Genome-wide expression profiling in Geobacter sulfurreducens: identification of Fur and RpoS transcription regulatory sites in a relGsu mutant (Q80094157)

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scientific article published on 04 April 2007

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English	Genome-wide expression profiling in Geobacter sulfurreducens: identification of Fur and RpoS transcription regulatory sites in a relGsu mutant	scientific article published on 04 April 2007

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28 December 2019

Genome-wide expression profiling in Geobacter sulfurreducens: identification of Fur and RpoS transcription regulatory sites in a relGsu mutant (English)

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28 December 2019

Geobacter sulfurreducens

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Geobacter sulfurreducens

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Derek R. Lovley

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Derek R Lovley

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28 December 2019

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Kelly P Nevin

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28 December 2019

Trevor L Woodard

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Trevor L Woodard

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28 December 2019

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Julia Krushkal

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28 December 2019

Bin Yan

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28 December 2019

Laurie N DiDonato

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28 December 2019

Marko Puljic

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28 December 2019

Ronald M Adkins

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28 December 2019

Barbara A Methé

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28 December 2019

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4 April 2007

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28 December 2019

Functional and Integrative Genomics

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28 December 2019

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28 December 2019

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28 December 2019

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28 December 2019

https://scigraph.springernature.com/pub.10.1007/s10142-007-0048-5

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Cloning and characterization of a relA/spoT homologue from Bacillus subtilis

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12 December 2020

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Functional analysis of a relA/spoT gene homolog from Streptococcus equisimilis

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12 December 2020

based on heuristic

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Multiple Sigma Subunits and the Partitioning of Bacterial Transcription Space

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12 December 2020

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Cloning and characterization of a bifunctional RelA/SpoT homologue from Mycobacterium tuberculosis

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12 December 2020

based on heuristic

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VOSTORG: a package of microcomputer programs for sequence analysis and construction of phylogenetic trees

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12 December 2020

based on heuristic

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

1 reference

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12 December 2020

based on heuristic

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Genome-wide similarity search for transcription factors and their binding sites in a metal-reducing prokaryote Geobacter sulfurreducens.

1 reference

https://pubmed.ncbi.nlm.nih.gov/17406915

12 December 2020

based on heuristic

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Characterization of the relA/spoT gene from Bacillus stearothermophilus.

1 reference

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12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Fur regulates the expression of iron-stress genes in the cyanobacterium Synechococcus sp. strain PCC 7942.

1 reference

https://pubmed.ncbi.nlm.nih.gov/17406915

12 December 2020

based on heuristic

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Promoter use by sigma 38 (rpoS) RNA polymerase. Amino acid clusters for DNA binding and isomerization

1 reference

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12 December 2020

based on heuristic

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Computational prediction of RpoS and RpoD regulatory sites in Geobacter sulfurreducens using sequence and gene expression information.

1 reference

https://pubmed.ncbi.nlm.nih.gov/17406915

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Nucleotide sequence of an RNA polymerase binding site at an early T7 promoter

1 reference

https://pubmed.ncbi.nlm.nih.gov/17406915

12 December 2020

based on heuristic

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Identification of the Clostridium perfringens genes involved in the adaptive response to oxidative stress

1 reference

https://pubmed.ncbi.nlm.nih.gov/17406915

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Predicting regulons and their cis-regulatory motifs by comparative genomics

1 reference

https://pubmed.ncbi.nlm.nih.gov/17406915

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

RpoS-dependent promoters require guanosine tetraphosphate for induction even in the presence of high levels of sigma(s)

1 reference

https://pubmed.ncbi.nlm.nih.gov/17406915

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

OmcB, a c-type polyheme cytochrome, involved in Fe(III) reduction in Geobacter sulfurreducens

1 reference

https://pubmed.ncbi.nlm.nih.gov/17406915

12 December 2020

based on heuristic

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Conservation of DNA Regulatory Motifs and Discovery of New Motifs in Microbial Genomes

1 reference

https://pubmed.ncbi.nlm.nih.gov/17406915

12 December 2020

based on heuristic

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A role for the sigma S subunit of RNA polymerase in the regulation of bacterial virulence

1 reference

https://pubmed.ncbi.nlm.nih.gov/17406915

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

PCR-mediated gene replacement in Escherichia coli

1 reference

https://pubmed.ncbi.nlm.nih.gov/17406915

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Transcriptional response of Pasteurella multocida to defined iron sources

1 reference

https://pubmed.ncbi.nlm.nih.gov/17406915

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Growth of Geobacter sulfurreducens under nutrient-limiting conditions in continuous culture

1 reference

https://pubmed.ncbi.nlm.nih.gov/17406915

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

BioOptimizer: a Bayesian scoring function approach to motif discovery

1 reference

https://pubmed.ncbi.nlm.nih.gov/17406915

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

DNA microarray and proteomic analyses of the RpoS regulon in Geobacter sulfurreducens

1 reference

https://pubmed.ncbi.nlm.nih.gov/17406915

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Control of Escherichia coli superoxide dismutase (sodA and sodB) genes by the ferric uptake regulation (fur) locus

1 reference

https://pubmed.ncbi.nlm.nih.gov/17406915

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Dissimilatory Fe(III) and Mn(IV) reduction

1 reference

https://pubmed.ncbi.nlm.nih.gov/17406915

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Microbial communities associated with electrodes harvesting electricity from a variety of aquatic sediments.

