Dynamics of Flexible RNA Hinges Relevant to Ribosome Function: non-Watson-Crick basepairs, modular building and specific hydration of RNA Kink-turns

Result code in IS VaVaI

<a href="https://www.isvavai.cz/riv?ss=detail&h=RIV%2F00216224%3A14310%2F04%3A00009958" target="_blank" >RIV/00216224:14310/04:00009958 - isvavai.cz</a>

Result on the web

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DOI - Digital Object Identifier

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Result language

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Original language name

Dynamics of Flexible RNA Hinges Relevant to Ribosome Function: non-Watson-Crick basepairs, modular building and specific hydration of RNA Kink-turns

Original language description

Hinge-like RNA motifs occur at conserved positions in the 16S and 23S ribosomal RNAs, as revealed by x-ray crystallography of the 50S subunits of H. marismortui and D. radiodurans and the 30S subunit of T. thermophilus. These motifs, asymmetric internalloops, are called Kink-turns (K-turns), and are characterized by a sharp, ca. 120 deg. bend in both phosphodiester backbones producing a V-shaped structure with an acute angle of ca. 60 deg. between the flanking RNA helices. The bend is stabilized by non-Watson-Crick basepairs involving the minor (shallow) grooves of the helices. We have carried out a set of explicit-solvent Molecular Dynamics (MD) simulations for selected K-turn motifs, including K-turn 38 (Kt-38) occurred in the A-site finger, Kt-42 occurred in the Factor-binding domain and Kt-58 occurred in the Domain III from the 23S ribosomal RNA of H. marismortui. The presence of K-turns at these key functional sites of the 50S subunit of the ribosome suggests that they confer fle

Czech name

Dynamika flexibilnych RNA pantov dolezitych pre funkciu ribozomu: ne-Watson-Crick-ovske pary bazi, modularna vystavba a specificka hydratacia RNA Kink-turn motivov

Czech description

Hinge-like RNA motifs occur at conserved positions in the 16S and 23S ribosomal RNAs, as revealed by x-ray crystallography of the 50S subunits of H. marismortui and D. radiodurans and the 30S subunit of T. thermophilus. These motifs, asymmetric internalloops, are called Kink-turns (K-turns), and are characterized by a sharp, ca. 120 deg. bend in both phosphodiester backbones producing a V-shaped structure with an acute angle of ca. 60 deg. between the flanking RNA helices. The bend is stabilized by non-Watson-Crick basepairs involving the minor (shallow) grooves of the helices. We have carried out a set of explicit-solvent Molecular Dynamics (MD) simulations for selected K-turn motifs, including K-turn 38 (Kt-38) occurred in the A-site finger, Kt-42 occurred in the Factor-binding domain and Kt-58 occurred in the Domain III from the 23S ribosomal RNA of H. marismortui. The presence of K-turns at these key functional sites of the 50S subunit of the ribosome suggests that they confer fle

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

Materials Structure in Chemistry, Biology, Physics and Technology

ISBN

ISSN 1211-5894

ISSN

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e-ISSN

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Number of pages

1

Pages from-to

28

Publisher name

Krystalografická společnost

Place of publication

Praha

Event location

Academic and University Center, Nové Hrady

Event date

Mar 11, 2004

Type of event by nationality

CST - Celostátní akce

UT code for WoS article

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