Left-handedly curved DNA regulates accessibility to cis-DNA elements in chromatin (Q37371114)

20 August 2017

Left-handedly curved DNA regulates accessibility to cis-DNA elements in chromatin (English)

1 reference

nucleic acid tertiary structure

20 August 2017

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?resulttype=core&format=json&query=SRC%3AMED%20AND%20EXT_ID%3A14602926

29 March 2024

1 reference

https://api.crossref.org/works/10.1093/NAR/GKG854

29 March 2024

author name string

Jun-ichi Nishikawa

1

1 reference

20 August 2017

Miho Amano

2

1 reference

20 August 2017

Yoshiro Fukue

3

1 reference

20 August 2017

Shigeo Tanaka

4

1 reference

20 August 2017

Haruka Kishi

5

1 reference

20 August 2017

Yoshiko Hirota

6

1 reference

20 August 2017

Kinya Yoda

7

1 reference

20 August 2017

Takashi Ohyama

8

1 reference

20 August 2017

language of work or name

English

0 references

publication date

1 November 2003

1 reference

20 August 2017

15 November 2003

1 reference

National Center for Biotechnology Information

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/esummary.fcgi?db=pubmed&retmode=json&id=14602926

full work available at URL

29 March 2024

https://academic.oup.com/nar/article-pdf/31/22/6651/7039073/gkg854.pdf

file format

Portable Document Format

online access status

open access

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?resulttype=core&format=json&query=SRC%3AMED%20AND%20EXT_ID%3A14602926

https://europepmc.org/articles/PMC275550

29 March 2024

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?resulttype=core&format=json&query=SRC%3AMED%20AND%20EXT_ID%3A14602926

https://europepmc.org/articles/PMC275550?pdf=render

29 March 2024

file format

Portable Document Format

online access status

open access

content deliverer

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?resulttype=core&format=json&query=SRC%3AMED%20AND%20EXT_ID%3A14602926

https://doi.org/10.1093/nar/gkg854

29 March 2024

online access status

open access

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?resulttype=core&format=json&query=SRC%3AMED%20AND%20EXT_ID%3A14602926

http://academic.oup.com/nar/article-pdf/31/22/6651/7039073/gkg854.pdf

29 March 2024

file format

Portable Document Format

1 reference

https://api.crossref.org/works/10.1093/NAR/GKG854

29 March 2024

published in

Nucleic Acids Research

1 reference

20 August 2017

31

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20 August 2017

22

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20 August 2017

6651-6662

1 reference

Intrinsic DNA bends: an organizer of local chromatin structure for transcription

20 August 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=275550

Structural and functional features of a specific nucleosome containing a recognition element for the thyroid hormone receptor.

6 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=275550

Differential behavior of curved DNA upon untwisting

6 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=275550

A role for a bent DNA structure in E2F-mediated transcription activation

6 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=275550

Co-crystal structure of TBP recognizing the minor groove of a TATA element

6 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=275550

Crystal structure of a yeast TBP/TATA-box complex

6 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=275550

Promoter structure and intron-exon organization of a scorpion alpha-toxin gene

6 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=275550

Adjacent upstream superhelical writhe influences an Escherichia coli promoter as measured by in vivo strength and in vitro open complex formation

6 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=275550

RASMOL: biomolecular graphics for all

6 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=275550

A cell-specific activator in the Xenopus A2 vitellogenin gene: promoter elements functioning with rat liver nuclear extracts

6 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=275550

Formation, stability and core histone positioning of nucleosomes reassembled on bent and other nucleosome-derived DNA.

6 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=275550

6 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=275550

Sequence-directed curvature of DNA.

6 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=275550

Curved DNA without A-A: experimental estimation of all 16 DNA wedge angles

6 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=275550

Mobile nucleosomes--a general behavior

6 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=275550

Transcription initiation in vivo without classical transactivators: DNA kinks flanking the core promoter of the housekeeping yeast adenylate kinase gene, AKY2, position nucleosomes and constitutively activate transcription

6 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=275550

Common DNA structural features exhibited by eukaryotic ribosomal gene promoters.

