(Q34187355)

31 July 2017

title

Differences between EcoRI nonspecific and "star" sequence complexes revealed by osmotic stress (English)

1 reference

31 July 2017

Nina Y Sidorova

1

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31 July 2017

Donald C Rau

series ordinal

2

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31 July 2017

language of work or name

English

0 references

publication date

1 October 2004

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31 July 2017

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31 July 2017

volume

87

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31 July 2017

issue

4

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31 July 2017

page(s)

2564-2576

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Thermodynamics of sequence-specific protein-DNA interactions.

31 July 2017

cites work

1 reference

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Comparison of the effect of water release on the interaction of the Saccharomyces cerevisiae TATA binding protein (TBP) with "TATA Box" sequences composed of adenosine or inosine.

5 July 2018

1 reference

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Water-assisted dual mode cofactor recognition by HhaI DNA methyltransferase.

5 July 2018

1 reference

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Structure of BamHI bound to nonspecific DNA: a model for DNA sliding

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1304675

Osmotic stress, crowding, preferential hydration, and binding: A comparison of perspectives

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1304675

The dissociation rate of the EcoRI-DNA-specific complex is linked to water activity

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1304675

Crystal structure of lambda-Cro bound to a consensus operator at 3.0 A resolution

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1304675

Changes in solvation during DNA binding and cleavage are critical to altered specificity of the EcoRI endonuclease

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1304675

Effects of molecular crowding on the interaction between DNA and the Escherichia coli regulatory protein TyrR.

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1304675

Molecular and biological constraints on ligand-binding affinity and specificity

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1304675

Protein-DNA recognition complexes: conservation of structure and binding energy in the transition state

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1304675

Recognition and cleavage of DNA by type-II restriction endonucleases

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1304675

Differences in water release for the binding of EcoRI to specific and nonspecific DNA sequences

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1304675

Participation of water in Hin recombinase--DNA recognition

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1304675

Crystal structure of the lactose operon repressor and its complexes with DNA and inducer

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1304675

Macromolecules and water: probing with osmotic stress

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1304675

The control of protein stability and association by weak interactions with water: how do solvents affect these processes?

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1304675

Molecular recognition mediated by bound water. A mechanism for star activity of the restriction endonuclease EcoRI

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1304675

Pausing of the restriction endonuclease EcoRI during linear diffusion on DNA.

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1304675

Water release associated with specific binding of gal repressor

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1304675

Structure of Bam HI endonuclease bound to DNA: partial folding and unfolding on DNA binding

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1304675

EcoRI* Specificity and Hydrogen Bonding

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1304675

Cloning and Sequencing of Restriction Fragments Generated byEcoRI*

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1304675

Involvement of outside DNA sequences in the major kinetic path by which EcoRI endonuclease locates and leaves its recognition sequence

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1304675

Equilibria and kinetics of lac repressor-operator interactions by polyacrylamide gel electrophoresis

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1304675

A gel electrophoresis method for quantifying the binding of proteins to specific DNA regions: application to components of the Escherichia coli lactose operon regulatory system

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1304675

Alteration of the specificity of restriction endonucle, ases in the presence of organic solvents

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1304675

Structure of the DNA-Eco RI endonuclease recognition complex at 3 A resolution

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1304675

Analysis of the sequence-specific interactions between Cro repressor and operator DNA by systematic base substitution experiments

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1304675

Refinement of Eco RI endonuclease crystal structure: a revised protein chain tracing

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1304675

The energetic basis of specificity in the Eco RI endonuclease--DNA interaction.

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1304675

Thermodynamics of Cro protein-DNA interactions

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1304675

Specificity of substrate recognition by the EcoRI restriction endonuclease

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1304675

Altering the specificity of restriction endonuclease: effect of replacing Mg2+with Mn2+

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1304675

EcoRI★ activity: Enzyme modification or activation of accompanying endonuclease?

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1304675

Role of hydration in the binding of lac repressor to DNA.

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1304675

Linkage of EcoRI dissociation from its specific DNA recognition site to water activity, salt concentration, and pH: separating their roles in specific and non-specific binding

28 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1304675

Osmotic pressure effects on EcoRV cleavage and binding

28 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1304675

Differences in water release with DNA binding by ultrabithorax and deformed homeodomains.

28 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1304675

Thermodynamics of the interactions of lac repressor with variants of the symmetric lac operator: effects of converting a consensus site to a non-specific site.

28 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1304675

Thermodynamic characterization of non-sequence-specific DNA-binding by the Sso7d protein from Sulfolobus solfataricus

28 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1304675

The B Form to Z Form Transition of Poly(dG-m5dC) Is Sensitive to Neutral Solutes Through an Osmotic Stress

28 October 2018

1 reference

12 December 2020

Vapor pressure osmometry studies of osmolyte-protein interactions: implications for the action of osmoprotectants in vivo and for the interpretation of "osmotic stress" experiments in vitro

1 reference

12 December 2020

Removing water from an EcoRI-noncognate DNA complex with osmotic stress

1 reference

12 December 2020

The kinetic mechanism of EcoRI endonuclease

1 reference

12 December 2020

Sugar-induced molten-globule model

1 reference

12 December 2020

The role of water in protein-DNA interactions

1 reference

12 December 2020

Macromolecular hydration changes associated with BamHI binding and catalysis

1 reference

12 December 2020

DNA bends in TATA-binding protein-TATA complexes in solution are DNA sequence-dependent

1 reference

12 December 2020

Linear diffusion of restriction endonucleases on DNA

1 reference

12 December 2020

Facilitated diffusion during catalysis by EcoRI endonuclease. Nonspecific interactions in EcoRI catalysis

1 reference

12 December 2020

Role of macromolecular hydration in the binding of the Escherichia coli cyclic AMP receptor to DNA

1 reference

12 December 2020

10.1529/BIOPHYSJ.104.042390

Identifiers

DOI

1 reference

31 July 2017

1 reference

31 July 2017

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