(Q42677967)

English

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

scientific article published on June 2002

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Europe PubMed Central

PubMed publication ID

4 November 2017

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 (English)

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Europe PubMed Central

PubMed publication ID

4 November 2017

Escherichia coli

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author name string

Ruth M Saecker

1

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Europe PubMed Central

PubMed publication ID

4 November 2017

Oleg V Tsodikov

2

1 reference

Europe PubMed Central

PubMed publication ID

4 November 2017

Kristi L McQuade

3

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Europe PubMed Central

PubMed publication ID

4 November 2017

Peter E Schlax

4

1 reference

Europe PubMed Central

PubMed publication ID

4 November 2017

Michael W Capp

5

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Europe PubMed Central

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4 November 2017

M Thomas Record

6

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Europe PubMed Central

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4 November 2017

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publication date

1 June 2002

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Europe PubMed Central

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4 November 2017

Journal of Molecular Biology

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Europe PubMed Central

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4 November 2017

319

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Europe PubMed Central

PubMed publication ID

4 November 2017

3

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Europe PubMed Central

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4 November 2017

649-671

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Europe PubMed Central

PubMed publication ID

4 November 2017

A structure/function analysis of Escherichia coli RNA polymerase

1 reference

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7 January 2021

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

1 reference

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7 January 2021

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

1 reference

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7 January 2021

Prokaryotic and eukaryotic RNA polymerases have homologous core subunits

1 reference

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7 January 2021

Structure of the Escherichia coli RNA polymerase alpha subunit amino-terminal domain

1 reference

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7 January 2021

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

1 reference

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7 January 2021

Architecture of RNA polymerase II and implications for the transcription mechanism

1 reference

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7 January 2021

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

1 reference

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7 January 2021

Temperature dependence of the rate constants of the Escherichia coli RNA polymerase-lambda PR promoter interaction. Assignment of the kinetic steps corresponding to protein conformational change and DNA opening

1 reference

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7 January 2021

Regulation of the kinetics of the interaction of Escherichia coli RNA polymerase with the lambda PR promoter by salt concentration

1 reference

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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

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7 January 2021

Changes in the 17 bp spacer in the P(R) promoter of bacteriophage lambda affect steps in open complex formation that precede DNA strand separation

1 reference

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7 January 2021

Mutations at position -10 in the lambda PR promoter primarily affect conversion of the initial closed complex (RPc) to a stable, closed intermediate (RPi).

1 reference

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7 January 2021

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

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7 January 2021

Changes in the DNA structure of the lac UV5 promoter during formation of an open complex with Escherichia coli RNA polymerase

1 reference

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7 January 2021

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

1 reference

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7 January 2021

Differential melting of the transcription start site associated with changes in RNA polymerase-promoter contacts in initiating transcription complexes.

1 reference

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7 January 2021

Quantitative analysis of multiple-hit footprinting studies to characterize DNA conformational changes in protein-DNA complexes: application to DNA opening by Esigma70 RNA polymerase

1 reference

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7 January 2021

Structural mechanism for rifampicin inhibition of bacterial rna polymerase

1 reference

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7 January 2021

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

1 reference

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7 January 2021

Three-dimensional structure of Escherichia coli RNA polymerase holoenzyme determined by electron crystallography

1 reference

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7 January 2021

Three-dimensional structure of yeast RNA polymerase II at 16 A resolution

1 reference

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7 January 2021

Three-dimensional structure of E. coli core RNA polymerase: promoter binding and elongation conformations of the enzyme.

1 reference

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7 January 2021

Two conformations of RNA polymerase II revealed by electron crystallography

1 reference

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7 January 2021

Structural and mechanistic relationships between nucleic acid polymerases

1 reference

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7 January 2021

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

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7 January 2021

The mechanism of action of T7 DNA polymerase

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7 January 2021

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

1 reference

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7 January 2021

Bacterial RNA polymerase

1 reference

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7 January 2021

Escherichia coli RNA polymerase core and holoenzyme structures

1 reference

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7 January 2021

HO. and DNase I probing of E sigma 70 RNA polymerase--lambda PR promoter open complexes: Mg2+ binding and its structural consequences at the transcription start site

1 reference

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7 January 2021

RNA polymerase unveiled

1 reference

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7 January 2021

RNA polymerase: structural similarities between bacterial RNA polymerase and eukaryotic RNA polymerase II.

