Dynamics of single DNA looping and cleavage by Sau3AI and effect of tension applied to the DNA. (Q39094209)

9 September 2017

Dynamics of single DNA looping and cleavage by Sau3AI and effect of tension applied to the DNA. (English)

1 reference

9 September 2017

Gregory J Gemmen

1

1 reference

9 September 2017

Rachel Millin

series ordinal

2

1 reference

9 September 2017

Douglas E Smith

series ordinal

3

1 reference

9 September 2017

language of work or name

English

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publication date

8 September 2006

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9 September 2017

1 reference

9 September 2017

91

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9 September 2017

11

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9 September 2017

4154-4165

1 reference

Tension-dependent DNA cleavage by restriction endonucleases: two-site enzymes are "switched off" at low force

9 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1635689

Real-time observation of DNA looping dynamics of Type IIE restriction enzymes NaeI and NarI.

9 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1635689

Statistical-mechanical theory of DNA looping.

9 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1635689

DNA-tension dependence of restriction enzyme activity reveals mechanochemical properties of the reaction pathway

9 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1635689

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

9 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1635689

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

9 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1635689

Disruption of protein-mediated DNA looping by tension in the substrate DNA.

9 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1635689

Near-field-magnetic-tweezer manipulation of single DNA molecules

9 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1635689

Enzyme-mediated DNA looping

9 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1635689

Effects of intermediate bound states in dynamic force spectroscopy

9 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1635689

Supercoiling and denaturation in Gal repressor/heat unstable nucleoid protein (HU)-mediated DNA looping

9 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1635689

On schemes of combinatorial transcription logic

9 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1635689

New insight into site-specific recombination from Flp recombinase-DNA structures

9 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1635689

Making contacts on a nucleic acid polymer

9 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1635689

Stretching DNA with optical tweezers

9 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1635689

The crystal structure of EcoRV endonuclease and of its complexes with cognate and non-cognate DNA fragments

9 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1635689

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

9 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1635689

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

9 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1635689

DNA looping between the origin of replication of Epstein-Barr virus and its enhancer site: stabilization of an origin complex with Epstein-Barr nuclear antigen 1

9 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1635689

DNA bending and expression of the divergent nagE-B operons

9 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1635689

Diversity of type II restriction endonucleases that require two DNA recognition sites

14 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1635689

Single molecule detection of DNA looping by NgoMIV restriction endonuclease

14 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1635689

Looping dynamics of linear DNA molecules and the effect of DNA curvature: a study by Brownian dynamics simulation

14 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1635689

EcoRII can be activated to cleave refractory DNA recognition sites

14 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1635689

Action at a distance: DNA-looping and initiation of transcription

14 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1635689

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

25 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1635689

Exact theory of kinkable elastic polymers.

25 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1635689

DNA looping by two-site restriction endonucleases: heterogeneous probability distributions for loop size and unbinding force

25 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1635689

Forced unraveling of nucleosomes assembled on heterogeneous DNA using core histones, NAP-1, and ACF.

15 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1635689

DNA-looping by RXR tetramers permits transcriptional regulation "at a distance".

21 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1635689

Spontaneous sharp bending of double-stranded DNA.

21 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1635689

DNA looping and physical constraints on transcription regulation.

21 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1635689

Gal repressosome contains an antiparallel DNA loop

21 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1635689

Single-molecule studies of DNA mechanics

21 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1635689

Going the distance: a current view of enhancer action

21 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1635689

Cooperative binding properties of restriction endonuclease EcoRII with DNA recognition sites.

21 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1635689

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

21 August 2018

1 reference

12 December 2020

Sau3AI, a monomeric type II restriction endonuclease that dimerizes on the DNA and thereby induces DNA loops

1 reference

12 December 2020

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

1 reference

12 December 2020

Enhancer-origin interaction in plasmid R6K involves a DNA loop mediated by initiator protein

1 reference

12 December 2020

1 reference

12 December 2020

Chromosome pairing via multiple interstitial interactions before and during meiosis in yeast

1 reference

12 December 2020

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

1 reference

12 December 2020

Formation of loops in DNA under tension

1 reference

12 December 2020

Statistics of loop formation along double helix DNAs

1 reference

12 December 2020

Entropic compression of interacting DNA loops

1 reference

12 December 2020

10.1529/BIOPHYSJ.106.088518

Identifiers

DOI

1 reference

9 September 2017

1 reference

9 September 2017

PubMed publication ID

16963513

1 reference