(Q42134644)

English

The -11A of promoter DNA and two conserved amino acids in the melting region of sigma70 both directly affect the rate limiting step in formation of the stable RNA polymerase-promoter complex, but they do not necessarily interact

scientific article published on 12 June 2007

In more languages

Statements

scholarly article

1 reference

Europe PubMed Central

PMC publication ID

17 October 2017

The -11A of promoter DNA and two conserved amino acids in the melting region of sigma70 both directly affect the rate limiting step in formation of the stable RNA polymerase-promoter complex, but they do not necessarily interact (English)

1 reference

Europe PubMed Central

PMC publication ID

17 October 2017

author name string

Lisa A Schroeder

1

1 reference

Europe PubMed Central

PMC publication ID

17 October 2017

Ae-Jin Choi

2

1 reference

Europe PubMed Central

PMC publication ID

17 October 2017

Pieter L DeHaseth

3

1 reference

Europe PubMed Central

PMC publication ID

17 October 2017

publication date

12 June 2007

1 reference

Europe PubMed Central

PMC publication ID

17 October 2017

Nucleic Acids Research

1 reference

Europe PubMed Central

PMC publication ID

17 October 2017

35

1 reference

Europe PubMed Central

PMC publication ID

17 October 2017

12

1 reference

Europe PubMed Central

PMC publication ID

17 October 2017

4141-4153

1 reference

Europe PubMed Central

PMC publication ID

17 October 2017

describes a project that uses

1 reference

Europe PubMed Central

11 June 2022

https://www.ebi.ac.uk/europepmc/webservices/rest/PMC1919498/fullTextXML

based on heuristic

inferred from PubMed Central ID database lookup

Escherichia coli RNA polymerase contacts outside the -10 promoter element are not essential for promoter melting

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1919498

29 May 2018

Probing the role of region 2 of Escherichia coli sigma 70 in nucleation and maintenance of the single-stranded DNA bubble in RNA polymerase-promoter open complexes

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1919498

29 May 2018

Inactivation and destruction by KMnO4 of Escherichia coli RNA polymerase open transcription complex: recommendations for footprinting experiments

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1919498

29 May 2018

Effect of DNA bases and backbone on sigma70 holoenzyme binding and isomerization using fork junction probes

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1919498

29 May 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=1919498

29 May 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=1919498

29 May 2018

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

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1919498

29 May 2018

Crystal structure of a bacterial RNA polymerase holoenzyme at 2.6 A resolution

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1919498

29 May 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=1919498

29 May 2018

Interaction of RNA polymerase with forked DNA: evidence for two kinetically significant intermediates on the pathway to the final complex

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1919498

29 May 2018

A "master" in base unpairing during isomerization of a promoter upon RNA polymerase binding.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1919498

29 May 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=1919498

29 May 2018

Aromatic amino acids in region 2.3 of Escherichia coli sigma 70 participate collectively in the formation of an RNA polymerase-promoter open complex

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1919498

29 May 2018

DNA sequence elements located immediately upstream of the -10 hexamer in Escherichia coli promoters: a systematic study

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1919498

29 May 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=1919498

29 May 2018

Protein-nucleic acid interactions during open complex formation investigated by systematic alteration of the protein and DNA binding partners

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1919498

29 May 2018

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.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1919498

29 May 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=1919498

29 May 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=1919498

29 May 2018

Protein-DNA recognition complexes: conservation of structure and binding energy in the transition state

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1919498

29 May 2018

Crystal structure of a sigma 70 subunit fragment from 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=1919498

29 May 2018

Base-specific recognition of the nontemplate strand of promoter DNA 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=1919498

29 May 2018

Compilation of E. coli mRNA promoter sequences

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1919498

29 May 2018

A promoter melting region in the primary sigma factor of Bacillus subtilis. Identification of functionally important aromatic amino acids

