About: A systematic molecular dynamics study of nearest-neighbor effects on base pair and base pair step conformations and fluctuations in B-DNA

Facets (new session)
Description
Metadata
Settings
- owl:sameAs
- Inference Rule:

About: A systematic molecular dynamics study of nearest-neighbor effects on base pair and base pair step conformations and fluctuations in B-DNA Goto Sponge NotDistinct Permalink

An Entity of Type : http://linked.opendata.cz/ontology/domain/vavai/Vysledek, within Data Space : linked.opendata.cz associated with source document(s)

Attributes	Values
rdf:type	skos:Concept http://linked.opendata.cz/ontology/domain/vavai/Vysledek
Description	Understanding and predicting base sequence effects on B-DNA properties requires an extensive structural and dynamic dataset which is currently unavailable from experiment. A consortium of laboratories was consequently formed to obtain this information using molecular simulations. This article describes simulation results providing information not only on all 10 unique base pair steps, but also on all possible neaerst-neighbor effects on these steps. These effects are found to be very significant, impying that dinucleotide models are insufficient for predicting sequence-dependent DNA properties. Understanding and predicting base sequence effects on B-DNA properties requires an extensive structural and dynamic dataset which is currently unavailable from experiment. A consortium of laboratories was consequently formed to obtain this information using molecular simulations. This article describes simulation results providing information not only on all 10 unique base pair steps, but also on all possible neaerst-neighbor effects on these steps. These effects are found to be very significant, impying that dinucleotide models are insufficient for predicting sequence-dependent DNA properties. (en)
Title	A systematic molecular dynamics study of nearest-neighbor effects on base pair and base pair step conformations and fluctuations in B-DNA A systematic molecular dynamics study of nearest-neighbor effects on base pair and base pair step conformations and fluctuations in B-DNA (en)
skos:prefLabel	A systematic molecular dynamics study of nearest-neighbor effects on base pair and base pair step conformations and fluctuations in B-DNA A systematic molecular dynamics study of nearest-neighbor effects on base pair and base pair step conformations and fluctuations in B-DNA (en)
skos:notation	RIV/68081707:_____/10:00342528!RIV11-MSM-68081707
http://linked.open...avai/riv/aktivita	P Z
http://linked.open...avai/riv/aktivity	P(GA203/09/1476), P(IAA400040802), P(LC06030), P(LC512), Z(AV0Z40550506), Z(AV0Z50040507), Z(AV0Z50040702)
http://linked.open...iv/cisloPeriodika	1
http://linked.open...vai/riv/dodaniDat	2011
http://linked.open...aciTvurceVysledku	Šponer, Jiří Špačková, Naďa
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	245024
http://linked.open...ai/riv/idVysledku	RIV/68081707:_____/10:00342528
http://linked.open...riv/jazykVysledku	eng - angličtina
http://linked.open.../riv/klicovaSlova	B-DNA; molecular dynamics; sequence dependet structure and dynamics (en)
http://linked.open.../riv/klicoveSlovo	B-DNA molecular dynamics sequence dependet structure and dynamics
http://linked.open...odStatuVydavatele	GB - Spojené království Velké Británie a Severního Irska
http://linked.open...ontrolniKodProRIV	[C900D6DB7E0B]
http://linked.open...i/riv/nazevZdroje	Nucleic Acids Research
http://linked.open...in/vavai/riv/obor	CF
http://linked.open...ichTvurcuVysledku	2 (xsd:int)
http://linked.open...cetTvurcuVysledku	18 (xsd:int)
http://linked.open...vavai/riv/projekt	Biomolecular centre Center for biomolecules and complex molecular systems Structural dynamics, molecular interactions and function of key RNA motifs Structure, dynamics, and reaction mechanism of catalytic RNA
http://linked.open...UplatneniVysledku	2010
http://linked.open...v/svazekPeriodika	38
http://linked.open...iv/tvurceVysledku	Špačková, Naďa Šponer, Jiří Cheatham III, T. E. Lankaš, Filip Zakrzewska, K. Dixit, S. Beveridge, D. Bishop, T. C. Case, D. A. Jayaram, B. Laughton, Ch. Lavery, R. Maddocks, J. H. Michon, A. Orozco, M. Osman, R. Pérez, A. Singh, T.
http://linked.open...ain/vavai/riv/wos	000273229100030
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
issn	0305-1048
number of pages	15 (xsd:int)
is http://linked.open...avai/riv/vysledek of	A systematic molecular dynamics study of nearest-neighbor effects on base pair and base pair step conformations and fluctuations in B-DNA A systematic molecular dynamics study of nearest-neighbor effects on base pair and base pair step conformations and fluctuations in B-DNA A systematic molecular dynamics study of nearest-neighbor effects on base pair and base pair step conformations and fluctuations in B-DNA

Faceted Search & Find service v1.16.118 as of Jun 21 2024

Alternative Linked Data Documents: ODE Content Formats:

RDF

ODATA

Microdata

About

OpenLink Virtuoso version 07.20.3240 as of Jun 21 2024, on Linux (x86_64-pc-linux-gnu), Single-Server Edition (126 GB total memory, 58 GB memory in use)
Data on this page belongs to its respective rights holders.
Virtuoso Faceted Browser Copyright © 2009-2024 OpenLink Software