(Q34816592)

4 August 2017

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title

Promoter clearance and escape in prokaryotes (English)

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4 August 2017

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Lilian M Hsu

1

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PubMed ID

12213652

4 August 2017

language of work or name

English

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publication date

1 September 2002

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Biochimica et Biophysica Acta

4 August 2017

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4 August 2017

1577

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4 August 2017

191-207

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4 August 2017

2

1 reference

Spontaneous cleavage of RNA in ternary complexes of Escherichia coli RNA polymerase and its significance for the mechanism of transcription

4 August 2017

1 reference

https://api.crossref.org/works/10.1016%2FS0167-4781%2802%2900452-9

7 January 2021

RNA chain elongation by Escherichia coli RNA polymerase. Factors affecting the stability of elongating ternary complexes

1 reference

https://api.crossref.org/works/10.1016%2FS0167-4781%2802%2900452-9

7 January 2021

Structural analysis of ternary complexes of Escherichia coli RNA polymerase. Deoxyribonuclease I footprinting of defined complexes

1 reference

https://api.crossref.org/works/10.1016%2FS0167-4781%2802%2900452-9

7 January 2021

GreA protein: a transcription elongation factor from Escherichia coli

1 reference

https://api.crossref.org/works/10.1016%2FS0167-4781%2802%2900452-9

7 January 2021

Transcript cleavage factors from E. coli.

1 reference

https://api.crossref.org/works/10.1016%2FS0167-4781%2802%2900452-9

7 January 2021

The RNA polymerase II ternary complex cleaves the nascent transcript in a 3'----5' direction in the presence of elongation factor SII

1 reference

https://api.crossref.org/works/10.1016%2FS0167-4781%2802%2900452-9

7 January 2021

The active site of RNA polymerase II participates in transcript cleavage within arrested ternary complexes

1 reference

https://api.crossref.org/works/10.1016%2FS0167-4781%2802%2900452-9

7 January 2021

Intrinsic transcript cleavage activity of RNA polymerase

1 reference

https://api.crossref.org/works/10.1016%2FS0167-4781%2802%2900452-9

7 January 2021

RNA polymerase marching backward

1 reference

https://api.crossref.org/works/10.1016%2FS0167-4781%2802%2900452-9

7 January 2021

Promoter proximal sequences modulate RNA polymerase II elongation by a novel mechanism.

1 reference

https://api.crossref.org/works/10.1016%2FS0167-4781%2802%2900452-9

7 January 2021

The RNA-DNA hybrid maintains the register of transcription by preventing backtracking of RNA polymerase.

1 reference

https://api.crossref.org/works/10.1016%2FS0167-4781%2802%2900452-9

7 January 2021

Transcriptional arrest: Escherichia coli RNA polymerase translocates backward, leaving the 3' end of the RNA intact and extruded

1 reference

https://api.crossref.org/works/10.1016%2FS0167-4781%2802%2900452-9

7 January 2021

Escherichia coli transcript cleavage factors GreA and GreB stimulate promoter escape and gene expression in vivo and in vitro

1 reference

https://api.crossref.org/works/10.1016%2FS0167-4781%2802%2900452-9

7 January 2021

Function of transcription cleavage factors GreA and GreB at a regulatory pause site

1 reference

https://api.crossref.org/works/10.1016%2FS0167-4781%2802%2900452-9

7 January 2021

Basic mechanisms of transcript elongation and its regulation

1 reference

https://api.crossref.org/works/10.1016%2FS0167-4781%2802%2900452-9

7 January 2021

Transcription elongation: structural basis and mechanisms

1 reference

https://api.crossref.org/works/10.1016%2FS0167-4781%2802%2900452-9

7 January 2021

Crystal structure of bacteriophage T7 RNA polymerase at 3.3 A resolution

1 reference

https://api.crossref.org/works/10.1016%2FS0167-4781%2802%2900452-9

7 January 2021

Structure of T7 RNA polymerase complexed to the transcriptional inhibitor T7 lysozyme

1 reference

https://api.crossref.org/works/10.1016%2FS0167-4781%2802%2900452-9

7 January 2021

Structural basis for initiation of transcription from an RNA polymerase-promoter complex

1 reference

https://api.crossref.org/works/10.1016%2FS0167-4781%2802%2900452-9

7 January 2021

Structure of a transcribing T7 RNA polymerase initiation complex

1 reference

https://api.crossref.org/works/10.1016%2FS0167-4781%2802%2900452-9

7 January 2021

Crystal structure of Thermus aquaticus core RNA polymerase at 3.3 A resolution.