1 reference

https://pubmed.ncbi.nlm.nih.gov/17406915

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Change in bacterial community structure during in situ biostimulation of subsurface sediment cocontaminated with uranium and nitrate

1 reference

https://pubmed.ncbi.nlm.nih.gov/17406915

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

BioProspector: discovering conserved DNA motifs in upstream regulatory regions of co-expressed genes.

1 reference

https://pubmed.ncbi.nlm.nih.gov/17406915

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Identification of an uptake hydrogenase required for hydrogen-dependent reduction of Fe(III) and other electron acceptors by Geobacter sulfurreducens

1 reference

https://pubmed.ncbi.nlm.nih.gov/17406915

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

The COG database: an updated version includes eukaryotes

1 reference

https://pubmed.ncbi.nlm.nih.gov/17406915

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Adaptation to disruption of the electron transfer pathway for Fe(III) reduction in Geobacter sulfurreducens

1 reference

https://pubmed.ncbi.nlm.nih.gov/17406915

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Nucleotides from -16 to -12 determine specific promoter recognition by bacterial sigmaS-RNA polymerase.

1 reference

https://pubmed.ncbi.nlm.nih.gov/17406915

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Reconstruction of regulatory and metabolic pathways in metal-reducing delta-proteobacteria

1 reference

https://pubmed.ncbi.nlm.nih.gov/17406915

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

What makes an Escherichia coli promoter sigma(S) dependent? Role of the -13/-14 nucleotide promoter positions and region 2.5 of sigma(S).

1 reference

https://pubmed.ncbi.nlm.nih.gov/17406915

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Differential roles of the universal stress proteins of Escherichia coli in oxidative stress resistance, adhesion, and motility

1 reference

https://pubmed.ncbi.nlm.nih.gov/17406915

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Recognition of DNA by Fur: a reinterpretation of the Fur box consensus sequence

1 reference

https://pubmed.ncbi.nlm.nih.gov/17406915

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Prominent roles of the NorR and Fur regulators in the Escherichia coli transcriptional response to reactive nitrogen species

1 reference

https://pubmed.ncbi.nlm.nih.gov/17406915

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Comparative analysis of FUR regulons in gamma-proteobacteria

1 reference

https://pubmed.ncbi.nlm.nih.gov/17406915

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Importance of anaerobic superoxide dismutase synthesis in facilitating outgrowth of Escherichia coli upon entry into an aerobic habitat

1 reference

https://pubmed.ncbi.nlm.nih.gov/17406915

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

The RpoS sigma factor in the dissimilatory Fe(III)-reducing bacterium Geobacter sulfurreducens

1 reference

https://pubmed.ncbi.nlm.nih.gov/17406915

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Enrichment of members of the family Geobacteraceae associated with stimulation of dissimilatory metal reduction in uranium-contaminated aquifer sediments

1 reference

https://pubmed.ncbi.nlm.nih.gov/17406915

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Growth versus maintenance: a trade-off dictated by RNA polymerase availability and sigma factor competition?

1 reference

https://pubmed.ncbi.nlm.nih.gov/17406915

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Revisiting the stringent response, ppGpp and starvation signaling.

1 reference

https://pubmed.ncbi.nlm.nih.gov/17406915

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Use of genome-wide expression profiling and mutagenesis to study the intestinal lifestyle of Campylobacter jejuni

1 reference

https://pubmed.ncbi.nlm.nih.gov/17406915

12 December 2020

based on heuristic

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The program of gene transcription for a single differentiating cell type during sporulation in Bacillus subtilis

1 reference

https://pubmed.ncbi.nlm.nih.gov/17406915

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

New horizons for (p)ppGpp in bacterial and plant physiology.

1 reference

https://pubmed.ncbi.nlm.nih.gov/17406915

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Computational prediction of conserved operons and phylogenetic footprinting of transcription regulatory elements in the metal-reducing bacterial family Geobacteraceae

1 reference

https://pubmed.ncbi.nlm.nih.gov/17406915

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Bacillus cereus Fur regulates iron metabolism and is required for full virulence.

1 reference

https://pubmed.ncbi.nlm.nih.gov/17406915

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Transcriptomic and proteomic characterization of the Fur modulon in the metal-reducing bacterium Shewanella oneidensis

1 reference

https://pubmed.ncbi.nlm.nih.gov/17406915

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

WebLogo: A Sequence Logo Generator

1 reference

https://pubmed.ncbi.nlm.nih.gov/17406915

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

An alternative strategy for bacterial ribosome synthesis: Bacillus subtilis rRNA transcription regulation

1 reference

https://pubmed.ncbi.nlm.nih.gov/17406915

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

ppGpp: a global regulator in Escherichia coli.

