations: The ribosomal and group I intron reverse kink-turn motifs

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