(Q33722783)

28 July 2017

title

The effects of upstream DNA on open complex formation by Escherichia coli RNA polymerase (English)

1 reference

28 July 2017

1 reference

Caroline A Davis

1

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28 July 2017

Michael W Capp

series ordinal

2

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28 July 2017

M Thomas Record

series ordinal

3

1 reference

28 July 2017

Ruth M Saecker

series ordinal

4

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28 July 2017

language of work or name

English

0 references

publication date

30 December 2004

1 reference

Proceedings of the National Academy of Sciences of the United States of America

28 July 2017

published in

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28 July 2017

volume

102

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28 July 2017

issue

2

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28 July 2017

page(s)

285-290

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describes a project that uses

28 July 2017

ImageQuant

1 reference

11 June 2022

https://www.ebi.ac.uk/europepmc/webservices/rest/PMC544287/fullTextXML

based on heuristic

inferred from PubMed Central ID database lookup

cites work

Sequence-independent upstream DNA-alphaCTD interactions strongly stimulate Escherichia coli RNA polymerase-lacUV5 promoter association

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Structural basis of transcription: an RNA polymerase II-TFIIB cocrystal at 4.5 Angstroms

21 June 2018

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Structure of a ternary transcription activation complex

21 June 2018

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Tethering sigma70 to RNA polymerase reveals high in vivo activity of sigma factors and sigma70-dependent pausing at promoter-distal locations

21 June 2018

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On the role of the Escherichia coli RNA polymerase sigma 70 region 4.2 and alpha-subunit C-terminal domains in promoter complex formation on the extended -10 galP1 promoter

21 June 2018

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21 June 2018

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Structural basis of transcription activation: the CAP-alpha CTD-DNA complex

21 June 2018

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21 June 2018

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21 June 2018

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21 June 2018

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21 June 2018

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21 June 2018

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Structural organization of bacterial RNA polymerase holoenzyme and the RNA polymerase-promoter open complex

21 June 2018

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Mechanism for a transcriptional activator that works at the isomerization step

21 June 2018

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UPs and downs in bacterial transcription initiation: the role of the alpha subunit of RNA polymerase in promoter recognition

21 June 2018

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Structural organization of the RNA polymerase-promoter open complex

21 June 2018

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Bacterial promoter architecture: subsite structure of UP elements and interactions with the carboxy-terminal domain of the RNA polymerase alpha subunit

21 June 2018

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Wrapping of DNA around the E.coli RNA polymerase open promoter complex

21 June 2018

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General method of analysis of kinetic equations for multistep reversible mechanisms in the single-exponential regime: application to kinetics of open complex formation between Esigma70 RNA polymerase and lambdaP(R) promoter DNA.

21 June 2018

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Promoter recognition by Escherichia coli RNA polymerase: effects of the UP element on open complex formation and promoter clearance

21 June 2018

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Upstream A-tracts increase bacterial promoter activity through interactions with the RNA polymerase alpha subunit

21 June 2018

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DNA footprints of the two kinetically significant intermediates in formation of an RNA polymerase-promoter open complex: evidence that interactions with start site and downstream DNA induce sequential conformational changes in polymerase and DNA.

21 June 2018

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21 June 2018

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A mutant RNA polymerase that forms unusual open promoter complexes

21 June 2018

1 reference

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Changing the mechanism of transcriptional activation by phage lambda repressor

21 June 2018

1 reference

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Variable structures of Fis-DNA complexes determined by flanking DNA-protein contacts

21 June 2018

1 reference

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Crystal structure of an IHF-DNA complex: a protein-induced DNA U-turn

21 June 2018

1 reference

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Upstream interactions at the lambda pRM promoter are sequence nonspecific and activate the promoter to a lesser extent than an introduced UP element of an rRNA promoter

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=544287

Biochemistry and structural biology of transcription factor IID (TFIID)

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=544287

Interference by PR-bound RNA polymerase with PRM function in vitro. Modulation by the bacteriophage lambda cI protein.

