(Q51698528)

PubMed publication ID

20460130

10 April 2018

http://europepmc.org/abstract/MED/20460130

title

Action at hooked or twisted-hooked DNA juxtapositions rationalizes unlinking preference of type-2 topoisomerases (English)

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=PMCID:PMC6794154&resulttype=core&format=json

12 May 2020

author name string

Zhirong Liu

series ordinal

1

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=PMCID:PMC6794154&resulttype=core&format=json

12 May 2020

Lynn Zechiedrich

series ordinal

2

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=PMCID:PMC6794154&resulttype=core&format=json

12 May 2020

Hue Sun Chan

series ordinal

3

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=PMCID:PMC6794154&resulttype=core&format=json

12 May 2020

language of work or name

English

0 references

publication date

10 May 2010

1 reference

PubMed publication ID

20460130

10 April 2018

http://europepmc.org/abstract/MED/20460130

number of pages

20

1 reference

Journal of Molecular Biology

inferred from page(s)

published in

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=PMCID:PMC6794154&resulttype=core&format=json

12 May 2020

volume

400

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=PMCID:PMC6794154&resulttype=core&format=json

12 May 2020

issue

5

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=PMCID:PMC6794154&resulttype=core&format=json

12 May 2020

page(s)

963-982

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=PMCID:PMC6794154&resulttype=core&format=json

DNA topoisomerases: harnessing and constraining energy to govern chromosome topology

12 May 2020

cites work

1 reference

12 December 2020

In the absence of writhe, DNA relieves torsional stress with localized, sequence-dependent structural failure to preserve B-form

1 reference

12 December 2020

Hin-mediated DNA knotting and recombining promote replicon dysfunction and mutation

1 reference

12 December 2020

Theoretical models of DNA topology simplification by type IIA DNA topoisomerases

1 reference

12 December 2020

Chirality sensing by Escherichia coli topoisomerase IV and the mechanism of type II topoisomerases

1 reference

12 December 2020

Single-molecule analysis of DNA uncoiling by a type II topoisomerase.

1 reference

12 December 2020

Local selection rules that can determine specific pathways of DNA unknotting by type II DNA topoisomerases

1 reference

12 December 2020

The role of topoisomerase IV in partitioning bacterial replicons and the structure of catenated intermediates in DNA replication

1 reference

12 December 2020

Knotting of random ring polymers in confined spaces.

1 reference

12 December 2020

1 reference

12 December 2020

Roles of topoisomerase IV and DNA gyrase in DNA unlinking during replication in Escherichia coli

1 reference

12 December 2020

How do type II topoisomerases use ATP hydrolysis to simplify DNA topology beyond equilibrium? Investigating the relaxation reaction of nonsupercoiling type II topoisomerases

1 reference

12 December 2020

Arrest of segregation leads to accumulation of highly intertwined catenated dimers: Dissection of the final stages of SV40 DNA replication

1 reference

12 December 2020

Topoisomerase IV, not gyrase, decatenates products of site-specific recombination in Escherichia coli

1 reference

12 December 2020

Scaling behavior of random knots

1 reference

12 December 2020

Probability of the site juxtaposition determines the rate of protein-mediated DNA looping

1 reference

12 December 2020

DNA disentangling by type-2 topoisomerases.

1 reference

12 December 2020

Kinetics and thermodynamics of folding in model proteins

1 reference

12 December 2020

Recent advances in understanding structure–function relationships in the type II topoisomerase mechanism

1 reference

12 December 2020

A role for the passage helix in the DNA cleavage reaction of eukaryotic topoisomerase II. A two-site model for enzyme-mediated DNA cleavage

1 reference

12 December 2020

A topological view of the replicon

1 reference

12 December 2020

Mechanisms of chiral discrimination by topoisomerase IV

1 reference

12 December 2020

DNA topoisomerases: structure, function, and mechanism

1 reference

12 December 2020

Mechanism of topology simplification by type II DNA topoisomerases

1 reference

12 December 2020

Protein folding bottlenecks: A lattice Monte Carlo simulation

1 reference

12 December 2020

Simplification of DNA topology below equilibrium values by type II topoisomerases

1 reference

12 December 2020

Exploring writhe in supercoiled minicircle DNA.

1 reference

12 December 2020

Asymmetric removal of supercoils suggests how topoisomerase II simplifies DNA topology

1 reference

12 December 2020

Eukaryotic topoisomerases recognize nucleic acid topology by preferentially interacting with DNA crossovers

1 reference

12 December 2020

DNA supercoiling and its role in DNA decatenation and unknotting

1 reference

12 December 2020

Topologically driven swelling of a polymer loop.

