(Q35933659)

11 August 2017

Protein-induced local DNA bends regulate global topology of recombination products (English)

1 reference

11 August 2017

Alexander Vologodskii

5

object named as

Alexander Vologodskii

1 reference

11 August 2017

Quan Du

1

1 reference

11 August 2017

Alexei Livshits

2

1 reference

11 August 2017

Agnieszka Kwiatek

3

1 reference

11 August 2017

Makkuni Jayaram

4

1 reference

11 August 2017

language of work or name

English

0 references

publication date

11 February 2007

1 reference

Journal of Molecular Biology

11 August 2017

1 reference

11 August 2017

368

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11 August 2017

1

1 reference

11 August 2017

170-182

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describes a project that uses

11 August 2017

ImageQuant

1 reference

11 June 2022

https://www.ebi.ac.uk/europepmc/webservices/rest/PMC1945176/fullTextXML

inferred from PubMed Central ID database lookup

cites work

Mechanisms of site-specific recombination.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1945176

Loops in DNA: an overview of experimental and theoretical approaches

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1945176

A structural basis for allosteric control of DNA recombination by lambda integrase.

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1945176

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

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1945176

Gapped DNA and cyclization of short DNA fragments.

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1945176

Crystal structure of a wild-type Cre recombinase-loxP synapse reveals a novel spacer conformation suggesting an alternative mechanism for DNA cleavage activation

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1945176

Cre induces an asymmetric DNA bend in its target loxP site.

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1945176

Sequence of the loxP site determines the order of strand exchange by the Cre recombinase

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1945176

Mechanism of topology simplification by type II DNA topoisomerases

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1945176

Dynamics of site juxtaposition in supercoiled DNA.

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1945176

Crystal structure of a Flp recombinase-Holliday junction complex: assembly of an active oligomer by helix swapping

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1945176

Multimerization-cyclization of DNA fragments as a method of conformational analysis

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1945176

Asymmetric DNA bending in the Cre-loxP site-specific recombination synapse

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1945176

Structure and mechanism in site-specific recombination

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1945176

A general model for site-specific recombination by the integrase family recombinases

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1945176

Structure of the Holliday junction intermediate in Cre-loxP site-specific recombination.

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1945176

Structure of Cre recombinase complexed with DNA in a site-specific recombination synapse

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1945176

The Cre recombinase cleaves the lox site in trans

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1945176

Do basic region-leucine zipper proteins bend their DNA targets ... does it matter?

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1945176

Modulation of intramolecular interactions in superhelical DNA by curved sequences: a Monte Carlo simulation study

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1945176

Unwinding of double-stranded DNA helix by dehydration

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1945176

DNA topoisomerase II mutant of Saccharomyces cerevisiae: topoisomerase II is required for segregation of daughter molecules at the termination of DNA replication

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1945176

DNA flexibility studied by covalent closure of short fragments into circles

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1945176

Interaction of the bacteriophage P1 recombinase Cre with the recombining site loxP

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1945176

Mechanism of strand cleavage and exchange in the Cre-lox site-specific recombination system

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1945176

Biochemical topology: applications to DNA recombination and replication

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1945176

FLP recombinase of the 2 microns circle plasmid of Saccharomyces cerevisiae bends its DNA target. Isolation of FLP mutants defective in DNA bending

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1945176

Site-specific recombination by Tn3 resolvase: topological changes in the forward and reverse reactions

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1945176

Bending and supercoiling of DNA at the attachment site of bacteriophage lambda

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1945176

Stoichiometry of the Cre recombinase bound to the lox recombining site

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1945176

Comparative kinetic analysis of FLP and cre recombinases: mathematical models for DNA binding and recombination.

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1945176

Improved properties of FLP recombinase evolved by cycling mutagenesis

11 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1945176

Unveiling two distinct ribonuclease activities and a topoisomerase activity in a site-specific DNA recombinase

11 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1945176

Simplification of DNA topology below equilibrium values by type II topoisomerases

11 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1945176

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

11 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1945176

Knotting of DNA caused by a genetic rearrangement. Evidence for a nucleosome-like structure in site-specific recombination of bacteriophage lambda

11 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1945176

Site-specific recombination promotes plasmid amplification in yeast

11 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1945176

Isolation of intermediates in the binding of the FLP recombinase of the yeast plasmid 2-micron circle to its target sequence

11 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1945176

Curved helix segments can uniquely orient the topology of supertwisted DNA.

11 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1945176

FLP protein of 2 mu circle plasmid of yeast induces multiple bends in the FLP recognition target site

11 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1945176

DNA bending, flexibility, and helical repeat by cyclization kinetics.

11 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1945176

Cre-lox recombination in Escherichia coli cells. Mechanistic differences from the in vitro reaction

11 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1945176

DNA topology and geometry in Flp and Cre recombination.

11 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1945176

Preferential synapsis of loxP sites drives ordered strand exchange in Cre-loxP site-specific recombination.

24 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1945176

Symmetric DNA sites are functionally asymmetric within Flp and Cre site-specific DNA recombination synapses.

24 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1945176

24 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1945176

FLP site-specific recombinase of yeast 2-micron plasmid. Topological features of the reaction

24 September 2018

1 reference

12 December 2020

Copy number amplification of the 2 micron circle plasmid of Saccharomyces cerevisiae

1 reference

12 December 2020

Geometry of site alignment during int family recombination: antiparallel synapsis by the Flp recombinase

1 reference

12 December 2020

Contribution of the intrinsic curvature to measured DNA persistence length

1 reference

12 December 2020

Torsional tension in the DNA double helix measured with trimethylpsoralen in living E. coli cells: analogous measurements in insect and human cells

1 reference

12 December 2020

Catenation and supercoiling in the products of bacteriophage lambda integrative recombination in vitro

1 reference

12 December 2020

Studies on the properties of P1 site-specific recombination: Evidence for topologically unlinked products following recombination

1 reference

12 December 2020

Application of the method of phage T4 DNA ligase-catalyzed ring-closure to the study of DNA structure. II. NaCl-dependence of DNA flexibility and helical repeat

1 reference

12 December 2020

Conformational and thermodynamic properties of supercoiled DNA

1 reference

12 December 2020

Mutations of the FLP recombinase gene that cause a deficiency in DNA bending and strand cleavage

1 reference

12 December 2020

Analyses of the First Chemical Step in Flp Site-specific Recombination: Synapsis May Not be a Pre-requisite for Strand Cleavage

1 reference

12 December 2020

DNA-sequence asymmetry directs the alignment of recombination sites in the FLP synaptic complex

1 reference

12 December 2020

Topological selectivity of a hybrid site-specific recombination system with elements from Tn3 res/resolvase and bacteriophage P1 loxP/Cre

1 reference

12 December 2020

10.1016/J.JMB.2007.02.010

Identifiers

DOI

1 reference

11 August 2017

1 reference

11 August 2017

PubMed publication ID

17337001

1 reference