(Q35079364)

6 August 2017

title

Salt contribution to RNA tertiary structure folding stability (English)

1 reference

6 August 2017

Zhi-Jie Tan

1

1 reference

6 August 2017

Shi-Jie Chen

series ordinal

2

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6 August 2017

language of work or name

English

0 references

publication date

1 July 2011

1 reference

6 August 2017

number of pages

12

1 reference

inferred from page(s)

published in

Biophysical Journal

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6 August 2017

volume

101

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6 August 2017

issue

1

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6 August 2017

page(s)

176-187

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Importance of diffuse metal ion binding to RNA

6 August 2017

cites work

1 reference

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Effects of Mg2+ on the free energy landscape for folding a purine riboswitch RNA.

8 July 2018

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8 July 2018

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Ion-RNA interactions thermodynamic analysis of the effects of mono- and divalent ions on RNA conformational equilibria

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Predicting ion binding properties for RNA tertiary structures

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Dissecting electrostatic screening, specific ion binding, and ligand binding in an energetic model for glycine riboswitch folding

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Salt-dependent folding energy landscape of RNA three-way junction

8 July 2018

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8 July 2018

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Molecular simulation studies of monovalent counterion-mediated interactions in a model RNA kissing loop.

8 July 2018

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8 July 2018

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8 July 2018

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RNA folding: thermodynamic and molecular descriptions of the roles of ions

8 July 2018

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8 July 2018

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8 July 2018

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8 July 2018

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8 July 2018

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8 July 2018

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Measurement of the effect of monovalent cations on RNA hairpin stability

8 July 2018

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8 July 2018

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8 July 2018

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RNA helix stability in mixed Na+/Mg2+ solution

8 July 2018

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Charge density of divalent metal cations determines RNA stability

8 July 2018

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Quantitative analysis of monovalent counterion binding to random-sequence, double-stranded DNA using the replacement ion method

8 July 2018

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Electrostatic free energy landscapes for nucleic acid helix assembly

8 July 2018

1 reference

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Ion-mediated nucleic acid helix-helix interactions

8 July 2018

1 reference

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Nucleic acid helix stability: effects of salt concentration, cation valence and size, and chain length

8 July 2018

1 reference

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Metal ions and RNA folding: a highly charged topic with a dynamic future

8 July 2018

1 reference

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Electrostatic correlations and fluctuations for ion binding to a finite length polyelectrolyte.

8 July 2018

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Determination of thermodynamic parameters for HIV DIS type loop-loop kissing complexes

8 July 2018

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Effect of the number of nucleic acid oligomer charges on the salt dependence of stability (DeltaG 37degrees) and melting temperature (Tm): NLPB analysis of experimental data

8 July 2018

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8 July 2018

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RNA folding: models and perspectives

8 July 2018

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8 July 2018

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A thermodynamic framework for the magnesium-dependent folding of RNA.

8 July 2018

1 reference

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A compact RNA tertiary structure contains a buried backbone-K+ complex

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3127172

RNA hairpin-folding kinetics

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3127172

Crystal structures of coaxially stacked kissing complexes of the HIV-1 RNA dimerization initiation site

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3127172

Electrostatics of nanosystems: application to microtubules and the ribosome

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3127172

Contribution of the intercalated adenosine at the helical junction to the stability of the gag-pro frameshifting pseudoknot from mouse mammary tumor virus

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3127172

Density functional theory for the nonspecific binding of salt to polyelectrolytes: thermodynamic properties.

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3127172

An optimal Mg(2+) concentration for kinetic folding of the tetrahymena ribozyme

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3127172

Minor groove RNA triplex in the crystal structure of a ribosomal frameshifting viral pseudoknot

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3127172

An examination of coaxial stacking of helical stems in a pseudoknot motif: the gene 32 messenger RNA pseudoknot of bacteriophage T2

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3127172

RNA folding causes secondary structure rearrangement

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3127172

Native secondary structure formation in RNA may be a slave to tertiary folding

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3127172

Thermal stability of DNA.

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3127172

A unified view of polymer, dumbbell, and oligonucleotide DNA nearest-neighbor thermodynamics

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3127172

Hierarchy and dynamics of RNA folding

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3127172

The structure of an RNA pseudoknot that causes efficient frameshifting in mouse mammary tumor virus

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3127172

Salt-nucleic acid interactions

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3127172

Restrained refinement of the monoclinic form of yeast phenylalanine transfer RNA. Temperature factors and dynamics, coordinated waters, and base-pair propeller twist angles

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3127172

The molecular theory of polyelectrolyte solutions with applications to the electrostatic properties of polynucleotides

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3127172

Monovalent cation size and DNA conformational stability

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3127172

The influence of monovalent cation size on the stability of RNA tertiary structures

27 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3127172

Importance of partially unfolded conformations for Mg(2+)-induced folding of RNA tertiary structure: structural models and free energies of Mg2+ interactions.

27 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3127172

Tertiary structure of an RNA pseudoknot is stabilized by "diffuse" Mg2+ ions.

27 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3127172

A new outer boundary formulation and energy corrections for the nonlinear Poisson-Boltzmann equation.

27 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3127172

Effects of sodium ions on DNA duplex oligomers: improved predictions of melting temperatures.

27 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3127172

Monovalent cations mediate formation of native tertiary structure of the Tetrahymena thermophila ribozyme.

27 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3127172

The linkage between magnesium binding and RNA folding.

27 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3127172

Thermodynamics of folding of the RNA pseudoknot of the T4 gene 32 autoregulatory messenger RNA.

27 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3127172

Simulations of RNA Interactions with Monovalent Ions

27 September 2018

1 reference

12 December 2020

tRNA Conformation and Magnesium Binding. A Study of Yeast Phenylalanine-Specific tRNA by a Fluorescent Indicator and Differential Melting Curves

1 reference

12 December 2020

Affinities and selectivities of divalent cation binding sites within an RNA tertiary structure

1 reference

12 December 2020

Quantitative characterization of ion pairing and cluster formation in strong 1:1 electrolytes

1 reference

12 December 2020

Equilibrium unfolding (folding) pathway of a model H-type pseudoknotted RNA: the role of magnesium ions in stability

1 reference

12 December 2020

Predicting thermodynamic properties of RNA

1 reference

12 December 2020

10.1016/J.BPJ.2011.05.050

Identifiers

DOI

1 reference

release_u4pmtrqljjaixjgaaz435lrwz4

6 August 2017

Fatcat ID

1 reference

Fatcat

https://api.fatcat.wiki/v0/release/u4pmtrqljjaixjgaaz435lrwz4

24 November 2022

mapped directly with Wikidata item

PMC publication ID

3127172

1 reference

6 August 2017

1 reference