(Q42715381)

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:23345869%20AND%20SRC:MED&resulttype=core&format=json

22 February 2020

title

A model of sequence-dependent protein diffusion along DNA (English)

1 reference

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22 February 2020

4

1 reference

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22 February 2020

author name string

Maria Barbi

series ordinal

1

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:23345869%20AND%20SRC:MED&resulttype=core&format=json

22 February 2020

Christophe Place

series ordinal

2

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:23345869%20AND%20SRC:MED&resulttype=core&format=json

22 February 2020

Vladislav Popkov

series ordinal

3

1 reference

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22 February 2020

publication date

1 September 2004

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:23345869%20AND%20SRC:MED&resulttype=core&format=json

Journal of Biological Physics

22 February 2020

published in

1 reference

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22 February 2020

volume

30

1 reference

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22 February 2020

issue

3

1 reference

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22 February 2020

page(s)

203-226

1 reference

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https://scigraph.springernature.com/pub.10.1023/b:jobp.0000046728.51620.14

22 February 2020

exact match

0 references

cites work

Observation by fluorescence microscopy of transcription on single combed DNA

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3456087

One- and three-dimensional pathways for proteins to reach specific DNA sites

27 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3456087

Studies of promoter recognition and start site selection by T7 RNA polymerase using a comprehensive collection of promoter variants

27 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3456087

Direct observation of one-dimensional diffusion and transcription by Escherichia coli RNA polymerase

27 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3456087

Structural basis for initiation of transcription from an RNA polymerase-promoter complex

27 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3456087

Structural features of protein-nucleic acid recognition sites

27 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3456087

Single-molecule imaging of RNA polymerase-DNA interactions in real time

27 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3456087

Motion of RNA polymerase along DNA: a stochastic model

27 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3456087

Identification of a minimal binding element within the T7 RNA polymerase promoter

27 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3456087

Specificity mechanisms in the control of transcription

27 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3456087

Coupling of local folding to site-specific binding of proteins to DNA

27 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3456087

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

27 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3456087

Diffusion-driven mechanisms of protein translocation on nucleic acids. 3. The Escherichia coli lac repressor--operator interaction: kinetic measurements and conclusions.

27 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3456087

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

27 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3456087

The lac repressor-operator interaction. 3. Kinetic studies

27 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3456087

Kinetics of promoter search by Escherichia coli RNA polymerase. Effects of monovalent and divalent cations and temperature.

27 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3456087

Facilitated target location in biological systems

27 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3456087

Biological significance of facilitated diffusion in protein-DNA interactions. Applications to T4 endonuclease V-initiated DNA repair

27 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3456087

Kinetic mechanism of the EcoRI DNA methyltransferase

27 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3456087

Sequence-specific recognition of double helical nucleic acids by proteins

27 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3456087

Nonspecific interaction of lac repressor with DNA: an association reaction driven by counterion release.

27 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3456087

The one-dimensional diffusion coefficient of proteins absorbed on DNA. Hydrodynamic considerations

27 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3456087

Visualization of single molecules of RNA polymerase sliding along DNA.

27 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3456087

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.

27 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3456087

Contribution of facilitated diffusion and processive catalysis to enzyme efficiency: implications for the EcoRI restriction-modification system

16 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3456087

Photo-cross-linking of CRP to nonspecific DNA in the absence of cAMP. DNA interacts with both the N- and C-terminal parts of the protein.

16 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3456087

Tests of a model of specific contacts in T7 RNA polymerase-promoter interactions.

16 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3456087

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

16 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3456087

Molecular mechanism of promoter selection in gene transcription. I. Development of a rapid mixing-photocrosslinking technique to study the kinetics of Escherichia coli RNA polymerase binding to T7 DNA.

16 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3456087

Molecular mechanism of promoter selection in gene transcription. II. Kinetic evidence for promoter search by a one-dimensional diffusion of RNA polymerase molecule along the DNA template

16 August 2018

1 reference

12 December 2020

Kinetics and mechanism in the reaction of gene regulatory proteins with DNA

1 reference

12 December 2020

Major groove recognition elements in the middle of the T7 RNA polymerase promoter

1 reference

12 December 2020

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

1 reference

12 December 2020

Linear diffusion of restriction endonucleases on DNA

1 reference

12 December 2020

Discrete model for DNA-promoter dynamics

1 reference

12 December 2020

10.1023/B:JOBP.0000046728.51620.14

Identifiers

DOI

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:23345869%20AND%20SRC:MED&resulttype=core&format=json

22 February 2020

1 reference

Dimensions Publication ID

0 references

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:23345869%20AND%20SRC:MED&resulttype=core&format=json

22 February 2020

PubMed publication ID

23345869

1 reference