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1919498

29 May 2018

Mechanism and control of transcription initiation in prokaryotes

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1919498

29 May 2018

Structure and function of bacterial sigma factors

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1919498

29 May 2018

Promoter recognition by Escherichia coli RNA polymerase: effects of base substitutions in the -10 and -35 regions

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1919498

29 May 2018

KMnO4 as a probe for lac promoter DNA melting and mechanism in vivo

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1919498

29 May 2018

A mutant Escherichia coli sigma 70 subunit of RNA polymerase with altered promoter specificity

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1919498

29 May 2018

A consensus adenine at position -11 of the nontemplate strand of bacterial promoter is important for nucleation of promoter melting

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1919498

17 August 2018

Mechanistic differences in promoter DNA melting by Thermus aquaticus and Escherichia coli RNA polymerases

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1919498

17 August 2018

An unsubstituted C2 hydrogen of adenine is critical and sufficient at the -11 position of a promoter to signal base pair deformation

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1919498

17 August 2018

Minimal machinery of RNA polymerase holoenzyme sufficient for promoter melting

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1919498

17 August 2018

Molecular biology. When a part is as good as the whole

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1919498

17 August 2018

Simple fluorescence assays probing conformational changes of Escherichia coli RNA polymerase during transcription initiation

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1919498

17 August 2018

On the use of 2-aminopurine as a probe for base pair opening during transcription initiation

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1919498

17 August 2018

Purification of highly-active and soluble Escherichia coli sigma 70 polypeptide overproduced at low temperature.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1919498

17 August 2018

Roles for inhibitory interactions in the use of the -10 promoter element by sigma 70 holoenzyme

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1919498

17 August 2018

Substitutions in the Escherichia coli RNA polymerase sigma70 factor that affect recognition of extended -10 elements at promoters

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1919498

17 August 2018

RNA polymerase alters the mobility of an A-residue crucial to polymerase-induced melting of promoter DNA.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1919498

17 August 2018

Different roles for basic and aromatic amino acids in conserved region 2 of Escherichia coli sigma(70) in the nucleation and maintenance of the single-stranded DNA bubble in open RNA polymerase-promoter complexes

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1919498

17 August 2018

Sequence determinants for the recognition of the fork junction DNA containing the -10 region of promoter DNA by E. coli RNA polymerase

1 reference

https://pubmed.ncbi.nlm.nih.gov/17567604

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Thermodynamic and kinetic measurements of promoter binding by T7 RNA polymerase

1 reference

https://pubmed.ncbi.nlm.nih.gov/17567604

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Thermodynamic origins of specificity in the lac repressor-operator interaction. Adaptability in the recognition of mutant operator sites

1 reference

https://pubmed.ncbi.nlm.nih.gov/17567604

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Thermodynamic consequences of an abasic lesion in duplex DNA are strongly dependent on base sequence

1 reference

https://pubmed.ncbi.nlm.nih.gov/17567604

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Stimulation of open complex formation by nicks and apurinic sites suggests a role for nucleation of DNA melting in Escherichia coli promoter function

1 reference

https://pubmed.ncbi.nlm.nih.gov/17567604

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Rapid binding of T7 RNA polymerase is followed by simultaneous bending and opening of the promoter DNA

1 reference

https://pubmed.ncbi.nlm.nih.gov/17567604

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Identifiers

10.1093/NAR/GKM431

1 reference

Europe PubMed Central

PMC publication ID

17 October 2017

PMC publication ID

1 reference

Europe PubMed Central

PMC publication ID

17 October 2017

PubMed publication ID

1 reference

Europe PubMed Central

PMC publication ID

17 October 2017

ResearchGate publication ID

0 references

Sitelinks

Wikipedia(0 entries)

Wikibooks(0 entries)

Wikinews(0 entries)

Wikiquote(0 entries)

Wikisource(0 entries)

Wikiversity(0 entries)

Wikivoyage(0 entries)

Wiktionary(0 entries)

Multilingual sites(0 entries)

Retrieved from "https://www.wikidata.org/w/index.php?title=Q42134644&oldid=1934554272"