1 reference

https://api.crossref.org/works/10.1016%2FS0167-4781%2802%2900452-9

7 January 2021

Structural basis of transcription: RNA polymerase II at 2.8 angstrom resolution

1 reference

https://api.crossref.org/works/10.1016%2FS0167-4781%2802%2900452-9

7 January 2021

Structural basis of transcription: an RNA polymerase II elongation complex at 3.3 A resolution

1 reference

https://api.crossref.org/works/10.1016%2FS0167-4781%2802%2900452-9

7 January 2021

Structural basis of transcription initiation: RNA polymerase holoenzyme at 4 A resolution

1 reference

https://api.crossref.org/works/10.1016%2FS0167-4781%2802%2900452-9

7 January 2021

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

1 reference

https://api.crossref.org/works/10.1016%2FS0167-4781%2802%2900452-9

7 January 2021

RNA polymerase as a molecular motor

1 reference

https://api.crossref.org/works/10.1016%2FS0167-4781%2802%2900452-9

7 January 2021

Processivity in early stages of transcription by T7 RNA polymerase

1 reference

https://api.crossref.org/works/10.1016%2FS0167-4781%2802%2900452-9

7 January 2021

T7 RNA polymerase elongation complex structure and movement

1 reference

https://api.crossref.org/works/10.1016%2FS0167-4781%2802%2900452-9

7 January 2021

Mechanism and control of transcription initiation in prokaryotes

1 reference

https://api.crossref.org/works/10.1016%2FS0167-4781%2802%2900452-9

7 January 2021

Cycling of ribonucleic acid polymerase to produce oligonucleotides during initiation in vitro at the lac UV5 promoter

1 reference

https://api.crossref.org/works/10.1016%2FS0167-4781%2802%2900452-9

7 January 2021

Abortive initiation and long ribonucleic acid synthesis

1 reference

https://api.crossref.org/works/10.1016%2FS0167-4781%2802%2900452-9

7 January 2021

Function of E. coli RNA polymerase sigma factor sigma 70 in promoter-proximal pausing

1 reference

https://api.crossref.org/works/10.1016%2FS0167-4781%2802%2900452-9

7 January 2021

Interaction of RNA polymerase with lacUV5 promoter DNA during mRNA initiation and elongation. Footprinting, methylation, and rifampicin-sensitivity changes accompanying transcription initiation.

1 reference

https://api.crossref.org/works/10.1016%2FS0167-4781%2802%2900452-9

7 January 2021

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

1 reference

https://api.crossref.org/works/10.1016%2FS0167-4781%2802%2900452-9

7 January 2021

Rate-limiting steps in RNA chain initiation

1 reference

https://api.crossref.org/works/10.1016%2FS0167-4781%2802%2900452-9

7 January 2021

Escherichia colipromoter sequences predictin vitroRNA polymerase selectivity

1 reference

https://api.crossref.org/works/10.1016%2FS0167-4781%2802%2900452-9

7 January 2021

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

1 reference

https://api.crossref.org/works/10.1016%2FS0167-4781%2802%2900452-9

7 January 2021

Functional dissection of Escherichia coli promoters: information in the transcribed region is involved in late steps of the overall process.

1 reference

https://api.crossref.org/works/10.1016%2FS0167-4781%2802%2900452-9

7 January 2021

Lac UV5 transcription in vitro. Rate limitation subsequent to formation of an RNA polymerase-DNA complex

1 reference

https://api.crossref.org/works/10.1016%2FS0167-4781%2802%2900452-9

7 January 2021

A stressed intermediate in the formation of stably initiated RNA chains at the Escherichia coli lac UV5 promoter.

1 reference

https://api.crossref.org/works/10.1016%2FS0167-4781%2802%2900452-9

7 January 2021

RNA chain initiation by Escherichia coli RNA polymerase. Structural transitions of the enzyme in early ternary complexes

1 reference

https://api.crossref.org/works/10.1016%2FS0167-4781%2802%2900452-9

7 January 2021

Nucleation of RNA chain formation by Escherichia coli DNA-dependent RNA polymerase

1 reference

https://api.crossref.org/works/10.1016%2FS0167-4781%2802%2900452-9

7 January 2021

Isolation and characterization of sigma(70)-retaining transcription elongation complexes from Escherichia coli

1 reference

https://api.crossref.org/works/10.1016%2FS0167-4781%2802%2900452-9

7 January 2021

Translocation of sigma(70) with RNA polymerase during transcription: fluorescence resonance energy transfer assay for movement relative to DNA.

