New Insights into the Functions of Transcription Factors that Bind the RNA Polymerase Secondary Channel (Q26822940)

RNA nucleotidyltransferases

main subject

1 reference

1 August 2019

1 reference

28 September 2019

2 references

22 December 2019

22 December 2020

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:26120903%20AND%20SRC:MED&resulttype=core&format=json

14 June 2020

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:26120903%20AND%20SRC:MED&resulttype=core&format=json

14 June 2020

Nikolay Zenkin

1 reference

Yulia Yuzenkova

1 reference

language of work or name

1 reference

25 June 2015

5 references

1 August 2019

28 September 2019

22 December 2019

22 December 2020

6 references

1 August 2019

28 September 2019

22 December 2019

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:26120903%20AND%20SRC:MED&resulttype=core&format=json

14 June 2020

22 December 2020

2 references

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:26120903%20AND%20SRC:MED&resulttype=core&format=json

14 June 2020

2 references

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:26120903%20AND%20SRC:MED&resulttype=core&format=json

14 June 2020

page(s)

1195-1209

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:26120903%20AND%20SRC:MED&resulttype=core&format=json

Creative Commons Attribution

14 June 2020

4 references

1 August 2019

28 September 2019

22 December 2019

22 December 2020

0 references

Essential genes of a minimal bacterium

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4598747

Conserved and variable functions of the sigmaE stress response in related genomes

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4598747

The Mechanism of E. coli RNA Polymerase Regulation by ppGpp Is Suggested by the Structure of their Complex

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4598747

Differential regulation by ppGpp versus pppGpp in Escherichia coli

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4598747

Crystal structure of bacterial RNA polymerase bound with a transcription inhibitor protein

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4598747

Spt4/5 stimulates transcription elongation through the RNA polymerase clamp coiled-coil motif

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4598747

Crystal Structure of Escherichia coli Rnk, a New RNA Polymerase-Interacting Protein

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4598747

Structural basis for transcription elongation by bacterial RNA polymerase

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4598747

Structural Basis for Converting a General Transcription Factor into an Operon-Specific Virulence Regulator

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4598747

TraR, a homolog of a RNAP secondary channel interactor, modulates transcription

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4598747

DksA represses ribosomal gene transcription in Pseudomonas aeruginosa by interacting with RNA polymerase on ribosomal promoters

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4598747

Global transposon mutagenesis and a minimal Mycoplasma genome

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4598747

Molecular dynamics simulation study of conformational changes of transcription factor TFIIS during RNA polymerase II transcriptional arrest and reactivation

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4598747

A pause sequence enriched at translation start sites drives transcription dynamics in vivo

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4598747

DksA guards elongating RNA polymerase against ribosome-stalling-induced arrest

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4598747

An insertion in the catalytic trigger loop gates the secondary channel of RNA polymerase

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4598747

Multiple active centers of multi-subunit RNA polymerases

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4598747

Transcription initiation factor DksA has diverse effects on RNA chain elongation

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4598747

Effects on growth by changes of the balance between GreA, GreB, and DksA suggest mutual competition and functional redundancy in Escherichia coli

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4598747

R-loop-mediated genomic instability is caused by impairment of replication fork progression

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4598747

Linking RNA polymerase backtracking to genome instability in E. coli

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4598747

Co-directional replication-transcription conflicts lead to replication restart

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4598747

Central role of the RNA polymerase trigger loop in intrinsic RNA hydrolysis.

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4598747

Stepwise mechanism for transcription fidelity

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4598747

E. coli NusG inhibits backtracking and accelerates pause-free transcription by promoting forward translocation of RNA polymerase

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4598747

Co-orientation of replication and transcription preserves genome integrity

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4598747

Functional specialization of transcription elongation factors

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4598747

Regulation of the fimB promoter: a case of differential regulation by ppGpp and DksA in vivo.

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4598747

Proteomic studies of an Antarctic cold-adapted bacterium, Shewanella livingstonensis Ac10, for global identification of cold-inducible proteins.

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4598747

Replication fork stalling at natural impediments

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4598747

Effects of DksA, GreA, and GreB on transcription initiation: insights into the mechanisms of factors that bind in the secondary channel of RNA polymerase

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4598747

DksA is required for growth phase-dependent regulation, growth rate-dependent control, and stringent control of fis expression in Escherichia coli

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4598747

Transcript-assisted transcriptional proofreading

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4598747

Subcellular partitioning of transcription factors in Bacillus subtilis

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4598747

Transcription regulatory elements are punctuation marks for DNA replication

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4598747

pH-dependent conformational switch activates the inhibitor of transcription elongation.

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4598747

A pathway branching in transcription initiation in Escherichia coli

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4598747

DksA potentiates direct activation of amino acid promoters by ppGpp

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4598747

Stress-responsive proteins are upregulated in Streptococcus mutans during acid tolerance

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4598747

Structural basis for transcription regulation by alarmone ppGpp.

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4598747

Mfd, the bacterial transcription repair coupling factor: translocation, repair and termination

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4598747

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

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4598747

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

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4598747

Transcription through the roadblocks: the role of RNA polymerase cooperation

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4598747

DksA affects ppGpp induction of RpoS at a translational level

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4598747

E. coli Transcription repair coupling factor (Mfd protein) rescues arrested complexes by promoting forward translocation

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4598747

A structural model of transcription elongation

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4598747

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

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4598747

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

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4598747

Identification of Salmonella typhimurium genes required for colonization of the chicken alimentary tract and for virulence in newly hatched chicks

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4598747

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

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4598747

Intrinsic transcript cleavage activity of RNA polymerase

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4598747

Chromosome replication and the division cycle of Escherichia coli B/r.

