How sequence defines structure: a crystallographic map of DNA structure and conformation. - Test2 - elhamkhani - TriplyDB

How sequence defines structure: a crystallographic map of DNA structure and conformation.

How sequence defines structure: a crystallographic map of DNA structure and conformation.

http://www.wikidata.org/entity/Q33821541

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Directing macromolecular conformation through halogen bonds A Rare Nucleotide Base Tautomer in the Structure of an Asymmetric DNA Junction Structure of d(CCGGGACCGG)4as a four-way junction at 1.6 Å resolution: new insights into solvent interactions Structure determination of an intercalating ruthenium dipyridophenazine complex which kinks DNA by semiintercalation of a tetraazaphenanthrene ligand Structure of d(CGGGTACCCG)4as a four-way Holliday junction Crystal structures of Λ-[Ru(phen)₂dppz]²⁺ with oligonucleotides containing TA/TA and AT/AT steps show two intercalation modes Probing the role of sequence in the assembly of three-dimensional DNA crystals DNA polymorphism in crystals: three stable conformations for the decadeoxynucleotide d(GCATGCATGC)Effect of Hydroxymethylcytosine on the Structure and Stability of Holliday Junctions Protein/DNA interactions in complex DNA topologies: expect the unexpected The Halogen Bond Structural Mechanism behind Distinct Efficiency of Oct4/Sox2 Proteins in Differentially Spaced DNA Complexes Intrinsic flexibility of B-DNA: the experimental TRX scale.Computational reference data for the photochemistry of cyclobutane pyrimidine dimers.High guanine and cytosine content increases mRNA levels in mammalian cells Construction of a genome-scale structural map at single-nucleotide resolution.Small local variations in B-form DNA lead to a large variety of global geometries which can accommodate most DNA-binding protein motifs A systematic molecular dynamics study of nearest-neighbor effects on base pair and base pair step conformations and fluctuations in B-DNA.A statistical thermodynamic model for investigating the stability of DNA sequences from oligonucleotides to genomes.Detailed mechanism for transposition by TnpA transposase involves DNA shape rather than direct protein-DNA recognition to generate an active nucleoprotein complex.Study of single-nucleotide polymorphisms by means of electrical conductance measurements Molecular dynamics simulations of the 136 unique tetranucleotide sequences of DNA oligonucleotides. II: sequence context effects on the dynamical structures of the 10 unique dinucleotide steps.Cheminformatics methods for novel nanopore analysis of HIV DNA termini Programmable oligomers targeting 5'-GGGG-3' in the minor groove of DNA and NF-kappaB binding inhibition.Molecular dynamics of a DNA Holliday junction: the inverted repeat sequence d(CCGGTACCGG)₄.The stacked-X DNA Holliday junction and protein recognition.Solution formation of Holliday junctions in inverted-repeat DNA sequences Programmable oligomers for minor groove DNA recognition Structure, dynamics, and branch migration of a DNA Holliday junction: a single-molecule fluorescence and modeling study.The accuracy of quantum chemical methods for large noncovalent complexes.Influence of 8-oxoguanosine on the fine structure of DNA studied with biasing-potential replica exchange simulations Protein/DNA interactions in complex DNA topologies: expect the unexpected.DNA-directed base pair opening.Relationships between hydrogen bonds and halogen bonds in biological systems.DNA conformations and their sequence preferences.Prokaryotic gene finding based on physicochemical characteristics of codons calculated from molecular dynamics simulations.Optimization of the CHARMM additive force field for DNA: Improved treatment of the BI/BII conformational equilibrium.All-atom polarizable force field for DNA based on the classical Drude oscillator model Hot-spot consensus of fluoroquinolone-mediated DNA cleavage by Gram-negative and Gram-positive type II DNA topoisomerases.The energetic contribution of induced electrostatic asymmetry to DNA bending by a site-specific protein.

P2860

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P2860

How sequence defines structure: a crystallographic map of DNA structure and conformation.

http://www.wikidata.org/entity/Q33821541

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2005年の論文

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2005年論文

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2005年論文

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2005年論文

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How sequence defines structure: a crystallographic map of DNA structure and conformation.

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How sequence defines structure: a crystallographic map of DNA structure and conformation.

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How sequence defines structure: a crystallographic map of DNA structure and conformation.

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How sequence defines structure: a crystallographic map of DNA structure and conformation.

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How sequence defines structure: a crystallographic map of DNA structure and conformation

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P2093

Amy Teegarden

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Emily Cavaliere

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Franklin A Hays

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Zebulon J R Jones

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P2860

Halogen bonds in biological molecules

A pivotal role for the structure of the Holliday junction in DNA branch migration

Crystal structure of a DNA Holliday junction

The Holliday junction in an inverted repeat DNA sequence: sequence effects on the structure of four-way junctions

The crystal structures of psoralen cross-linked DNAs: drug-dependent formation of Holliday junctions

Conformational and hydration effects of site-selective sodium, calcium and strontium ion binding to the DNA Holliday junction structure d(TCGGTACCGA)(4)

Effect of sequence on the conformation of DNA holliday junctions

DNA A-tract bending in three dimensions: Solving the dA4T4 vs. dT4A4 conundrum

Crystal lattice packing is important in determining the bend of a DNA dodecamer containing an adenine tract

3DNA: a software package for the analysis, rebuilding and visualization of three-dimensional nucleic acid structures

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Michael J Harms

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7868615

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