(Q24537244)

5 July 2017

title

A topological approach to nucleosome structure and dynamics: the linking number paradox and other issues (English)

1 reference

5 July 2017

0 references

Prunell A

1

1 reference

5 July 2017

language of work or name

English

0 references

publication date

1 May 1998

1 reference

5 July 2017

number of pages

14

1 reference

based on heuristic

inferred from page(s)

published in

Biophysical Journal

1 reference

5 July 2017

volume

74

1 reference

5 July 2017

issue

5

1 reference

5 July 2017

page(s)

2531-2544

1 reference

What determines the folding of the chromatin fiber?

5 July 2017

cites work

1 reference

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The writhing number of a space curve

24 March 2017

1 reference

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The twisted circular form of polyoma viral DNA

24 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1299595

Linking numbers and nucleosomes

24 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1299595

Involvement of histone H1 in the organization of the nucleosome and of the salt-dependent superstructures of chromatin

24 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1299595

Helical repeat of DNA in solution

24 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1299595

Crystal structure of the nucleosome core particle at 2.8 A resolution

24 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1299595

Dynamics of the interactions of histones H2A,H2B and H3,H4 with torsionally stressed DNA

24 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1299595

Supercoiling of the DNA template during transcription

24 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1299595

Bent helical structure in kinetoplast DNA.

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1299595

Internal structure of the chromatin subunit

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1299595

A novel assay for drug-DNA binding mode, affinity, and exclusion number: scanning force microscopy

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1299595

Nucleosome DNA sequence pattern revealed by multiple alignment of experimentally mapped sequences

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1299595

Interaction of the histone (H3-H4)2 tetramer of the nucleosome with positively supercoiled DNA minicircles: Potential flipping of the protein from a left- to a right-handed superhelical form

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1299595

Mapping nucleosome position at single base-pair resolution by using site-directed hydroxyl radicals

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1299595

Chromatin conformation and salt-induced compaction: three-dimensional structural information from cryoelectron microscopy

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1299595

A chromatin folding model that incorporates linker variability generates fibers resembling the native structures

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1299595

Linker DNA accessibility in chromatin fibers of different conformations: a reevaluation

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1299595

The three-dimensional architecture of chromatin in situ: electron tomography reveals fibers composed of a continuously variable zig-zag nucleosomal ribbon

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1299595

Preferential binding of histones H3 and H4 to highly positively coiled DNA.

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1299595

Self-assembly of single and closely spaced nucleosome core particles

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1299595

Structure of chromatin and the linking number of DNA.

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1299595

The pitch of chromatin DNA is reflected in its nucleotide sequence

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1299595

Periodicity of exonuclease III digestion of chromatin and the pitch of DNA on the nucleosome

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1299595

The helical periodicity of DNA on the nucleosome

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1299595

DNA wrapping in nucleosomes. The linking number problem re-examined

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1299595

The superstructure of chromatin and its condensation mechanism. II. Theoretical analysis of the X-ray scattering patterns and model calculations

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1299595

Chromatin fibers are left-handed double helices with diameter and mass per unit length that depend on linker length.

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1299595

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1299595

Nucleosome core particles suppress the thermal untwisting of core DNA and adjacent linker DNA.

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1299595

Effect of trypsinization and histone H5 addition on DNA twist and topology in reconstituted minichromosomes

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1299595

Helical repeat of DNA in solution. The V curve method

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1299595

UV-induced formation of pyrimidine dimers in nucleosome core DNA is strongly modulated with a period of 10.3 bases

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1299595

27 September 2017

DNA in the nucleosome

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1299595

Chromatin reconstituted from tandemly repeated cloned DNA fragments and core histones: a model system for study of higher order structure

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1299595

The structure of DNA in a nucleosome

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1299595

Nucleosome positioning is determined by the (H3-H4)2 tetramer

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1299595

Histone contributions to the structure of DNA in the nucleosome

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1299595

Structure of nucleosome core particles of chromatin

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1299595

Precise location of DNase I cutting sites in the nucleosome core determined by high resolution gel electrophoresis

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1299595

How many base-pairs per turn does DNA have in solution and in chromatin? Some theoretical calculations

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1299595

Histone H3 disulfide dimers and nucleosome structure

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1299595

The number of superhelical turns in native Virion SV40 DNA and Minicol DNA determined by the band counting method

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1299595

Folding of the DNA double helix in chromatin-like structures from simian virus 40

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1299595

Linker histone-dependent DNA structure in linear mononucleosomes.

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1299595

Influence of positive stress on nucleosome assembly

30 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1299595

Superhelicity of nucleosomal DNA changes its double-helical repeat.

30 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1299595

Exchange of histones H1, H2A, and H2B in vivo.

30 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1299595

DNA bending and its relation to nucleosome positioning.

30 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1299595

Sequence-specific positioning of core histones on an 860 base-pair DNA. Experiment and theory.

