List of works - Richard H. Ebright

A single substitution in the putative helix-turn-helix motif of the pleiotropic activator PrfA attenuates Listeria monocytogenes virulence

scientific article published on 01 May 1996

Abortive initiation and productive initiation by RNA polymerase involve DNA scrunching

scientific article

Accurate FRET measurements within single diffusing biomolecules using alternating-laser excitation

scientific article

Antibacterial peptide microcin J25 inhibits transcription by binding within and obstructing the RNA polymerase secondary channel

scientific article

Aromatic hydrogen bond in sequence-specific protein DNA recognition

scientific article

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

scientific article

Catabolite activator protein: DNA binding and transcription activation

scientific article

Characterization of the activating region of Escherichia coli catabolite gene activator protein (CAP). II. Role at Class I and class II CAP-dependent promoters.

scientific article

Closing and opening of the RNA polymerase trigger loop

scientific article published on 22 June 2020

Corrected nucleotide sequence of M13mp18 gene III

article

Determinants of the C-terminal domain of the Escherichia coli RNA polymerase alpha subunit important for transcription at class I cyclic AMP receptor protein-dependent promoters

scientific article published on April 2002

Direct detection of abortive RNA transcripts in vivo

scientific article

Direct observation of abortive initiation and promoter escape within single immobilized transcription complexes.

scientific article

Distance-restrained docking of rifampicin and rifamycin SV to RNA polymerase using systematic FRET measurements: developing benchmarks of model quality and reliability

scientific article

Domain organization of RNA polymerase alpha subunit: C-terminal 85 amino acids constitute a domain capable of dimerization and DNA binding.

scientific article

Dynamically driven protein allostery.

scientific article published on 13 August 2006

Fluorescence anisotropy: rapid, quantitative assay for protein-DNA and protein-protein interaction.

scientific article

Functional interaction between RNA polymerase alpha subunit C-terminal domain and sigma70 in UP-element- and activator-dependent transcription

scientific article

Highly efficient 5' capping of mitochondrial RNA with NAD and NADH by yeast and human mitochondrial RNA polymerase

scientific article published on 12 December 2018

Identification of the Subunit of cAMP Receptor Protein (CRP) That Functionally Interacts with CytR in CRP-CytR-mediated Transcriptional Repression

scientific article published in Journal of Biological Chemistry

Indirect readout of DNA sequence at the primary-kink site in the CAP-DNA complex: recognition of pyrimidine-purine and purine-purine steps

scientific article

Inhibition of bacterial RNA polymerase by streptolydigin: stabilization of a straight-bridge-helix active-center conformation

scientific article

Initial transcription by RNA polymerase proceeds through a DNA-scrunching mechanism

scientific article

Mutational analysis of a transcriptional activation region of the VP16 protein of herpes simplex virus

scientific article

New target for inhibition of bacterial RNA polymerase: 'switch region'

scientific article

Opening and closing of the bacterial RNA polymerase clamp

scientific article

Orientation of OmpR monomers within an OmpR:DNA complex determined by DNA affinity cleaving 1 1Edited by K. Yamamoto

scientific article published on 01 January 1999

Pause sequences facilitate entry into long-lived paused states by reducing RNA polymerase transcription rates

scientific article published in Nature Communications

Phenyl-azide-mediated photocrosslinking analysis of Cro-DNA interaction.

scientific article

Promoter structure, promoter recognition, and transcription activation in prokaryotes.

scientific article

Promoter unwinding and promoter clearance by RNA polymerase: detection by single-molecule DNA nanomanipulation.

scholarly article

Protein-protein interactions in eukaryotic transcription initiation: structure of the preinitiation complex

scientific article

RNA extension drives a stepwise displacement of an initiation-factor structural module in initial transcription

scientific article published on 03 March 2020

Rapid RNA polymerase genetics: one-day, no-column preparation of reconstituted recombinant Escherichia coli RNA polymerase.

scientific article

Requirement for two copies of RNA polymerase alpha subunit C-terminal domain for synergistic transcription activation at complex bacterial promoters

scientific article published on October 2002

Response of RNA polymerase to ppGpp: requirement for the omega subunit and relief of this requirement by DksA.

scientific article

Retention of transcription initiation factor sigma70 in transcription elongation: single-molecule analysis

scientific article

Roles of the histone H2A-H2B dimers and the (H3-H4)(2) tetramer in nucleosome remodeling by the SWI-SNF complex

scientific article published in April 2000

Single-molecule DNA nanomanipulation: detection of promoter-unwinding events by RNA polymerase

scientific article published on 01 January 2003

Single-molecule DNA nanomanipulation: improved resolution through use of shorter DNA fragments.

