(Q33935133)

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Real-time characterization of intermediates in the pathway to open complex formation by Escherichia coli RNA polymerase at the T7A1 promoter

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scholarly article

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Europe PubMed Central

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https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:15738402%20AND%20SRC:MED&resulttype=core&format=json

9 January 2020

Real-time characterization of intermediates in the pathway to open complex formation by Escherichia coli RNA polymerase at the T7A1 promoter (English)

1 reference

Europe PubMed Central

PMC publication ID

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:15738402%20AND%20SRC:MED&resulttype=core&format=json

9 January 2020

Escherichia coli

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inferred from title

1

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https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:15738402%20AND%20SRC:MED&resulttype=core&format=json

9 January 2020

author name string

Evgeny Zaychikov

2

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https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:15738402%20AND%20SRC:MED&resulttype=core&format=json

9 January 2020

Anastasia Rogozina

3

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https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:15738402%20AND%20SRC:MED&resulttype=core&format=json

9 January 2020

Ferdinand Walther

4

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PMC publication ID

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:15738402%20AND%20SRC:MED&resulttype=core&format=json

9 January 2020

Malcolm Buckle

5

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PMC publication ID

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:15738402%20AND%20SRC:MED&resulttype=core&format=json

9 January 2020

Hermann Heumann

6

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9 January 2020

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publication date

28 February 2005

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9 January 2020

number of pages

6

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

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Europe PubMed Central

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9 January 2020

102

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9 January 2020

13

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https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:15738402%20AND%20SRC:MED&resulttype=core&format=json

9 January 2020

4706-4711

1 reference

Europe PubMed Central

PMC publication ID

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:15738402%20AND%20SRC:MED&resulttype=core&format=json

9 January 2020

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

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=555702

28 July 2018

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

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=555702

28 July 2018

An intersubunit contact stimulating transcription initiation by E coli RNA polymerase: interaction of the alpha C-terminal domain and sigma region 4.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=555702

28 July 2018

Bacterial RNA polymerases: the wholo story

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=555702

28 July 2018

Kinetic studies and structural models of the association of E. coli sigma(70) RNA polymerase with the lambdaP(R) promoter: large scale conformational changes in forming the kinetically significant intermediates

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=555702

28 July 2018

Structural basis of transcription initiation: an RNA polymerase holoenzyme-DNA complex

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=555702

28 July 2018

Structure of the bacterial RNA polymerase promoter specificity sigma subunit

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=555702

28 July 2018

Function of the bacterial TATAAT -10 element as single-stranded DNA during RNA polymerase isomerization

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=555702

28 July 2018

Interaction of the C-terminal domain of the E. coli RNA polymerase alpha subunit with the UP element: recognizing the backbone structure in the minor groove surface

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=555702

28 July 2018

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

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=555702

28 July 2018

A structural model of transcription elongation

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=555702

28 July 2018

Escherichia coli promoter opening and -10 recognition: mutational analysis of sigma70.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=555702

28 July 2018

Direct observation of one-dimensional diffusion and transcription by Escherichia coli RNA polymerase

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=555702

28 July 2018

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

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=555702

28 July 2018

The functional and regulatory roles of sigma factors in transcription

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=555702

28 July 2018

An inactive open complex mediated by an UP element at Escherichia coli promoters

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=555702

28 July 2018

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

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=555702

28 July 2018

The kinetics of sigma subunit directed promoter recognition by E. coli RNA polymerase

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=555702

28 July 2018

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.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=555702

28 July 2018

Stopped-flow kinetic analysis of the interaction of Escherichia coli RNA polymerase with the bacteriophage T7 A1 promoter

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=555702

28 July 2018

Promoter opening via a DNA fork junction binding activity

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=555702

28 July 2018

DNA strand breaking by the hydroxyl radical is governed by the accessible surface areas of the hydrogen atoms of the DNA backbone

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=555702

28 July 2018

RNA polymerase-promoter interactions: the comings and goings of RNA polymerase

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=555702

28 July 2018

From Levinthal to pathways to funnels

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=555702

28 July 2018

Histidine-tagged RNA polymerase of Escherichia coli and transcription in solid phase.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=555702

28 July 2018

Visualization of single molecules of RNA polymerase sliding along DNA.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=555702

28 July 2018

Kinetic measurements of Escherichia coli RNA polymerase association with bacteriophage T7 early promoters

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=555702

28 July 2018

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

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=555702

28 July 2018

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

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=555702

28 July 2018

Promoters of Escherichia coli: a hierarchy of in vivo strength indicates alternate structures.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=555702

28 July 2018

"Footprint" titrations yield valid thermodynamic isotherms

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=555702

28 July 2018

One-dimensional diffusion of Escherichia coli DNA-dependent RNA polymerase: a mechanism to facilitate promoter location

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=555702

28 July 2018

Topography of intermediates in transcription initiation of E.coli

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=555702

28 July 2018

Preparation and characterization of N-(1-pyrenyl)iodoacetamide-labeled Escherichia coli RNA polymerase.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=555702

28 July 2018

Flexibility of the DNA enhances promoter affinity of Escherichia coli RNA polymerase

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=555702

28 July 2018

Structural organization of the RNA polymerase-promoter open complex

1 reference

https://api.crossref.org/works/10.1073%2FPNAS.0408218102

21 January 2018

Requirement for an upstream element for optimal transcription of a bacterial tRNA gene

1 reference

https://api.crossref.org/works/10.1073%2FPNAS.0408218102

21 January 2018

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

1 reference

https://api.crossref.org/works/10.1073%2FPNAS.0408218102

21 January 2018

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

1 reference

https://api.crossref.org/works/10.1073%2FPNAS.0408218102

21 January 2018

Characterization of the closed complex intermediate formed during transcription initiation by Escherichia coli RNA polymerase

1 reference

https://api.crossref.org/works/10.1073%2FPNAS.0408218102

21 January 2018

Probing the structural dynamics of nucleic acids by quantitative time-resolved and equilibrium hydroxyl radical "footprinting".

1 reference

https://api.crossref.org/works/10.1073%2FPNAS.0408218102

21 January 2018

Interaction of bacterial RNA-polymerase with two different promoters of phage T7 DNA. Conformational analysis.

1 reference

https://api.crossref.org/works/10.1073%2FPNAS.0408218102

21 January 2018

Fast folding of a ribozyme by stabilizing core interactions: evidence for multiple folding pathways in RNA.

1 reference

https://api.crossref.org/works/10.1073%2FPNAS.0408218102

21 January 2018

Functional interaction between RNA polymerase alpha subunit C-terminal domain and sigma70 in UP-element- and activator-dependent transcription

1 reference

https://api.crossref.org/works/10.1073%2FPNAS.0408218102

21 January 2018

Molecular mechanism of promoter selection in gene transcription. II. Kinetic evidence for promoter search by a one-dimensional diffusion of RNA polymerase molecule along the DNA template

1 reference

https://pubmed.ncbi.nlm.nih.gov/15738402

12 December 2020

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10.1073/PNAS.0408218102

1 reference

Europe PubMed Central

PMC publication ID

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:15738402%20AND%20SRC:MED&resulttype=core&format=json

9 January 2020

2005PNAS..102.4706S

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1 reference

Europe PubMed Central

PMC publication ID

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:15738402%20AND%20SRC:MED&resulttype=core&format=json

9 January 2020

PubMed publication ID

1 reference

Europe PubMed Central

PMC publication ID

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:15738402%20AND%20SRC:MED&resulttype=core&format=json

9 January 2020

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