1 reference

https://api.crossref.org/works/10.1016%2FS0167-4781%2802%2900452-9

7 January 2021

Cyclic Re-use of the RNA Polymerase Sigma Factor

1 reference

https://api.crossref.org/works/10.1016%2FS0167-4781%2802%2900452-9

7 January 2021

Sigma cycle during in vitro transcription: demonstration by nanosecond fluorescence depolarization spectroscopy

1 reference

https://api.crossref.org/works/10.1016%2FS0167-4781%2802%2900452-9

7 January 2021

Release of the sigma subunit of Pseudomonas putida deoxyribonucleic acid dependent ribonucleic acid polymerase

1 reference

https://api.crossref.org/works/10.1016%2FS0167-4781%2802%2900452-9

7 January 2021

Restructuring of an RNA polymerase holoenzyme elongation complex by lambdoid phage Q proteins

1 reference

https://api.crossref.org/works/10.1016%2FS0167-4781%2802%2900452-9

7 January 2021

The rpoB mutants destabilizing initiation complexes at stringently controlled promoters behave like "stringent" RNA polymerases in Escherichia coli

1 reference

https://api.crossref.org/works/10.1016%2FS0167-4781%2802%2900452-9

7 January 2021

The G+C-rich discriminator region of the tyrT promoter antagonises the formation of stable preinitiation complexes

1 reference

https://api.crossref.org/works/10.1016%2FS0167-4781%2802%2900452-9

7 January 2021

Mechanism of regulation of transcription initiation by ppGpp. I. Effects of ppGpp on transcription initiation in vivo and in vitro

1 reference

https://api.crossref.org/works/10.1016%2FS0167-4781%2802%2900452-9

7 January 2021

Growth phase and growth rate regulation of the rapA gene, encoding the RNA polymerase-associated protein RapA in Escherichia coli

1 reference

https://api.crossref.org/works/10.1016%2FS0167-4781%2802%2900452-9

7 January 2021

Structural kinetics of transcription activation at the malT promoter of Escherichia coli by UV laser footprinting

1 reference

https://api.crossref.org/works/10.1016%2FS0167-4781%2802%2900452-9

7 January 2021

Quantitative parameters for promoter clearance

1 reference

https://api.crossref.org/works/10.1016%2FS0167-4781%2802%2900452-9

7 January 2021

Productive and abortive initiation of transcription in vitro at the lac UV5 promoter

1 reference

https://api.crossref.org/works/10.1016%2FS0167-4781%2802%2900452-9

7 January 2021

A branched pathway in the early stage of transcription by Escherichia coli RNA polymerase.

1 reference

https://api.crossref.org/works/10.1016%2FS0167-4781%2802%2900452-9

7 January 2021

Conformational switching of Escherichia coli RNA polymerase-promoter binary complex is facilitated by elongation factor GreA and GreB.

1 reference

https://api.crossref.org/works/10.1016%2FS0167-4781%2802%2900452-9

7 January 2021

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

1 reference

https://api.crossref.org/works/10.1016%2FS0167-4781%2802%2900452-9

7 January 2021

Protein-protein communication within the transcription apparatus

1 reference

https://api.crossref.org/works/10.1016%2FS0167-4781%2802%2900452-9

7 January 2021

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://api.crossref.org/works/10.1016%2FS0167-4781%2802%2900452-9

7 January 2021

Context-dependent effects of upstream A-tracts. Stimulation or inhibition of Escherichia coli promoter function

1 reference

https://api.crossref.org/works/10.1016%2FS0167-4781%2802%2900452-9

7 January 2021

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

1 reference

https://api.crossref.org/works/10.1016%2FS0167-4781%2802%2900452-9

7 January 2021

5' nucleotide heterogeneity and altered initiation of transcription at mutant lac promoters

1 reference

https://api.crossref.org/works/10.1016%2FS0167-4781%2802%2900452-9

7 January 2021

Blocking of the Initiation-to-Elongation Transition by a Transdominant RNA Polymerase Mutation

1 reference

https://api.crossref.org/works/10.1016%2FS0167-4781%2802%2900452-9

7 January 2021

A beta subunit mutation disrupting the catalytic function of Escherichia coli RNA polymerase

1 reference

https://api.crossref.org/works/10.1016%2FS0167-4781%2802%2900452-9

7 January 2021

Molecular characterization of a novel, developmentally regulated small embryonic chaperone from Caenorhabditis elegans.

1 reference

https://api.crossref.org/works/10.1016%2FS0167-4781%2802%2900452-9

7 January 2021

An Escherichia coli RNA polymerase defective in transcription due to its overproduction of abortive initiation products

1 reference

https://api.crossref.org/works/10.1016%2FS0167-4781%2802%2900452-9

7 January 2021

The ColE1 unidirectional origin acts as a polar replication fork pausing site.