scientific article

Static and kinetic site-specific protein-DNA photocrosslinking: analysis of bacterial transcription initiation complexes

scientific article

Structural basis for cAMP-mediated allosteric control of the catabolite activator protein.

scientific article

Structural basis of ECF-σ-factor-dependent transcription initiation

scientific article published in Nature Communications

Structural basis of Q-dependent antitermination

scientific article published on 27 August 2019

Structural basis of transcription activation: the CAP-alpha CTD-DNA complex

scientific article

Structural basis of transcription initiation

scientific article

Structural basis of transcription-translation coupling

scientific article

Structure of antibacterial peptide microcin J25: a 21-residue lariat protoknot

scientific article

Structure of the CAP-DNA complex at 2.5 angstroms resolution: a complete picture of the protein-DNA interface

scientific article

Structure of the LexA repressor-DNA complex probed by affinity cleavage and affinity photo-cross-linking.

scientific article

Structures of RNA polymerase-antibiotic complexes

scientific article

Systematic structure-activity analysis of microcin J25.

scientific article published on 16 July 2008

The Escherichia coli RNA polymerase alpha subunit: structure and function

scientific article

The RNA polymerase "switch region" is a target for inhibitors

scientific article

The antibacterial threaded-lasso peptide capistruin inhibits bacterial RNA polymerase.

scientific article

The initiation factor TFE and the elongation factor Spt4/5 compete for the RNAP clamp during transcription initiation and elongation

scientific article published on July 2011

The interaction between sigma70 and the beta-flap of Escherichia coli RNA polymerase inhibits extension of nascent RNA during early elongation

scientific article

The mechanism of variability in transcription start site selection

scientific article published on 23 November 2017

The sigma 70 subunit of RNA polymerase mediates a promoter-proximal pause at the lac promoter.

scientific article

The transcription bubble of the RNA polymerase-promoter open complex exhibits conformational heterogeneity and millisecond-scale dynamics: implications for transcription start-site selection

scientific article published on 28 December 2012

Thermodynamic and kinetic modeling of transcriptional pausing

scholarly article

Trajectory of DNA in the RNA polymerase II transcription preinitiation complex ⬇️

scientific article published on November 11, 1997

Transcription activation at Class II CRP-dependent promoters: identification of determinants in the C-terminal domain of the RNA polymerase alpha subunit.

scientific article

Transcription activation by catabolite activator protein (CAP)

scientific article (publication date: 22 October 1999)

Transcription factor B contacts promoter DNA near the transcription start site of the archaeal transcription initiation complex

scientific article published on 03 November 2003

Upstream promoter sequences and alphaCTD mediate stable DNA wrapping within the RNA polymerase-promoter open complex

scientific article published on 9 February 2007

List of works by Richard H. Ebright

A single substitution in the putative helix-turn-helix motif of the pleiotropic activator PrfA attenuates Listeria monocytogenes virulence

Abortive initiation and productive initiation by RNA polymerase involve DNA scrunching

Accurate FRET measurements within single diffusing biomolecules using alternating-laser excitation

Antibacterial peptide microcin J25 inhibits transcription by binding within and obstructing the RNA polymerase secondary channel

Aromatic hydrogen bond in sequence-specific protein DNA recognition

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

Catabolite activator protein: DNA binding and transcription activation

Characterization of the activating region of Escherichia coli catabolite gene activator protein (CAP). II. Role at Class I and class II CAP-dependent promoters.

Closing and opening of the RNA polymerase trigger loop

Corrected nucleotide sequence of M13mp18 gene III

Determinants of the C-terminal domain of the Escherichia coli RNA polymerase alpha subunit important for transcription at class I cyclic AMP receptor protein-dependent promoters

Direct detection of abortive RNA transcripts in vivo

Direct observation of abortive initiation and promoter escape within single immobilized transcription complexes.

Distance-restrained docking of rifampicin and rifamycin SV to RNA polymerase using systematic FRET measurements: developing benchmarks of model quality and reliability

Domain organization of RNA polymerase alpha subunit: C-terminal 85 amino acids constitute a domain capable of dimerization and DNA binding.

Dynamically driven protein allostery.

Fluorescence anisotropy: rapid, quantitative assay for protein-DNA and protein-protein interaction.

