Thinking quantitatively about transcriptional regulation. (Q36043488)

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8 January 2020

review article

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title

Thinking quantitatively about transcriptional regulation (English)

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https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:15714199%20AND%20SRC:MED&resulttype=core&format=json

8 January 2020

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https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:15714199%20AND%20SRC:MED&resulttype=core&format=json

8 January 2020

Peter H von Hippel

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8 January 2020

publication date

1 March 2005

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Nature Reviews Molecular Cell Biology

8 January 2020

published in

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8 January 2020

volume

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8 January 2020

issue

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8 January 2020

page(s)

221-232

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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".

8 January 2020

cites work

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Kinetic Proofreading: A New Mechanism for Reducing Errors in Biosynthetic Processes Requiring High Specificity

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GreA protein: a transcription elongation factor from Escherichia coli

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Intrinsic transcript cleavage activity of RNA polymerase

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DNA-RNA hybrid duplexes containing oligo(dA:rU) sequences are exceptionally unstable and may facilitate termination of transcription

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Termination efficiency at rho-dependent terminators depends on kinetic coupling between RNA polymerase and rho

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Assembly of transcription elongation complexes containing the N protein of phage lambda and the Escherichia coli elongation factors NusA, NusB, NusG, and S10

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Transcript elongation and termination are competitive kinetic processes

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GreA and GreB proteins revive backtracked RNA polymerase in vivo by promoting transcript trimming

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Translocation of Escherichia coli RNA polymerase against a protein roadblock in vivo highlights a passive sliding mechanism for transcript elongation

31 March 2020

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

31 March 2020

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31 March 2020

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31 March 2020

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A structural model of transcription elongation

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Crucial role of the RNA:DNA hybrid in the processivity of transcription

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

31 March 2020

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Active Escherichia coli transcription elongation complexes are functionally homogeneous.

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31 March 2020

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A conserved zinc binding domain in the largest subunit of DNA-dependent RNA polymerase modulates intrinsic transcription termination and antitermination but does not stabilize the elongation complex

31 March 2020

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

31 March 2020

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Swing-Gate Model of Nucleotide Entry into the RNA Polymerase Active Center

31 March 2020

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Structural basis of transcription: separation of RNA from DNA by RNA polymerase II

31 March 2020

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Architecture of RNA polymerase II and implications for the transcription mechanism

31 March 2020

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Structure and function of the transcription elongation factor GreB bound to bacterial RNA polymerase

31 March 2020

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

31 March 2020

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Unified two-metal mechanism of RNA synthesis and degradation by RNA polymerase

31 March 2020

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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

31 March 2020

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The flap domain is required for pause RNA hairpin inhibition of catalysis by RNA polymerase and can modulate intrinsic termination

31 March 2020

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Macromolecular complexes that unwind nucleic acids

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The single-nucleotide addition cycle in transcription: a biophysical and biochemical perspective

31 March 2020

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

31 March 2020

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NTP concentration effects on initial transcription by T7 RNAP indicate that translocation occurs through passive sliding and reveal that divergent promoters have distinct NTP concentration requirements for productive initiation.

31 March 2020

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Sequence-dependent kinetic model for transcription elongation by RNA polymerase

31 March 2020

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

31 March 2020

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Transcriptional fidelity and proofreading by RNA polymerase II.

31 March 2020

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Transcript cleavage factors from E. coli.

31 March 2020

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Transcript cleavage factors GreA and GreB act as transient catalytic components of RNA polymerase

31 March 2020

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Donation of catalytic residues to RNA polymerase active center by transcription factor Gre

31 March 2020

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Ubiquitous transcriptional pausing is independent of RNA polymerase backtracking.

31 March 2020

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Backtracking by single RNA polymerase molecules observed at near-base-pair resolution

31 March 2020

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Pausing by bacterial RNA polymerase is mediated by mechanistically distinct classes of signals

31 March 2020

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Stability of Escherichia coli transcription complexes near an intrinsic terminator.

31 March 2020

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Allosteric control of RNA polymerase by a site that contacts nascent RNA hairpins

31 March 2020

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The mechanism of intrinsic transcription termination.

31 March 2020

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Shortening of RNA:DNA hybrid in the elongation complex of RNA polymerase is a prerequisite for transcription termination

31 March 2020

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Mechanism of intrinsic transcription termination and antitermination

31 March 2020

1 reference

Role of the Non-template Strand of the Elongation Bubble in Intrinsic Transcription Termination

31 March 2020

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RNA polymerase mutations that impair conversion to a termination-resistant complex by Q antiterminator proteins

31 March 2020

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Transcription termination factor rho is an RNA-DNA helicase

31 March 2020

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Kinetics of the RNA-DNA helicase activity of Escherichia coli transcription termination factor rho. 1. Characterization and analysis of the reaction.

31 March 2020

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Kinetics of the RNA-DNA helicase activity of Escherichia coli transcription termination factor rho. 2. Processivity, ATP consumption, and RNA binding

31 March 2020

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Rho-dependent termination within the trp t' terminator. II. Effects of kinetic competition and rho processivity

31 March 2020

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Rho-dependent termination within the trp t' terminator. I. Effects of rho loading and template sequence

31 March 2020

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Influence of substrate composition on the helicase activity of transcription termination factor Rho: reduced processivity of Rho hexamers during unwinding of RNA-DNA hybrid regions

31 March 2020

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Termination of transcription by nusA gene protein of Escherichia coli

31 March 2020

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Requirement for E. coli NusG protein in factor-dependent transcription termination

31 March 2020

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Components of multiprotein-RNA complex that controls transcription elongation in Escherichia coli phage lambda.

31 March 2020

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Recognition of boxA antiterminator RNA by the E. coli antitermination factors NusB and ribosomal protein S10

31 March 2020

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Ribosomal protein S4 is a transcription factor with properties remarkably similar to NusA, a protein involved in both non-ribosomal and ribosomal RNA antitermination.

31 March 2020

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NusA is required for ribosomal antitermination and for modulation of the transcription elongation rate of both antiterminated RNA and mRNA.

31 March 2020

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Reaction pathways in transcript elongation

31 March 2020

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Regulation of the elongation-termination decision at intrinsic terminators by antitermination protein N of phage λ 1 1Edited by K. Yamamoto

31 March 2020

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Mapping and characterization of transcriptional pause sites in the early genetic region of bacteriophage T7.

31 March 2020

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Transcription termination in Escherichia coli. Measurement of the rate of enzyme release from Rho-independent terminators

31 March 2020

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