1 reference

https://api.crossref.org/works/10.1016%2FS0167-4781%2802%2900452-9

7 January 2021

Reduction in abortive transcription from the lambdaPR promoter by mutations in region 3 of the sigma70 subunit of Escherichia coli RNA polymerase

1 reference

https://api.crossref.org/works/10.1016%2FS0167-4781%2802%2900452-9

7 January 2021

DNA structure and transcription

1 reference

https://api.crossref.org/works/10.1016%2FS0167-4781%2802%2900452-9

7 January 2021

Stalling of Escherichia coli RNA polymerase in the +6 to +12 region in vivo is associated with tight binding to consensus promoter elements

1 reference

https://api.crossref.org/works/10.1016%2FS0167-4781%2802%2900452-9

7 January 2021

Multiple RNA polymerase conformations and GreA: control of the fidelity of transcription

1 reference

https://api.crossref.org/works/10.1016%2FS0167-4781%2802%2900452-9

7 January 2021

Promoters largely determine the efficiency of repressor action

1 reference

https://api.crossref.org/works/10.1016%2FS0167-4781%2802%2900452-9

7 January 2021

Lac repressor is a transient gene-activating protein.

1 reference

https://api.crossref.org/works/10.1016%2FS0167-4781%2802%2900452-9

7 January 2021

lac repressor acts by modifying the initial transcribing complex so that it cannot leave the promoter

1 reference

https://api.crossref.org/works/10.1016%2FS0167-4781%2802%2900452-9

7 January 2021

A common role of CRP in transcription activation: CRP acts transiently to stimulate events leading to open complex formation at a diverse set of promoters

1 reference

https://api.crossref.org/works/10.1016%2FS0167-4781%2802%2900452-9

7 January 2021

Dual regulation of open-complex formation and promoter clearance by Arc explains a novel repressor to activator switch

1 reference

https://api.crossref.org/works/10.1016%2FS0167-4781%2802%2900452-9

7 January 2021

Transcription activation or repression by phage psi 29 protein p4 depends on the strength of the RNA polymerase-promoter interactions.

1 reference

https://api.crossref.org/works/10.1016%2FS0167-4781%2802%2900452-9

7 January 2021

Pseudo-templated transcription in prokaryotic and eukaryotic organisms

1 reference

https://api.crossref.org/works/10.1016%2FS0167-4781%2802%2900452-9

7 January 2021

Regulation of pyrBI operon expression in Escherichia coli by UTP-sensitive reiterative RNA synthesis during transcriptional initiation.

1 reference

https://api.crossref.org/works/10.1016%2FS0167-4781%2802%2900452-9

7 January 2021

Regulation of upp expression in Escherichia coli by UTP-sensitive selection of transcriptional start sites coupled with UTP-dependent reiterative transcription

1 reference

https://api.crossref.org/works/10.1016%2FS0167-4781%2802%2900452-9

7 January 2021

Regulation of carAB expression in Escherichia coli occurs in part through UTP-sensitive reiterative transcription.

1 reference

https://api.crossref.org/works/10.1016%2FS0167-4781%2802%2900452-9

7 January 2021

A long T. A tract in the upp initially transcribed region is required for regulation of upp expression by UTP-dependent reiterative transcription in Escherichia coli

1 reference

https://api.crossref.org/works/10.1016%2FS0167-4781%2802%2900452-9

7 January 2021

The phage lambda gene Q transcription antiterminator binds DNA in the late gene promoter as it modifies RNA polymerase

1 reference

https://api.crossref.org/works/10.1016%2FS0167-4781%2802%2900452-9

7 January 2021

A structural model of transcription elongation

1 reference

https://api.crossref.org/works/10.1016%2FS0167-4781%2802%2900452-9

7 January 2021

Structural organization of the RNA polymerase-promoter open complex

1 reference

https://api.crossref.org/works/10.1016%2FS0167-4781%2802%2900452-9

7 January 2021

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

1 reference

https://api.crossref.org/works/10.1016%2FS0167-4781%2802%2900452-9

7 January 2021

Extensive homology among the largest subunits of eukaryotic and prokaryotic RNA polymerases

1 reference

https://api.crossref.org/works/10.1016%2FS0167-4781%2802%2900452-9

7 January 2021

Prokaryotic and eukaryotic RNA polymerases have homologous core subunits

1 reference

https://api.crossref.org/works/10.1016%2FS0167-4781%2802%2900452-9

7 January 2021

Bacterial RNA polymerase subunit and eukaryotic RNA polymerase subunit RPB6 are sequence, structural, and functional homologs and promote RNA polymerase assembly

