Ribosomal RNA Kink-turn motif - a flexible molecular hinge

Result code in IS VaVaI

<a href="https://www.isvavai.cz/riv?ss=detail&h=RIV%2F00216224%3A14310%2F04%3A00021349" target="_blank" >RIV/00216224:14310/04:00021349 - isvavai.cz</a>

Result on the web

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DOI - Digital Object Identifier

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Result language

angličtina

Original language name

Ribosomal RNA Kink-turn motif - a flexible molecular hinge

Original language description

Ribosomal RNA K-turn motifs are asymmetric internal loops characterized by a sharp bend in the phosphodiester backbone resulting in &quot;V&quot; shaped structures, recurrently observed in ribosomes and showing high degree of sequence conservation. We have carried out extended explicit solvent molecular dynamics simulations of selected K-turns, in order to investigate their intrinsic structural and dynamical properties. The simulations reveal an unprecedented dynamical flexibility of the K-turns aroundtheir x-ray geometries. The K-turns sample, on the nanosecond timescale, different conformational substates. The overall behaviour of the simulations suggests that the sampled geometries are essentially isoenergetic and separated by minimal energy barriers. The nanosecond dynamics of isolated K-turns can be qualitatively considered as motion of two rigid helix stems controlled by a very flexible internal loop which then leads to substantial hinge-like motions between the two stems. This

Czech name

Ribozomalny Kink-turn motiv - flexibilny molekularny klb

Czech description

Ribosomal RNA K-turn motifs are asymmetric internal loops characterized by a sharp bend in the phosphodiester backbone resulting in &quot;V&quot; shaped structures, recurrently observed in ribosomes and showing high degree of sequence conservation. We have carried out extended explicit solvent molecular dynamics simulations of selected K-turns, in order to investigate their intrinsic structural and dynamical properties. The simulations reveal an unprecedented dynamical flexibility of the K-turns aroundtheir x-ray geometries. The K-turns sample, on the nanosecond timescale, different conformational substates. The overall behaviour of the simulations suggests that the sampled geometries are essentially isoenergetic and separated by minimal energy barriers. The nanosecond dynamics of isolated K-turns can be qualitatively considered as motion of two rigid helix stems controlled by a very flexible internal loop which then leads to substantial hinge-like motions between the two stems. This

Type

D - Article in proceedings

CEP classification

CF - Physical chemistry and theoretical chemistry

OECD FORD branch

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Project

<a href="/en/project/LN00A016" target="_blank" >LN00A016: BIOMOLECULAR CENTER</a><br>

Continuities

P - Projekt vyzkumu a vyvoje financovany z verejnych zdroju (s odkazem do CEP)

Publication year

2004

Confidentiality

S - Úplné a pravdivé údaje o projektu nepodléhají ochraně podle zvláštních právních předpisů

Article name in the collection

Conference on Current Trends in Computational Chemistry

ISBN

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ISSN

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e-ISSN

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Number of pages

1

Pages from-to

87-87

Publisher name

Jackson, Miss, USA

Place of publication

Jackson, MS, USA

Event location

Jackson, MS, USA

Event date

Jan 1, 2004

Type of event by nationality

WRD - Celosvětová akce

UT code for WoS article

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