A systematic molecular dynamics study of nearest-neighbor effects on base pair and base pair step conformations and fluctuations in B-DNA.
about
The role of methylation in the intrinsic dynamics of B- and Z-DNAConvergence and reproducibility in molecular dynamics simulations of the DNA duplex d(GCACGAACGAACGAACGC)DNA Sequence Context Conceals α-Anomeric LesionsMolecular dynamics re-refinement of two different small RNA loop structures using the original NMR data suggest a common structureUsing sequence-specific chemical and structural properties of DNA to predict transcription factor binding sitesDevelopment of an informatics infrastructure for data exchange of biomolecular simulations: Architecture, data models and ontologyBlind tests of RNA nearest-neighbor energy predictionRecognition of methylated DNA through methyl-CpG binding domain proteins.Label-free, atomic force microscopy-based mapping of DNA intrinsic curvature for the nanoscale comparative analysis of bent duplexes.Conformational dynamics of the human propeller telomeric DNA quadruplex on a microsecond time scale.Structure, Stiffness and Substates of the Dickerson-Drew Dodecamer.Quantum mechanically derived AMBER-compatible heme parameters for various states of the cytochrome P450 catalytic cycle.Physico-chemical fingerprinting of RNA genesSubstrate recognition and specificity of double-stranded RNA binding proteins.A statistical thermodynamic model for investigating the stability of DNA sequences from oligonucleotides to genomes.An ensemble of B-DNA dinucleotide geometries lead to characteristic nucleosomal DNA structure and provide plasticity required for gene expression.Analyzing ion distributions around DNA.A measure of bending in nucleic acids structures applied to A-tract DNA.ICM Web: the interactive chromatin modeling web server.Disparate HDV ribozyme crystal structures represent intermediates on a rugged free-energy landscape.Physical properties of naked DNA influence nucleosome positioning and correlate with transcription start and termination sites in yeast.The structural code of cyanobacterial genomes.Simulations of DNA topoisomerase 1B bound to supercoiled DNA reveal changes in the flexibility pattern of the enzyme and a secondary protein-DNA binding siteToward a consensus view of duplex RNA flexibilityWhat does physics have to do with cancer?Unraveling the sequence-dependent polymorphic behavior of d(CpG) steps in B-DNATriple helical DNA in a duplex context and base pair opening.The ABCs of molecular dynamics simulations on B-DNA, circa 2012.On the absence of intrahelical DNA dynamics on the μs to ms timescale.cgDNA: a software package for the prediction of sequence-dependent coarse-grain free energies of B-form DNADNA Duplex Formation with a Coarse-Grained ModelμABC: a systematic microsecond molecular dynamics study of tetranucleotide sequence effects in B-DNASanjeevini: a freely accessible web-server for target directed lead molecule discoveryThe effect of a G:T mispair on the dynamics of DNANAFlex: a web server for the study of nucleic acid flexibility.Explaining the varied glycosidic conformational, G-tract length and sequence preferences for anti-parallel G-quadruplexesWorking the kinks out of nucleosomal DNAUnderstanding the connection between epigenetic DNA methylation and nucleosome positioning from computer simulations.Analyzing ion distributions around DNA: sequence-dependence of potassium ion distributions from microsecond molecular dynamics.VDNA: the virtual DNA plug-in for VMD.
P2860
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P2860
A systematic molecular dynamics study of nearest-neighbor effects on base pair and base pair step conformations and fluctuations in B-DNA.
description
2009 nî lūn-bûn
@nan
2009 թուականի Հոկտեմբերին հրատարակուած գիտական յօդուած
@hyw
2009 թվականի հոտեմբերին հրատարակված գիտական հոդված
@hy
2009年の論文
@ja
2009年論文
@yue
2009年論文
@zh-hant
2009年論文
@zh-hk
2009年論文
@zh-mo
2009年論文
@zh-tw
2009年论文
@wuu
name
A systematic molecular dynamic ...... ons and fluctuations in B-DNA.
@ast
A systematic molecular dynamic ...... ons and fluctuations in B-DNA.
@en
A systematic molecular dynamic ...... ons and fluctuations in B-DNA.
@nl
type
label
A systematic molecular dynamic ...... ons and fluctuations in B-DNA.
@ast
A systematic molecular dynamic ...... ons and fluctuations in B-DNA.
@en
A systematic molecular dynamic ...... ons and fluctuations in B-DNA.
@nl
prefLabel
A systematic molecular dynamic ...... ons and fluctuations in B-DNA.
@ast
A systematic molecular dynamic ...... ons and fluctuations in B-DNA.
@en
A systematic molecular dynamic ...... ons and fluctuations in B-DNA.
@nl
P2093
P2860
P50
P356
P1476
A systematic molecular dynamic ...... ons and fluctuations in B-DNA.
@en
P2093
Alexis Michon
David A Case
David Beveridge
Filip Lankas
John H Maddocks
Krystyna Zakrzewska
Modesto Orozco
Nada Spackova
Roman Osman
P2860
P304
P356
10.1093/NAR/GKP834
P407
P577
2009-10-22T00:00:00Z