1 reference

https://api.crossref.org/works/10.1016%2FS0167-4781%2802%2900452-9

7 January 2021

Bacterial RNA polymerase

1 reference

https://api.crossref.org/works/10.1016%2FS0167-4781%2802%2900452-9

7 January 2021

The specificity loop of T7 RNA polymerase interacts first with the promoter and then with the elongating transcript, suggesting a mechanism for promoter clearance

1 reference

https://api.crossref.org/works/10.1016%2FS0167-4781%2802%2900452-9

7 January 2021

Studies of contacts between T7 RNA polymerase and its promoter reveal features in common with multisubunit RNA polymerases

1 reference

https://api.crossref.org/works/10.1016%2FS0167-4781%2802%2900452-9

7 January 2021

Promoter clearance by T7 RNA polymerase. Initial bubble collapse and transcript dissociation monitored by base analog fluorescence

1 reference

https://api.crossref.org/works/10.1016%2FS0167-4781%2802%2900452-9

7 January 2021

Structure and function of bacterial sigma factors

1 reference

https://api.crossref.org/works/10.1016%2FS0167-4781%2802%2900452-9

7 January 2021

The sigma 70 family: sequence conservation and evolutionary relationships

1 reference

https://api.crossref.org/works/10.1016%2FS0167-4781%2802%2900452-9

7 January 2021

Organization of open complexes at Escherichia coli promoters. Location of promoter DNA sites close to region 2.5 of the sigma70 subunit of RNA polymerase

1 reference

https://api.crossref.org/works/10.1016%2FS0167-4781%2802%2900452-9

7 January 2021

Region 1 of sigma70 is required for efficient isomerization and initiation of transcription by Escherichia coli RNA polymerase

1 reference

https://api.crossref.org/works/10.1016%2FS0167-4781%2802%2900452-9

7 January 2021

Domain 1.1 of the sigma(70) subunit of Escherichia coli RNA polymerase modulates the formation of stable polymerase/promoter complexes

1 reference

https://api.crossref.org/works/10.1016%2FS0167-4781%2802%2900452-9

7 January 2021

Structure-based analysis of RNA polymerase function: the largest subunit's rudder contributes critically to elongation complex stability and is not involved in the maintenance of RNA-DNA hybrid length

1 reference

https://api.crossref.org/works/10.1016%2FS0167-4781%2802%2900452-9

7 January 2021

Insights into transcription: structure and function of single-subunit DNA-dependent RNA polymerases

1 reference

https://api.crossref.org/works/10.1016%2FS0167-4781%2802%2900452-9

7 January 2021

Structure of RNA and DNA chains in paused transcription complexes containing Escherichia coli RNA polymerase

1 reference

https://api.crossref.org/works/10.1016%2FS0167-4781%2802%2900452-9

7 January 2021

The 8-nucleotide-long RNA:DNA hybrid is a primary stability determinant of the RNA polymerase II elongation complex

1 reference

https://api.crossref.org/works/10.1016%2FS0167-4781%2802%2900452-9

7 January 2021

RNA polymerase switches between inactivated and activated states By translocating back and forth along the DNA and the RNA.

1 reference

https://api.crossref.org/works/10.1016%2FS0167-4781%2802%2900452-9

7 January 2021

Coupling between transcription termination and RNA polymerase inchworming.

1 reference

https://api.crossref.org/works/10.1016%2FS0167-4781%2802%2900452-9

7 January 2021

Translocation of the Escherichia coli transcription complex observed in the registers 11 to 20: "jumping" of RNA polymerase and asymmetric expansion and contraction of the "transcription bubble".

1 reference

https://api.crossref.org/works/10.1016%2FS0167-4781%2802%2900452-9

7 January 2021

The interface of sigma with core RNA polymerase is extensive, conserved, and functionally specialized

1 reference

https://api.crossref.org/works/10.1016%2FS0167-4781%2802%2900452-9

7 January 2021

Interrupting the template strand of the T7 promoter facilitates translocation of the DNA during initiation, reducing transcript slippage and the release of abortive products

1 reference

https://api.crossref.org/works/10.1016%2FS0167-4781%2802%2900452-9

7 January 2021

T7 promoter release mediated by DNA scrunching

1 reference

https://api.crossref.org/works/10.1016%2FS0167-4781%2802%2900452-9

7 January 2021

10.1016/S0167-4781(02)00452-9

Identifiers

DOI

1 reference

4 August 2017

1 reference

PubMed ID

12213652