Concentration and length dependence of DNA looping in transcriptional regulation (Q27349246)

1

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Hernan G Garcia

2

0 references

Seth Blumberg

3

0 references

Kevin B Towles

4

0 references

John F Beausang

5

0 references

Rob Phillips

Creative Commons Attribution 4.0 International

7

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language of work or name

English

0 references

publication date

2009

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published in

PLOS One

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volume

4

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issue

5

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page(s)

e5621

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copyright license

start time

25 May 2009

1 reference

April 2022 Public Data File from Crossref

copyright status

copyrighted

0 references

cites work

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Single-molecule manipulation reveals supercoiling-dependent modulation of lac repressor-mediated DNA looping

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Analysis of in-vivo LacR-mediated gene repression based on the mechanics of DNA looping

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Modeling the Lac repressor-operator assembly: the influence of DNA looping on Lac repressor conformation

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DNA looping: the consequences and its control.

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Inferring the in vivo looping properties of DNA.

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Single-molecule spectroscopic determination of lac repressor-DNA loop conformation

29 September 2017

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Structural dynamics of the lac repressor-DNA complex revealed by a multiscale simulation

29 September 2017

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Cyclization of short DNA fragments and bending fluctuations of the double helix

29 September 2017

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Transcriptional regulation by the numbers: applications

29 September 2017

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29 September 2017

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29 September 2017

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29 September 2017

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29 September 2017

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Thermodynamic and alkylation interference analysis of the lac repressor-operator substituted with the analogue 7-deazaguanine

29 September 2017

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Quality and position of the three lac operators of E. coli define efficiency of repression.

29 September 2017

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29 September 2017

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Double helical DNA: conformations, physical properties, and interactions with ligands

29 September 2017

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Quantitative model for gene regulation by lambda phage repressor

29 September 2017

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An operator at -280 base pairs that is required for repression of araBAD operon promoter: addition of DNA helical turns between the operator and promoter cyclically hinders repression

29 September 2017

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lac repressor forms loops with linear DNA carrying two suitably spaced lac operators

29 September 2017

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Tracking kinesin-driven movements with nanometre-scale precision

29 September 2017

1 reference

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DNA supercoiling changes the spacing requirement of two lac operators for DNA loop formation with lac repressor.

29 September 2017

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Multipartite genetic control elements: communication by DNA loop

29 September 2017

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In vivo DNA loops in araCBAD: size limits and helical repeat

29 September 2017

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The three operators of the lac operon cooperate in repression

29 September 2017

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Transcription by single molecules of RNA polymerase observed by light microscopy

29 September 2017

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29 September 2017

1 reference

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Nonspecific DNA binding of genome-regulating proteins as a biological control mechanism: Measurement of DNA-bound Escherichia coli lac repressor in vivo

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2682762

Binding of synthetic lactose operator DNAs to lactose repressors

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2682762

Binding of E.coli lac repressor to non-operator DNA

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2682762

Direct measurement of association constants for the binding of Escherichia coli lac repressor to non-operator DNA

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2682762

Thermodynamic analysis of unfolding and dissociation in lactose repressor protein.

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2682762

Energetics of DNA twisting. I. Relation between twist and cyclization probability.

2 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2682762

DNA supercoiling promotes formation of a bent repression loop in lac DNA.

2 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2682762

Interpretation of monovalent and divalent cation effects on the lac repressor-operator interaction

2 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2682762

Measurement of binding constants for protein-DNA interactions by DNA-cellulose chromatography.

2 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2682762

Sequence-Dependent Effects in the Cyclization of Short DNA.

2 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2682762

High flexibility of DNA on short length scales probed by atomic force microscopy.

27 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2682762

Tethered particle motion as a diagnostic of DNA tether length.

27 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2682762

Bacterial repression loops require enhanced DNA flexibility.

27 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2682762

Spontaneous sharp bending of double-stranded DNA.

27 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2682762

Gal repressosome contains an antiparallel DNA loop

27 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2682762

Glycine insertion in the hinge region of lactose repressor protein alters DNA binding.

27 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2682762

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.

27 November 2018

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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2682762

Escherichia coli lac repressor-lac operator interaction and the influence of allosteric effectors.

27 November 2018

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In vivo thermodynamic analysis of repression with and without looping in lac constructs. Estimates of free and local lac repressor concentrations and of physical properties of a region of supercoiled plasmid DNA in vivo.

27 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2682762

DNA binding characteristics of lactose repressor and the trypsin-resistant core repressor

27 November 2018

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Repression of lac promoter as a function of distance, phase and quality of an auxiliary lac operator

27 November 2018

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12 December 2020

Salt dependence of the kinetics of the lac repressor-operator interaction: role of nonoperator deoxyribonucleic acid in the association reaction

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12 December 2020

Integration host factor alters LacI-induced DNA looping

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12 December 2020

Conformation of Lac repressor tetramer in solution, bound and unbound to operator DNA

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12 December 2020

Measurement of lactose repressor-mediated loop formation and breakdown in single DNA molecules

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12 December 2020

Designed hyperstable Lac repressor.DNA loop topologies suggest alternative loop geometries

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12 December 2020

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12 December 2020

Localized single-stranded bubble mechanism for cyclization of short double helix DNA

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12 December 2020

Diffusion-driven mechanisms of protein translocation on nucleic acids. 2. The Escherichia coli lac repressor-operator interaction: equilibrium measurements

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12 December 2020

Influence of sequence and distance between two operators on interaction with the lac repressor

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12 December 2020

Cooperative and anticooperative effects in binding of the first and second plasmid Osym operators to a LacI tetramer: evidence for contributions of non-operator DNA binding by wrapping and looping

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12 December 2020

Thermodynamic origins of specificity in the lac repressor-operator interaction. Adaptability in the recognition of mutant operator sites

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12 December 2020

Influence of supercoiling and sequence context on operator DNA binding with lac repressor

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12 December 2020

10.1371/JOURNAL.PONE.0005621

Identifiers

DOI

1 reference

0 references

1 reference

2792663

1 reference

1 reference

2792663

PubMed publication ID

19479049

1 reference