The contribution of phosphate-phosphate repulsions to the free energy of DNA bending (Q24798770)

27 June 2017

title

The contribution of phosphate-phosphate repulsions to the free energy of DNA bending (English)

1 reference

27 June 2017

Darrin M York

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27 June 2017

Kevin Range

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27 June 2017

Evelyn Mayaan

series ordinal

1 reference

27 June 2017

L J Maher

series ordinal

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27 June 2017

language of work or name

English

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publication date

1 March 2005

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27 June 2017

published in

Nucleic Acids Research

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27 June 2017

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27 June 2017

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27 June 2017

page(s)

1257-1268

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Crystal structure of the nucleosome core particle at 2.8 Å resolution

27 June 2017

cites work

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28 September 2017

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28 September 2017

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28 September 2017

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28 September 2017

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28 September 2017

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Charge neutralization and DNA bending by the Escherichia coli catabolite activator protein

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28 September 2017

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28 September 2017

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28 September 2017

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28 September 2017

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28 September 2017

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Sodium and chlorine ions as part of the DNA solvation shell

28 September 2017

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DNA engineering and its application to nanotechnology

28 September 2017

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DNA structure: cations in charge?

28 September 2017

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Electron paramagnetic resonance spectroscopic measurement of Mn2+ binding affinities to the hammerhead ribozyme and correlation with cleavage activity

28 September 2017

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28 September 2017

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Sequence-dependent dynamics of TATA-Box binding sites

28 September 2017

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DNA bending by small, mobile multivalent cations

28 September 2017

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Effects of phosphate neutralization on the shape of the AP-1 transcription factor binding site in duplex DNA.

28 September 2017

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Electrostatic Effects in DNA Bending by GCN4 Mutants

28 September 2017

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Role of Asymmetric Phosphate Neutralization in DNA Bending by PU.1

28 September 2017

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28 September 2017

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Large electrostatic differences in the binding thermodynamics of a cationic peptide to oligomeric and polymeric DNA.

28 September 2017

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The effect of a variable dielectric coefficient and finite ion size on Poisson-Boltzmann calculations of DNA-electrolyte systems

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=552960

DNA bending by asymmetric phosphate neutralization

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=552960

Importance of coulombic end effects on cation accumulation near oligoelectrolyte B-DNA: a demonstration using 23Na NMR.

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=552960

Grand canonical Monte Carlo molecular and thermodynamic predictions of ion effects on binding of an oligocation (L8+) to the center of DNA oligomers

28 September 2017

1 reference

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High-affinity binding sites for histone H1 in plasmid DNA.

28 September 2017

1 reference

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Monte Carlo description of oligoelectrolyte properties of DNA oligomers: range of the end effect and the approach of molecular and thermodynamic properties to the polyelectrolyte limits

28 September 2017

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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=552960

Ion distributions around DNA and other cylindrical polyions: theoretical descriptions and physical implications

28 September 2017

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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=552960

Molecular dynamics simulations of an oligonucleotide duplex with adenine tracts phased by a full helix turn.

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=552960

DNA Bending by GCN4 Mutants Bearing Cationic Residues

30 May 2018

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30 May 2018

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On the calculation of electrostatic interactions in proteins.

30 May 2018

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Effects of Na+ on the persistence length and excluded volume of T7 bacteriophage DNA

30 May 2018

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Condensation of DNA by multivalent cations: Considerations on mechanism

30 May 2018

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30 May 2018

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28 November 2018

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28 November 2018

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12 December 2020

Complexes of semiflexible polyelectrolytes and charged spheres as models for salt-modulated nucleosomal structures

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Modeling DNA deformations

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Quantum descriptors for biological macromolecules from linear-scaling electronic structure methods

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Optimised parameters for A-DNA and B-DNA

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Importance of oligoelectrolyte end effects for the thermodynamics of conformational transitions of nucleic acid oligomers: A grand canonical Monte Carlo analysis

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DNA bending in transcription initiation

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Pre-bending of a promoter sequence enhances affinity for the TATA-binding factor

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Identifiers

DOI

10.1093/NAR/GKI272

1 reference

27 June 2017

0 references

1 reference