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4598747

When polymerases collide: replication and the transcriptional organization of the E. coli chromosome

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4598747

Identification and characterization of a new Escherichia coli gene that is a dosage-dependent suppressor of a dnaK deletion mutation

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4598747

Consequences of replication fork movement through transcription units in vivo

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4598747

GreA protein: a transcription elongation factor from Escherichia coli

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4598747

Avoiding chromosome pathology when replication forks collide

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4598747

Controlled interplay between trigger loop and Gre factor in the RNA polymerase active centre

31 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4598747

Identical, independent, and opposing roles of ppGpp and DksA in Escherichia coli

31 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4598747

Targeted protein footprinting: where different transcription factors bind to RNA polymerase

31 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4598747

Mutations of bacterial RNA polymerase leading to resistance to microcin j25.

31 May 2018

1 reference

https://api.crossref.org/works/10.3390%2FBIOM5031195

Molecular mechanism of transcription inhibition by peptide antibiotic Microcin J25.

21 January 2018

1 reference

https://api.crossref.org/works/10.3390%2FBIOM5031195

Transcript cleavage factors from E. coli.

21 January 2018

1 reference

https://api.crossref.org/works/10.3390%2FBIOM5031195

Transcriptional fidelity and proofreading in Archaea and implications for the mechanism of TFS-induced RNA cleavage

21 January 2018

1 reference

https://api.crossref.org/works/10.3390%2FBIOM5031195

Control of transcription elongation by GreA determines rate of gene expression in Streptococcus pneumoniae

21 January 2018

1 reference

https://api.crossref.org/works/10.3390%2FBIOM5031195

Bacterial global regulators DksA/ppGpp increase fidelity of transcription

21 January 2018

1 reference

https://api.crossref.org/works/10.3390%2FBIOM5031195

Analysis of promoter targets for Escherichia coli transcription elongation factor GreA in vivo and in vitro

21 January 2018

1 reference

https://api.crossref.org/works/10.3390%2FBIOM5031195

Inhibition of Mycobacterium tuberculosis RNA polymerase by binding of a Gre factor homolog to the secondary channel.

21 January 2018

1 reference

https://api.crossref.org/works/10.3390%2FBIOM5031195

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

21 January 2018

1 reference

https://api.crossref.org/works/10.3390%2FBIOM5031195

Antagonistic regulation of Escherichia coli ribosomal RNA rrnB P1 promoter activity by GreA and DksA.

21 January 2018

1 reference

https://api.crossref.org/works/10.3390%2FBIOM5031195

Rhizobium tropici genes involved in free-living salt tolerance are required for the establishment of efficient nitrogen-fixing symbiosis with Phaseolus vulgaris.

21 January 2018

1 reference

https://api.crossref.org/works/10.3390%2FBIOM5031195

RNA polymerase modulators and DNA repair activities resolve conflicts between DNA replication and transcription

21 January 2018

1 reference

https://api.crossref.org/works/10.3390%2FBIOM5031195

The transcription factor DksA prevents conflicts between DNA replication and transcription machinery

21 January 2018

1 reference

https://api.crossref.org/works/10.3390%2FBIOM5031195

Phosphorolytic error correction during transcription.

21 January 2018

1 reference

https://api.crossref.org/works/10.3390%2FBIOM5031195

Regulation through the Secondary Channel—Structural Framework for ppGpp-DksA Synergism during Transcription

21 January 2018

1 reference

https://api.crossref.org/works/10.3390%2FBIOM5031195

[Mechanisms of action of RNA polymerase-binding transcription factors that do not bind to DNA]

21 January 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4598747

Transcription-induced deletions in plasmid vectors: M13 DNA replication as a source of instability

28 November 2018

1 reference

12 December 2020

The functional role of basic patch, a structural element of Escherichia coli transcript cleavage factors GreA and GreB

1 reference

12 December 2020

DksA: a critical component of the transcription initiation machinery that potentiates the regulation of rRNA promoters by ppGpp and the initiating NTP

1 reference

12 December 2020

An estimate of the frequency of in vivo transcriptional errors at a nonsense codon in Escherichia coli

1 reference

12 December 2020

Initiation site of deoxyribonucleotide polymerization at the replication origin of the Escherichia coli chromosome

1 reference

12 December 2020

SII-facilitated transcript cleavage in RNA polymerase II complexes stalled early after initiation occurs in primarily dinucleotide increments

1 reference

12 December 2020

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

1 reference

12 December 2020

Crystal structure of Thermus aquaticus Gfh1, a Gre-factor paralog that inhibits rather than stimulates transcript cleavage

1 reference

12 December 2020

Direct restart of a replication fork stalled by a head-on RNA polymerase

1 reference

12 December 2020

Identifiers

DOI

10.3390/BIOM5031195

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:26120903%20AND%20SRC:MED&resulttype=core&format=json

14 June 2020

2 references

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:26120903%20AND%20SRC:MED&resulttype=core&format=json

14 June 2020

PubMed publication ID

2 references

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:26120903%20AND%20SRC:MED&resulttype=core&format=json