(Q25255716)

6 July 2017

title

Changes in DNA bending and flexing due to tethered cations detected by fluorescence resonance energy transfer (English)

1 reference

6 July 2017

Sarah L Williams

1

1 reference

6 July 2017

Laura K Parkhurst

series ordinal

2

1 reference

6 July 2017

Lawrence J Parkhurst

series ordinal

3

1 reference

6 July 2017

language of work or name

English

0 references

publication date

14 February 2006

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6 July 2017

published in

Nucleic Acids Research

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6 July 2017

volume

34

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6 July 2017

issue

3

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6 July 2017

page(s)

1028-1035

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TATA element recognition by the TATA box-binding protein has been conserved throughout evolution

6 July 2017

cites work

1 reference

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How proteins recognize the TATA box

7 April 2017

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Crystal structure of a human TATA box-binding protein/TATA element complex

7 April 2017

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

7 April 2017

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

7 April 2017

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Crystal structure of a yeast TBP/TATA-box complex

7 April 2017

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Structural basis for DNA bending by the architectural transcription factor LEF-1

7 April 2017

1 reference

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Structure of serum response factor core bound to DNA

7 April 2017

1 reference

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Refinement of Eco RI endonuclease crystal structure: a revised protein chain tracing

7 April 2017

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Testing for serial correlation in least squares regression. I

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1369283

Biochemistry and structural biology of transcription factor IID (TFIID)

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1369283

Reflections on apparent DNA bending by charge variants of bZIP proteins.

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1369283

Fluorescence resonance energy transfer over approximately 130 basepairs in hyperstable lac repressor-DNA loops

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1369283

Effect of cationic charge localization on DNA structure

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1369283

Thermodynamic and hydration effects for the incorporation of a cationic 3-aminopropyl chain into DNA

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1369283

Time-resolved fluorescence resonance energy transfer studies of DNA bending in double-stranded oligonucleotides and in DNA-protein complexes

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1369283

Charge neutralization and DNA bending by the Escherichia coli catabolite activator protein

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1369283

Comparison of TATA-binding protein recognition of a variant and consensus DNA 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=1369283

Incorporation of a cationic aminopropyl chain in DNA hairpins: thermodynamics and hydration

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1369283

Signals for TBP/TATA box recognition

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1369283

Minor groove-binding architectural proteins: structure, function, and DNA recognition.

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1369283

DNA bending by small, mobile multivalent cations

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1369283

Electrostatic effects in DNA bending by GCN4 mutants

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1369283

DNA bending by a phantom protein

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1369283

DNA bending by hexamethylene-tethered ammonium ions

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1369283

Simultaneous binding and bending of promoter DNA by the TATA binding protein: real time kinetic measurements

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1369283

Observing the helical geometry of double-stranded DNA in solution by fluorescence resonance energy transfer

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1369283

The solution structure of the four-way DNA junction at low-salt conditions: a fluorescence resonance energy transfer analysis

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1369283

Resonance energy transfer: methods and applications

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1369283

DNA bending by asymmetric phosphate neutralization

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1369283

Kinetic studies by fluorescence resonance energy transfer employing a double-labeled oligonucleotide: hybridization to the oligonucleotide complement and to single-stranded DNA.

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1369283

Kinking of DNA and RNA helices by bulged nucleotides observed by fluorescence resonance energy transfer

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1369283

Synthesis and application of derivatizable oligonucleotides

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1369283

DNA bending by bZIP charge variants: a unified study using electrophoretic phasing and fluorescence resonance energy transfer

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1369283

DNA bending by GCN4 mutants bearing cationic residues

31 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1369283

Targeted base stacking disruption by the EcoRI DNA methyltransferase

31 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1369283

Selective DNA bending by a variety of bZIP proteins

31 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1369283

The effect of DNA sequence, ionic strength, and cationic DNA affinity binders on the methylation of DNA by N-methyl-N-nitrosourea

31 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1369283

Orientation factor in steady-state and time-resolved resonance energy transfer measurements

31 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1369283

DNA sequence determinants of CAP-induced bending and protein binding affinity.

31 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1369283

Structure of B-DNA with cations tethered in the major groove

19 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1369283

Determining the origin of the stabilization of DNA by 5-aminopropynylation of pyrimidines

28 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1369283

Distance parameters derived from time-resolved Förster resonance energy transfer measurements and their use in structural interpretations of thermodynamic quantities associated with protein-DNA interactions

28 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1369283

Native human TATA-binding protein simultaneously binds and bends promoter DNA without a slow isomerization step or TFIIB requirement

28 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1369283

Structure of a tethered cationic 3-aminopropyl chain incorporated into an oligodeoxynucleotide: evidence for 3'-orientation in the major groove accompanied by DNA bending

28 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1369283

DNA bending by asymmetrically tethered cations: influence of tether flexibility

28 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1369283

DNA curvature in solution measured by fluorescence resonance energy transfer

28 November 2018

1 reference

12 December 2020

The helix-coil transition of DNA duplexes and hairpins observed by multiple fluorescence parameters

1 reference

12 December 2020

DNA sequence-specific recognition by the Saccharomyces cerevisiae "TATA" binding protein: promoter-dependent differences in the thermodynamics and kinetics of binding

1 reference

12 December 2020

Folding of the four-way RNA junction of the hairpin ribozyme

1 reference

12 December 2020

An estimate of the extent of folding of nucleosomal DNA by laterally asymmetric neutralization of phosphate groups

1 reference

12 December 2020

Fluorescence resonance energy transfer analysis of the structure of the four-way DNA junction

1 reference

12 December 2020

Mechanisms of DNA bending

1 reference

12 December 2020

Intermediate species possessing bent DNA are present along the pathway to formation of a final TBP-TATA complex

1 reference

12 December 2020

Testing for serial correlation in least squares regression. II

1 reference

12 December 2020

Location of cyanine-3 on double-stranded DNA: importance for fluorescence resonance energy transfer studies

1 reference

12 December 2020

DNA bends in TATA-binding protein-TATA complexes in solution are DNA sequence-dependent

1 reference

12 December 2020

DNA sequence-dependent differences in TATA-binding protein-induced DNA bending in solution are highly sensitive to osmolytes

1 reference

12 December 2020

Marked stepwise differences within a common kinetic mechanism characterize TATA-binding protein interactions with two consensus promoters

1 reference

12 December 2020

Oligodeoxyribonucleotides synthesis. Phosphoramidite approach

1 reference

12 December 2020

Thermodynamic characterization of the cooperativity of 40S complex formation during the initiation of eukaryotic protein synthesis

1 reference

12 December 2020

Donor-acceptor distance distributions in a double-labeled fluorescent oligonucleotide both as a single strand and in duplexes

1 reference

12 December 2020

DNA bending is an important component of site-specific recognition by the TATA binding protein

1 reference

12 December 2020

Regioselective effect of zwitterionic DNA substitutions on DNA alkylation: evidence for a strong side chain orientational preference

1 reference

12 December 2020

Electrostatic mechanism for DNA bending by bZIP proteins

1 reference

12 December 2020

Global structure of three-way DNA junctions with and without additional unpaired bases: a fluorescence resonance energy transfer analysis

1 reference

12 December 2020

Identifiers

DOI

10.1093/NAR/GKJ498

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6 July 2017

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6 July 2017

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