14 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=275550

Promoters responsive to DNA bending: a common theme in prokaryotic gene expression

14 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=275550

Accessibility of a glucocorticoid response element in a nucleosome depends on its rotational positioning

14 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=275550

Sequence specific cleavage of DNA by micrococcal nuclease

14 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=275550

The ten helical twist angles of B-DNA.

14 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=275550

High sequence specificity of micrococcal nuclease

14 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=275550

DNA bending and binding factors of the human beta-actin promoter

14 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=275550

Upstream half of adenovirus type 2 enhancer adopts a curved DNA conformation.

14 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=275550

DIAMOD: display and modeling of DNA bending

14 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=275550

Nucleosome positioning can affect the function of a cis-acting DNA element in vivo

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=275550

Transcription factors vs nucleosomes: regulation of the PHO5 promoter in yeast

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=275550

Multiple specific contacts between a mammalian transcription factor and its cognate promoters

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=275550

The intrinsic curvature of DNA in solution.

26 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=275550

Two distinct transcription factors bind to the HSV thymidine kinase promoter in vitro

26 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=275550

A human centromere antigen (CENP-B) interacts with a short specific sequence in alphoid DNA, a human centromeric satellite

26 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=275550

Attraction, phasing and neighbour effects of histone octamers on curved DNA.

26 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=275550

Nucleosome positioning modulates accessibility of regulatory proteins to the mouse mammary tumor virus promoter

26 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=275550

Intrinsically bent DNA flanks both sides of an RNA polymerase I transcription start site. Both regions display novel electrophoretic mobility

26 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=275550

Intrinsically bent DNA in the promoter regions of the yeast GAAL1-10 and GAL80 genes.

26 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=275550

Evidence for intrinsic DNA bends within the human cdc2 promoter

2 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=275550

The 5' ends of Drosophila heat shock genes in chromatin are hypersensitive to DNase I.

2 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=275550

Structural features of a regulatory nucleosome

2 September 2018

1 reference

12 December 2020

Different superstructural features of the light responsive elements of the pea genes rbcS-3A and rbcS-3.6.

1 reference

12 December 2020

Transcription factor loading on the MMTV promoter: a bimodal mechanism for promoter activation

1 reference

12 December 2020

Translational positioning of a nucleosomal glucocorticoid response element modulates glucocorticoid receptor affinity

1 reference

12 December 2020

Intrinsically bent DNA in a eukaryotic transcription factor recognition sequence potentiates transcription activation

1 reference

12 December 2020

Silenced chromatin is permissive to activator binding and PIC recruitment

1 reference

12 December 2020

Nucleosome sliding via TBP DNA binding in vivo

1 reference

12 December 2020

Non-random cleavage of SV40 DNA in the compact minichromosome and free in solution by micrococcal nuclease

1 reference

12 December 2020

Nuclease digestion of circular TRP1ARS1 chromatin reveals positioned nucleosomes separated by nuclease-sensitive regions

1 reference

12 December 2020

Curves with a function

1 reference

12 December 2020

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

1 reference

12 December 2020

Chromatin structure of the yeast URA3 gene at high resolution provides insight into structure and positioning of nucleosomes in the chromosomal context

1 reference

12 December 2020

A specialized nucleosome modulates transcription factor access to a C. glabrata metal responsive promoter

1 reference

12 December 2020

Bent DNA in the human adenovirus type 2 E1A enhancer is an architectural element for transcription stimulation

1 reference

12 December 2020

Identification and characterization of genomic nucleosome-positioning sequences

1 reference

12 December 2020

Curvature and sequence analysis of eukaryotic promoters

1 reference

12 December 2020

Identifiers

DOI

10.1093/NAR/GKG854

1 reference

20 August 2017

1 reference

20 August 2017

1 reference