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=544287

Two open complexes and a requirement for Mg2+ to open the lambda PR transcription start site

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=544287

Promoter resurrection by activators--a minireview

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=544287

Transcription activation at Class I CAP-dependent promoters

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=544287

E. coli RNA polymerase, deleted in the C-terminal part of its alpha-subunit, interacts differently with the cAMP-CRP complex at the lacP1 and at the galP1 promoter

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=544287

A third recognition element in bacterial promoters: DNA binding by the alpha subunit of RNA polymerase

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=544287

Factor independent activation of rrnB P1. An "extended" promoter with an upstream element that dramatically increases promoter strength

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=544287

HO. and DNase I probing of E sigma 70 RNA polymerase--lambda PR promoter open complexes: Mg2+ binding and its structural consequences at the transcription start site

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=544287

Mapping of single-stranded regions in duplex DNA at the sequence level: single-strand-specific cytosine methylation in RNA polymerase-promoter complexes

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=544287

Quantitative model for gene regulation by lambda phage repressor

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=544287

Kinetics and mechanism of the interaction of Escherichia coli RNA polymerase with the λPR promoter

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=544287

Mutations affecting two different steps in transcription initiation at the phage λ P RM promoter

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=544287

A Genetic Switch in a Bacterial Virus

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=544287

Temperature dependence of the rate constants of the Escherichia coli RNA polymerase-lambda PR promoter interaction. Assignment of the kinetic steps corresponding to protein conformational change and DNA opening

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=544287

Kinetics of open complex formation between Escherichia coli RNA polymerase and the lac UV5 promoter. Evidence for a sequential mechanism involving three steps

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=544287

Mechanism and control of transcription initiation in prokaryotes

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=544287

The 0 degree C closed complexes between Escherichia coli RNA polymerase and two promoters, T7-A3 and lacUV5.

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=544287

Topography of intermediates in transcription initiation of E.coli

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=544287

RNA polymerase bound to the PR promoter of bacteriophage lambda inhibits open complex formation at the divergently transcribed PRM promoter. Implications for an indirect mechanism of transcriptional activation by lambda repressor

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=544287

Crystal structure of a CAP-DNA complex: the DNA is bent by 90 degrees

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=544287

Both fis-dependent and factor-independent upstream activation of the rrnB P1 promoter are face of the helix dependent

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=544287

X-ray structure of the DNase I-d(GGTATACC)2 complex at 2.3 A resolution

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=544287

Roles of Mg2+ in the mechanism of formation and dissociation of open complexes between Escherichia coli RNA polymerase and the lambda PR promoter: kinetic evidence for a second open complex requiring Mg2+

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=544287

Transcription activation by cAMP receptor protein (CRP) at the Escherichia coli gal P1 promoter. Crucial role for the spacing between the CRP binding site and the -10 region

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=544287

Procedure for the rapid, large-scale purification of Escherichia coli DNA-dependent RNA polymerase involving polymin P precipitation and DNA-cellulose chromatography

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=544287

A simple procedure for resolution of Escherichia coli RNA polymerase holoenzyme from core polymerase

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=544287

Mechanism of activation of transcription initiation from the λPRM promoter

21 June 2018

1 reference

Crossref

https://api.crossref.org/works/10.1073%2FPNAS.0405779102

Three-dimensional structure of E. coli core RNA polymerase: promoter binding and elongation conformations of the enzyme.

21 January 2018

1 reference

Crossref

https://api.crossref.org/works/10.1073%2FPNAS.0405779102

Regulation of the kinetics of the interaction of Escherichia coli RNA polymerase with the lambda PR promoter by salt concentration

21 January 2018

1 reference

Crossref

https://api.crossref.org/works/10.1073%2FPNAS.0405779102

21 January 2018

Identifiers

DOI

10.1073/PNAS.0405779102

1 reference

28 July 2017

0 references

1 reference

28 July 2017

1 reference