2007
Elastic properties of ribosomal RNA building blocks: molecular dynamics of the GTPase-associated center rRNA
RÁZGA, Filip, Jaroslav KOČA, Ali MOKDAD a Jiří ŠPONERZákladní údaje
Originální název
Elastic properties of ribosomal RNA building blocks: molecular dynamics of the GTPase-associated center rRNA
Název česky
Elastické vlastnosti stavebných blokov ribozomálnej RNA: molekulová dynamika GTPase-associated center rRNA
Autoři
RÁZGA, Filip (703 Slovensko), Jaroslav KOČA (203 Česká republika), Ali MOKDAD (840 Spojené státy) a Jiří ŠPONER (203 Česká republika, garant)
Vydání
Nucleic Acids Research, Oxford, UK, Oxford Press, 2007, 0305-1048
Další údaje
Jazyk
angličtina
Typ výsledku
Článek v odborném periodiku
Obor
10403 Physical chemistry
Stát vydavatele
Velká Británie a Severní Irsko
Utajení
není předmětem státního či obchodního tajemství
Impakt faktor
Impact factor: 6.954
Kód RIV
RIV/00216224:14310/07:00022189
Organizační jednotka
Přírodovědecká fakulta
UT WoS
000247817700013
Klíčová slova anglicky
Molecular Dynamics; RNA Kink Turn; Ribosome; RNA flexibility; RNA building blocks
Příznaky
Mezinárodní význam
Změněno: 18. 1. 2008 11:33, prof. RNDr. Jiří Šponer, DrSc.
V originále
Explicit solvent Molecular Dynamics (MD) was used to describe the intrinsic flexibility of the Helix 42-44 portion of the 23S rRNA (abbreviated as Kt-42+rGAC; Kink-turn 42 and GTPase associated center rRNA). The bottom part of this molecule consists of alternating rigid and flexible segments. The first flexible segment (Hinge1) is the highly anharmonic Kink of Kt-42. The second one (Hinge2) is localized at the junction between Helix 42 and Helices 43/44. The rigid segments are the two arms of Helix 42 flanking the Kink. The whole molecule ends up with compact Helices 43/44 (Head) which appear to be modestly compressed towards the subunit in the H.m. x-ray structure. Overall, the Helix 42-44 rRNA is constructed as a sophisticated intrinsically flexible anisotropic molecular limb. The leading flexibility modes include bending at the hinges and twisting. The Head shows visible internal conformational plasticity, stemming from an intricate set of base pairing patterns including dynamical triads and tetrads. In summary, we demonstrate how rRNA building blocks with contrasting intrinsic flexibilities can form larger architectures with highly specific patterns of preferred low-energy motions and geometries.
Česky
Explicit solvent Molecular Dynamics (MD) was used to describe the intrinsic flexibility of the Helix 42-44 portion of the 23S rRNA (abbreviated as Kt-42+rGAC; Kink-turn 42 and GTPase associated center rRNA). The bottom part of this molecule consists of alternating rigid and flexible segments. The first flexible segment (Hinge1) is the highly anharmonic Kink of Kt-42. The second one (Hinge2) is localized at the junction between Helix 42 and Helices 43/44. The rigid segments are the two arms of Helix 42 flanking the Kink. The whole molecule ends up with compact Helices 43/44 (Head) which appear to be modestly compressed towards the subunit in the H.m. x-ray structure. Overall, the Helix 42-44 rRNA is constructed as a sophisticated intrinsically flexible anisotropic molecular limb. The leading flexibility modes include bending at the hinges and twisting. The Head shows visible internal conformational plasticity, stemming from an intricate set of base pairing patterns including dynamical triads and tetrads. In summary, we demonstrate how rRNA building blocks with contrasting intrinsic flexibilities can form larger architectures with highly specific patterns of preferred low-energy motions and geometries.
Návaznosti
| LC06030, projekt VaV |
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| MSM0021622413, záměr |
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