1 reference

12 December 2020

Topological information embodied in local juxtaposition geometry provides a statistical mechanical basis for unknotting by type-2 DNA topoisomerases

1 reference

12 December 2020

The why and how of DNA unlinking

1 reference

12 December 2020

Simulations of knotting in confined circular DNA.

1 reference

12 December 2020

Coupling ATP hydrolysis to DNA strand passage in type IIA DNA topoisomerases.

1 reference

12 December 2020

Cooperativity principles in protein folding.

1 reference

12 December 2020

Structural basis for gate-DNA recognition and bending by type IIA topoisomerases

1 reference

12 December 2020

Effect of supercoiling on the juxtaposition and relative orientation of DNA sites

1 reference

12 December 2020

Increased production of a knotted form of plasmid pBR322 DNA in Escherichia coli DNA topoisomerase mutants

1 reference

12 December 2020

Origins of structure in globular proteins

1 reference

12 December 2020

Topoisomerase IV, alone, unknots DNA in E. coli

1 reference

12 December 2020

Drosophila topoisomerase II-DNA interactions are affected by DNA structure

1 reference

12 December 2020

1 reference

12 December 2020

Local site preference rationalizes disentangling by DNA topoisomerases

1 reference

12 December 2020

A kinetic proofreading mechanism for disentanglement of DNA by topoisomerases

1 reference

12 December 2020

Interaction between DNA and an Escherichia coli protein omega

1 reference

12 December 2020

Probability of DNA knotting and the effective diameter of the DNA double helix

1 reference

12 December 2020

DNA supercoiling inhibits DNA knotting

1 reference

12 December 2020

Random state transitions of knots: a first step towards modeling unknotting by type II topoisomerases

1 reference

12 December 2020

Contrasting enzymatic activities of topoisomerase IV and DNA gyrase from Escherichia coli

1 reference

12 December 2020

Equilibrium distributions of topological states in circular DNA: interplay of supercoiling and knotting

1 reference

12 December 2020

ON THE REPLICATION OF DESOXYRIBONUCLEIC ACID (DNA)

1 reference

12 December 2020

Knotting probability of DNA molecules confined in restricted volumes: DNA knotting in phage capsids

1 reference

12 December 2020

The structural basis for substrate specificity in DNA topoisomerase IV.

1 reference

12 December 2020

Ranking knots of random, globular polymer rings

1 reference

12 December 2020

Kinetic proofreading can explain the supression of supercoiling of circular DNA molecules by type-II topoisomerases

1 reference

12 December 2020

Inferring global topology from local juxtaposition geometry: interlinking polymer rings and ramifications for topoisomerase action

1 reference

12 December 2020

Terminal stages of SV40 DNA replication proceed via multiply intertwined catenated dimers

1 reference

12 December 2020

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

1 reference

12 December 2020

Symmetry and chirality in topoisomerase II-DNA crossover recognition

1 reference

12 December 2020

The writhing number of a space curve

1 reference

12 December 2020

Efficient chain moves for Monte Carlo simulations of a wormlike DNA model: excluded volume, supercoils, site juxtapositions, knots, and comparisons with random-flight and lattice models.

1 reference

12 December 2020

Simulations of action of DNA topoisomerases to investigate boundaries and shapes of spaces of knots

1 reference

12 December 2020

Conformational and thermodynamic properties of supercoiled DNA.

1 reference

12 December 2020

DNA-DNA interactions in bacteriophage capsids are responsible for the observed DNA knotting

1 reference

12 December 2020

Studies on protein folding, unfolding and fluctuations by computer simulation. I. The effect of specific amino acid sequence represented by specific inter-unit interactions

1 reference

12 December 2020

Exploring conformational space with a simple lattice model for protein structure

1 reference

12 December 2020

Conformational and thermodynamic properties of supercoiled DNA

1 reference

12 December 2020

Protein folding funnels: a kinetic approach to the sequence-structure relationship

1 reference

12 December 2020

The capture of a DNA double helix by an ATP-dependent protein clamp: a key step in DNA transport by type II DNA topoisomerases

1 reference

12 December 2020

10.1016/J.JMB.2010.05.007

Identifiers

DOI

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=PMCID:PMC6794154&resulttype=core&format=json

12 May 2020

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=PMCID:PMC6794154&resulttype=core&format=json

12 May 2020

PubMed publication ID

20460130

1 reference