1 reference

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7 January 2021

A structural model of transcription elongation

1 reference

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7 January 2021

Yeast RNA polymerase II at 5 A resolution

1 reference

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7 January 2021

Electron crystal structure of an RNA polymerase II transcription elongation complex.

1 reference

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7 January 2021

Sigma factors from E. coli, B. subtilis, phage SP01, and phage T4 are homologous proteins

1 reference

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7 January 2021

Structure and function of bacterial sigma factors

1 reference

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7 January 2021

The sigma 70 family: sequence conservation and evolutionary relationships

1 reference

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7 January 2021

Domain organization of the Escherichia coli RNA polymerase sigma 70 subunit

1 reference

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7 January 2021

Regions of the Escherichia coli primary sigma factor sigma70 that are involved in interaction with RNA polymerase core enzyme

1 reference

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7 January 2021

Mapping the sigma70 subunit contact sites on Escherichia coli RNA polymerase with a sigma70-conjugated chemical protease

1 reference

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7 January 2021

Mutational analysis of beta '260-309, a sigma 70 binding site located on Escherichia coli core RNA polymerase.

1 reference

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7 January 2021

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

1 reference

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7 January 2021

Binding of the initiation factor sigma(70) to core RNA polymerase is a multistep process

1 reference

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7 January 2021

Core RNA polymerase from E. coli induces a major change in the domain arrangement of the sigma 70 subunit

1 reference

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7 January 2021

Polypeptides containing highly conserved regions of transcription initiation factor σ70 exhibit specificity of binding to promoter DNA

1 reference

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7 January 2021

Amino-terminal amino acids modulate sigma-factor DNA-binding activity

1 reference

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7 January 2021

Promoter recognition as measured by binding of polymerase to nontemplate strand oligonucleotide

1 reference

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7 January 2021

Conformation and DNA binding properties of a single-stranded DNA binding region of sigma 70 subunit from Escherichia coli RNA polymerase are modulated by an interaction with the core enzyme

1 reference

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7 January 2021

Conformational changes of Escherichia coli RNA polymerase sigma70 factor induced by binding to the core enzyme

1 reference

https://api.crossref.org/works/10.1016%2FS0022-2836%2802%2900293-0

7 January 2021

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

1 reference

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7 January 2021

Wrapping of DNA around the E.coli RNA polymerase open promoter complex

1 reference

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7 January 2021

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

1 reference

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7 January 2021

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

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7 January 2021

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

1 reference

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7 January 2021

Coupling of local folding to site-specific binding of proteins to DNA

1 reference

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7 January 2021

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

1 reference

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7 January 2021

The thumb's knuckle. Flexibility in the thumb subdomain of T7 RNA polymerase is revealed by the structure of a chimeric T7/T3 RNA polymerase

1 reference

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7 January 2021

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

1 reference

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7 January 2021

Structure of a transcribing T7 RNA polymerase initiation complex

1 reference

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7 January 2021

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

1 reference

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7 January 2021

Thermodynamics of the interactions of lac repressor with variants of the symmetric lac operator: effects of converting a consensus site to a non-specific site.

1 reference

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7 January 2021

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

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7 January 2021

Replacement of potassium chloride by potassium glutamate dramatically enhances protein-DNA interactions in vitro

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7 January 2021

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

1 reference

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7 January 2021

The pathway of E. coli RNA polymerase-promoter complex formation as visualized by footprinting.

1 reference

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7 January 2021

Intermediates in the formation of the open complex by RNA polymerase holoenzyme containing the sigma factor sigma 32 at the groE promoter.

1 reference

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7 January 2021

DNA distortion accompanies transcriptional activation by the metal-responsive gene-regulatory protein MerR.