Functional interaction between RNA polymerase alpha subunit C-terminal domain and sigma70 in UP-element- and activator-dependent transcription

Highly efficient 5' capping of mitochondrial RNA with NAD and NADH by yeast and human mitochondrial RNA polymerase

Identification of the Subunit of cAMP Receptor Protein (CRP) That Functionally Interacts with CytR in CRP-CytR-mediated Transcriptional Repression

Indirect readout of DNA sequence at the primary-kink site in the CAP-DNA complex: recognition of pyrimidine-purine and purine-purine steps

Inhibition of bacterial RNA polymerase by streptolydigin: stabilization of a straight-bridge-helix active-center conformation

Initial transcription by RNA polymerase proceeds through a DNA-scrunching mechanism

Mutational analysis of a transcriptional activation region of the VP16 protein of herpes simplex virus

New target for inhibition of bacterial RNA polymerase: 'switch region'

Opening and closing of the bacterial RNA polymerase clamp

Orientation of OmpR monomers within an OmpR:DNA complex determined by DNA affinity cleaving 1 1Edited by K. Yamamoto

Pause sequences facilitate entry into long-lived paused states by reducing RNA polymerase transcription rates

Phenyl-azide-mediated photocrosslinking analysis of Cro-DNA interaction.

Promoter structure, promoter recognition, and transcription activation in prokaryotes.

Promoter unwinding and promoter clearance by RNA polymerase: detection by single-molecule DNA nanomanipulation.

Protein-protein interactions in eukaryotic transcription initiation: structure of the preinitiation complex

RNA extension drives a stepwise displacement of an initiation-factor structural module in initial transcription

Rapid RNA polymerase genetics: one-day, no-column preparation of reconstituted recombinant Escherichia coli RNA polymerase.

Requirement for two copies of RNA polymerase alpha subunit C-terminal domain for synergistic transcription activation at complex bacterial promoters

Response of RNA polymerase to ppGpp: requirement for the omega subunit and relief of this requirement by DksA.

Retention of transcription initiation factor sigma70 in transcription elongation: single-molecule analysis

Roles of the histone H2A-H2B dimers and the (H3-H4)(2) tetramer in nucleosome remodeling by the SWI-SNF complex

Single-molecule DNA nanomanipulation: detection of promoter-unwinding events by RNA polymerase

Single-molecule DNA nanomanipulation: improved resolution through use of shorter DNA fragments.

Static and kinetic site-specific protein-DNA photocrosslinking: analysis of bacterial transcription initiation complexes

Structural basis for cAMP-mediated allosteric control of the catabolite activator protein.

Structural basis of ECF-σ-factor-dependent transcription initiation

Structural basis of Q-dependent antitermination

Structural basis of transcription activation: the CAP-alpha CTD-DNA complex

Structural basis of transcription initiation

Structural basis of transcription-translation coupling

Structure of antibacterial peptide microcin J25: a 21-residue lariat protoknot

Structure of the CAP-DNA complex at 2.5 angstroms resolution: a complete picture of the protein-DNA interface

Structure of the LexA repressor-DNA complex probed by affinity cleavage and affinity photo-cross-linking.

Structures of RNA polymerase-antibiotic complexes

Systematic structure-activity analysis of microcin J25.

The Escherichia coli RNA polymerase alpha subunit: structure and function

The RNA polymerase "switch region" is a target for inhibitors

The antibacterial threaded-lasso peptide capistruin inhibits bacterial RNA polymerase.

The initiation factor TFE and the elongation factor Spt4/5 compete for the RNAP clamp during transcription initiation and elongation

The interaction between sigma70 and the beta-flap of Escherichia coli RNA polymerase inhibits extension of nascent RNA during early elongation

The mechanism of variability in transcription start site selection

The sigma 70 subunit of RNA polymerase mediates a promoter-proximal pause at the lac promoter.

The transcription bubble of the RNA polymerase-promoter open complex exhibits conformational heterogeneity and millisecond-scale dynamics: implications for transcription start-site selection

Thermodynamic and kinetic modeling of transcriptional pausing

Trajectory of DNA in the RNA polymerase II transcription preinitiation complex ⬇️

Transcription activation at Class II CRP-dependent promoters: identification of determinants in the C-terminal domain of the RNA polymerase alpha subunit.

Transcription activation by catabolite activator protein (CAP)

Transcription factor B contacts promoter DNA near the transcription start site of the archaeal transcription initiation complex

Upstream promoter sequences and alphaCTD mediate stable DNA wrapping within the RNA polymerase-promoter open complex