30 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1299595

Structure of replicating simian virus 40 minichromosomes. The replication fork, core histone segregation and terminal structures

30 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1299595

Chromatin reconstitution on small DNA rings. II. DNA supercoiling on the nucleosome

30 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1299595

Histone acetylation reduces nucleosome core particle linking number change

30 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1299595

Comparison of X-ray structures of the nucleosome core particle in two different hydration states

30 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1299595

The histone core complex: an octamer assembled by two sets of protein-protein interactions

30 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1299595

Periodicity of deoxyribonuclease I digestion of chromatin

30 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1299595

Histone H1 is located in the interior of the chromatin 30-nm filament.

30 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1299595

Periodicity of dinucleotides in nucleosomes derived from simian virus 40 chromatin

30 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1299595

The octameric histone core of the nucleosome. Structural issues resolved.

29 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1299595

Energetics of DNA twisting. II. Topoisomer analysis.

29 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1299595

29 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1299595

Eukaryotic RNA polymerase II binds to nucleosome cores from transcribed genes

29 November 2018

1 reference

https://api.crossref.org/works/10.1016%2FS0006-3495%2898%2977961-5

Associative behavior of the histone (H3-H4)2 tetramer: dependence on ionic environment

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FS0006-3495%2898%2977961-5

Role of histone pairs H2A,H2B and H3,H4 in the self-assembly of nucleosome core particles

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FS0006-3495%2898%2977961-5

Chromatin superstructure. A study with an immobilized trypsin

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FS0006-3495%2898%2977961-5

Structural analysis of a reconstituted DNA containing three histone octamers and histone H5

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FS0006-3495%2898%2977961-5

Chromatin reconstitution on small DNA rings. IV. DNA supercoiling and nucleosome sequence preference

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FS0006-3495%2898%2977961-5

DNA at the entry-exit of the nucleosome observed by cryoelectron microscopy

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FS0006-3495%2898%2977961-5

Photofootprint of nucleosome core DNA in intact chromatin having different structural states

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FS0006-3495%2898%2977961-5

Chromatin reconstitution on small DNA rings. I

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FS0006-3495%2898%2977961-5

Chromatin reconstitution on small DNA rings. V. DNA thermal flexibility of single nucleosomes

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FS0006-3495%2898%2977961-5

Torsional rigidity of DNA and length dependence of the free energy of DNA supercoiling

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FS0006-3495%2898%2977961-5

In vivo studies on the dynamics of histone-DNA interaction: evidence for nucleosome dissolution during replication and transcription and a low level of dissolution independent of both

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FS0006-3495%2898%2977961-5

Correlation between dinucleotide periodicities and nucleosome positioning on mouse satellite DNA

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FS0006-3495%2898%2977961-5

The role of histone H1 and non-structured domains of core histones in maintaining the orientation of nucleosomes within the chromatin fiber

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FS0006-3495%2898%2977961-5

Structure of subnucleosomal particles. Tetrameric (H3/H4)2 146 base pair DNA and hexameric (H3/H4)2(H2A/H2B)1 146 base pair DNA complexes

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FS0006-3495%2898%2977961-5

The nucleosome core all wrapped up

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FS0006-3495%2898%2977961-5

Sequence-dependent helical periodicity of DNA

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FS0006-3495%2898%2977961-5

Structure of the nucleosome core particle at 7 Å resolution

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FS0006-3495%2898%2977961-5

Studies of nucleosome structure

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FS0006-3495%2898%2977961-5

Crystals of a nucleosome core particle containing defined sequence DNA

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FS0006-3495%2898%2977961-5

Absence of nucleosomes in a fraction of SV40 chromatin between the origin of replication and the region coding for the late leader RNA

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FS0006-3495%2898%2977961-5

Sequence periodicities in chicken nucleosome core DNA.

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FS0006-3495%2898%2977961-5

Effects of DNA sequence and histone-histone interactions on nucleosome placement

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FS0006-3495%2898%2977961-5

The path of DNA in the nucleosome

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FS0006-3495%2898%2977961-5

Self-Linking and the Gauss Integral in Higher Dimensions

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FS0006-3495%2898%2977961-5

The helical repeat of nucleosome-wrapped DNA

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FS0006-3495%2898%2977961-5

Helical Repeat and Linking Number of Surface-Wrapped DNA

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FS0006-3495%2898%2977961-5

Computer simulation of protein-induced structural changes in closed circular DNA

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FS0006-3495%2898%2977961-5

Chromatin reconstitution on small DNA rings. III. Histone H5 dependence of DNA supercoiling in the nucleosome

7 January 2021

1 reference

https://api.crossref.org/works/10.1016%2FS0006-3495%2898%2977961-5

Probing the conformation of nucleosome linker DNA in situ with pyrimidine dimer formation

7 January 2021

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/9591679

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Identifiers

DOI

10.1016/S0006-3495(98)77961-5

1 reference

5 July 2017

1 reference

5 July 2017

1 reference