1 reference

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7 January 2021

Development of RNA polymerase-promoter contacts during open complex formation

1 reference

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7 January 2021

Transcription activation by cAMP receptor protein (CRP) at the Escherichia coli gal P1 promoter. Crucial role for the spacing between the CRP binding site and the -10 region

1 reference

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7 January 2021

The transcriptional activator protein FIS: DNA interactions and cooperative interactions with RNA polymerase at the Escherichia coli rrnB P1 promoter

1 reference

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7 January 2021

A mutant RNA polymerase that forms unusual open promoter complexes

1 reference

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7 January 2021

E. coli RNA polymerase, deleted in the C-terminal part of its alpha-subunit, interacts differently with the cAMP-CRP complex at the lacP1 and at the galP1 promoter

1 reference

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7 January 2021

Nonspecific interactions of Escherichia coli RNA polymerase with native and denatured DNA: differences in the binding behavior of core and holoenzyme

1 reference

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7 January 2021

Localization of a sigma70 binding site on the N terminus of the Escherichia coli RNA polymerase beta' subunit

1 reference

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7 January 2021

Protein-protein interactions mapped by artificial proteases: where sigma factors bind to RNA polymerase

1 reference

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7 January 2021

Structural organization of the RNA polymerase-promoter open complex

1 reference

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7 January 2021

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

1 reference

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7 January 2021

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

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7 January 2021

Induced folding in RNA-protein recognition: more than a simple molecular handshake

1 reference

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7 January 2021

Intrinsically unstructured proteins: re-assessing the protein structure-function paradigm

1 reference

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7 January 2021

Contribution of hydration and non-covalent interactions to the heat capacity effect on protein unfolding

1 reference

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7 January 2021

Apparent heat capacity change accompanying a nonspecific protein-DNA interaction. Escherichia coli SSB tetramer binding to oligodeoxyadenylates

1 reference

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7 January 2021

Adenine base unstacking dominates the observed enthalpy and heat capacity changes for the Escherichia coli SSB tetramer binding to single-stranded oligoadenylates

1 reference

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7 January 2021

Enthalpy and heat capacity changes for formation of an oligomeric DNA duplex: interpretation in terms of coupled processes of formation and association of single-stranded helices

1 reference

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7 January 2021

Large contributions of coupled protonation equilibria to the observed enthalpy and heat capacity changes for ssDNA binding to Escherichia coli SSB protein

1 reference

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7 January 2021

Specific and non-specific interactions of integration host factor with DNA: thermodynamic evidence for disruption of multiple IHF surface salt-bridges coupled to DNA binding.

1 reference

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7 January 2021

A zinc-binding region in the beta' subunit of RNA polymerase is involved in antitermination of early transcription of phage HK022.

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7 January 2021

Design of RNA-binding proteins and ligands

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7 January 2021

DNA-induced conformational changes are the basis for cooperative dimerization by the DNA binding domain of the retinoid X receptor.

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7 January 2021

Changes in dynamical behavior of the retinoid X receptor DNA-binding domain upon binding to a 14 base-pair DNA half site

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7 January 2021

Interaction of the alpha-subunit of Escherichia coli RNA polymerase with DNA: rigid body nature of the protein-DNA contact

1 reference

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7 January 2021

Solution structure of the activator contact domain of the RNA polymerase alpha subunit

1 reference

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7 January 2021

Mutations in and monoclonal antibody binding to evolutionary hypervariable region of Escherichia coli RNA polymerase beta' subunit inhibit transcript cleavage and transcript elongation

1 reference

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7 January 2021

Procedure for the rapid, large-scale purification of Escherichia coli DNA-dependent RNA polymerase involving polymin P precipitation and DNA-cellulose chromatography

1 reference

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7 January 2021

A simple procedure for resolution of Escherichia coli RNA polymerase holoenzyme from core polymerase

1 reference

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7 January 2021

The Protein Data Bank

1 reference

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7 January 2021

MOLSCRIPT: a program to produce both detailed and schematic plots of protein structures

1 reference

https://api.crossref.org/works/10.1016%2FS0022-2836%2802%2900293-0

7 January 2021

Conformational flexibility of bacterial RNA polymerase.

1 reference

https://api.crossref.org/works/10.1016%2FS0022-2836%2802%2900293-0

7 January 2021

Multiple regions on the Escherichia coli heat shock transcription factor sigma32 determine core RNA polymerase binding specificity

1 reference

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7 January 2021

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10.1016/S0022-2836(02)00293-0

1 reference

Europe PubMed Central

PubMed publication ID

4 November 2017

PubMed publication ID

1 reference

Europe PubMed Central

PubMed publication ID

4 November 2017

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