Strong physical constraints on sequence-specific target location by proteins on DNA molecules. (Q35828558)

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:16698961%20AND%20SRC:MED&resulttype=core&format=json

21 January 2020

title

Strong physical constraints on sequence-specific target location by proteins on DNA molecules (English)

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21 January 2020

1

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21 January 2020

author name string

Steven A Keatch

series ordinal

2

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21 January 2020

David T F Dryden

series ordinal

3

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21 January 2020

language of work or name

English

0 references

publication date

12 May 2006

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21 January 2020

published in

Nucleic Acids Research

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21 January 2020

volume

34

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21 January 2020

issue

9

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21 January 2020

page(s)

2550-2557

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StpA protein from Escherichia coli condenses supercoiled DNA in preference to linear DNA and protects it from digestion by DNase I and EcoKI.

21 January 2020

cites work

1 reference

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Measurement of the contributions of 1D and 3D pathways to the translocation of a protein along DNA.

11 July 2018

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Facilitated diffusion in chromatin lattices: mechanistic diversity and regulatory potential.

11 July 2018

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Continuous assays for DNA translocation using fluorescent triplex dissociation: application to type I restriction endonucleases.

11 July 2018

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A model for the mediation of processivity of DNA-targeting proteins by nonspecific binding: dependence on DNA length and presence of obstacles

11 July 2018

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Alleviation of restriction by DNA condensation and non-specific DNA binding ligands

11 July 2018

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Kinetics of protein-DNA interaction: facilitated target location in sequence-dependent potential

11 July 2018

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Nucleosomes facilitate their own invasion

11 July 2018

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Global nature of dynamic protein-chromatin interactions in vivo: three-dimensional genome scanning and dynamic interaction networks of chromatin proteins

11 July 2018

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Mechanisms for ATP-dependent chromatin remodelling: farewell to the tuna-can octamer?

11 July 2018

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How do site-specific DNA-binding proteins find their targets?

11 July 2018

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Structural aspects of DNA repair: the role of restricted diffusion

11 July 2018

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Polyamine-dependent gene expression

11 July 2018

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Chromatin assembly by DNA-translocating motors

11 July 2018

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Evidence for DNA translocation by the ISWI chromatin-remodeling enzyme

11 July 2018

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Analytic binding isotherms describing competitive interactions of a protein ligand with specific and nonspecific sites on the same DNA oligomer

11 July 2018

1 reference

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Structure and function of type II restriction endonucleases

11 July 2018

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Protein dynamics: implications for nuclear architecture and gene expression.

11 July 2018

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The proteolytic control of restriction activity in Escherichia coli K-12.

11 July 2018

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Type I restriction systems: sophisticated molecular machines (a legacy of Bertani and Weigle)

11 July 2018

1 reference

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Growth phase-dependent variation in protein composition of the Escherichia coli nucleoid

11 July 2018

1 reference

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Regulation of endonuclease activity by proteolysis prevents breakage of unmodified bacterial chromosomes by type I restriction enzymes

11 July 2018

1 reference

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Steric effects on multivalent ligand-receptor binding: exclusion of ligand sites by bound cell surface receptors

11 July 2018

1 reference

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DNA translocation blockage, a general mechanism of cleavage site selection by type I restriction enzymes

11 July 2018

1 reference

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Single-molecule biomechanics with optical methods

11 July 2018

1 reference

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Sequence-specific DNA binding by EcoKI, a type IA DNA restriction enzyme

11 July 2018

1 reference

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Protein-protein and protein-DNA interactions in the type I restriction endonuclease R.EcoR124I.

11 July 2018

1 reference

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Approaches to characterize protein-DNA interactions in vivo.

11 July 2018

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The bacterial nucleoid revisited

11 July 2018

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The lac repressor-operator interaction. 3. Kinetic studies

11 July 2018

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Theoretical aspects of DNA-protein interactions: co-operative and non-co-operative binding of large ligands to a one-dimensional homogeneous lattice.

11 July 2018

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Histonelike proteins of bacteria

11 July 2018

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Model for how type I restriction enzymes select cleavage sites in DNA.

11 July 2018

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Facilitated target location in biological systems

11 July 2018

1 reference

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Introduction of proteins into living bacterial cells: distribution of labeled HU protein in Escherichia coli

11 July 2018

1 reference

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Use of binding site neighbor-effect parameters to evaluate the interactions between adjacent ligands on a linear lattice. Effects on ligand-lattice association

11 July 2018

1 reference

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Non-specific interactions of CRP from ELcoli with native and denatured DNAs: control of binding by cAMP and cGMP and by cation concentration

11 July 2018

1 reference

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Cellular localization of Type I restriction-modification enzymes is family dependent.

11 July 2018

1 reference

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Is modification sufficient to protect a bacterial chromosome from a resident restriction endonuclease?

24 September 2018

1 reference

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The DNA translocation and ATPase activities of restriction-deficient mutants of Eco KI.

24 September 2018

1 reference

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Comparison of recombination in vitro and in E. coli cells: measure of the effective concentration of DNA in vivo.

24 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3303175

Diffusion-driven mechanisms of protein translocation on nucleic acids. 1. Models and theory.

24 September 2018

1 reference

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DNA intersegment transfer, how steroid receptors search for a target site

24 September 2018

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12 December 2020

EcoRV restriction endonuclease binds all DNA sequences with equal affinity

1 reference

12 December 2020

One-dimensional diffusion of proteins along DNA. Its biological and chemical significance revealed by single-molecule measurements

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12 December 2020

DNA supercoiling during ATP-dependent DNA translocation by the type I restriction enzyme EcoAI

1 reference

12 December 2020

Two types of localization of the DNA-binding proteins within the Escherichia coli nucleoid

1 reference

12 December 2020

1 reference

12 December 2020

Structure and properties of the bacterial nucleoid

1 reference

12 December 2020

Co-operativity and enzymatic activity in polymer-activated enzymes

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12 December 2020

Binding of n-mers to one-dimensional lattices with longer than close-contact interactions

1 reference

12 December 2020

Identifiers

DOI

10.1093/NAR/GKL271

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https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:16698961%20AND%20SRC:MED&resulttype=core&format=json

21 January 2020

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:16698961%20AND%20SRC:MED&resulttype=core&format=json

21 January 2020

1 reference