1 reference

https://pubmed.ncbi.nlm.nih.gov/17406915

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

OxyR and SoxRS regulation of fur

1 reference

https://pubmed.ncbi.nlm.nih.gov/17406915

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Role of ppGpp in rpoS stationary-phase regulation in Escherichia coli

1 reference

https://pubmed.ncbi.nlm.nih.gov/17406915

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Metal ion regulation of gene expression. Fur repressor-operator interaction at the promoter region of the aerobactin system of pColV-K30.

1 reference

https://pubmed.ncbi.nlm.nih.gov/17406915

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Iron limitation induces SpoT-dependent accumulation of ppGpp in Escherichia coli

1 reference

https://pubmed.ncbi.nlm.nih.gov/17406915

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Mechanism for iron-regulated transcription of the Escherichia coli cir gene: metal-dependent binding of fur protein to the promoters

1 reference

https://pubmed.ncbi.nlm.nih.gov/17406915

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Stimulating the In Situ Activity of Geobacter Species To Remove Uranium from the Groundwater of a Uranium-Contaminated Aquifer

1 reference

https://pubmed.ncbi.nlm.nih.gov/17406915

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Regulation of two highly similar genes, omcB and omcC, in a 10 kb chromosomal duplication in Geobacter sulfurreducens

1 reference

https://pubmed.ncbi.nlm.nih.gov/17406915

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

DNA microarray analysis of nitrogen fixation and Fe(III) reduction in Geobacter sulfurreducens

1 reference

https://pubmed.ncbi.nlm.nih.gov/17406915

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

The hydrogenases of Geobacter sulfurreducens: a comparative genomic perspective

1 reference

https://pubmed.ncbi.nlm.nih.gov/17406915

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Escherichia coli promoters. I. Consensus as it relates to spacing class, specificity, repeat substructure, and three-dimensional organization

1 reference

https://pubmed.ncbi.nlm.nih.gov/17406915

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Sigma38 (rpoS) RNA polymerase promoter engagement via -10 region nucleotides

1 reference

https://pubmed.ncbi.nlm.nih.gov/17406915

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

DksA potentiates direct activation of amino acid promoters by ppGpp

1 reference

https://pubmed.ncbi.nlm.nih.gov/17406915

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Signal transduction and regulatory mechanisms involved in control of the sigma(S) (RpoS) subunit of RNA polymerase

1 reference

https://pubmed.ncbi.nlm.nih.gov/17406915

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Electrode-reducing microorganisms that harvest energy from marine sediments

1 reference

https://pubmed.ncbi.nlm.nih.gov/17406915

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Compilation and analysis ofEscherichia colipromoter DNA sequences

1 reference

https://pubmed.ncbi.nlm.nih.gov/17406915

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Recent insights into the general stress response regulatory network in Escherichia coli.

1 reference

https://pubmed.ncbi.nlm.nih.gov/17406915

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Genome-wide analysis of the general stress response network in Escherichia coli: sigmaS-dependent genes, promoters, and sigma factor selectivity

1 reference

https://pubmed.ncbi.nlm.nih.gov/17406915

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Gene expression in Pseudomonas aeruginosa: evidence of iron override effects on quorum sensing and biofilm-specific gene regulation

1 reference

https://pubmed.ncbi.nlm.nih.gov/17406915

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Reaction of the desulfoferrodoxin from Desulfoarculus baarsii with superoxide anion. Evidence for a superoxide reductase activity

1 reference

https://pubmed.ncbi.nlm.nih.gov/17406915

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Sigma factor selectivity in Borrelia burgdorferi: RpoS recognition of the ospE/ospF/elp promoters is dependent on the sequence of the -10 region

1 reference

https://pubmed.ncbi.nlm.nih.gov/17406915

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

DksA affects ppGpp induction of RpoS at a translational level

1 reference

https://pubmed.ncbi.nlm.nih.gov/17406915

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Role of RelGsu in stress response and Fe(III) reduction in Geobacter sulfurreducens

1 reference

https://pubmed.ncbi.nlm.nih.gov/17406915

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Oxidative stress responses in Escherichia coli and Salmonella typhimurium

1 reference

https://pubmed.ncbi.nlm.nih.gov/17406915

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Development of a genetic system for Geobacter sulfurreducens

1 reference

https://pubmed.ncbi.nlm.nih.gov/17406915

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Changes in conserved region 2 of Escherichia coli sigma 70 affecting promoter recognition

1 reference

https://pubmed.ncbi.nlm.nih.gov/17406915

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

DNA microarray-mediated transcriptional profiling of the Escherichia coli response to hydrogen peroxide

1 reference

https://pubmed.ncbi.nlm.nih.gov/17406915

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

The universal stress protein paralogues of Escherichia coli are co-ordinately regulated and co-operate in the defence against DNA damage

1 reference

https://pubmed.ncbi.nlm.nih.gov/17406915

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Geobacter sulfurreducens sp. nov., a hydrogen- and acetate-oxidizing dissimilatory metal-reducing microorganism

1 reference

https://pubmed.ncbi.nlm.nih.gov/17406915

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Comparative genomics and evolution of genes encoding bacterial (p)ppGpp synthetases/hydrolases (the Rel, RelA and SpoT proteins).

1 reference

https://pubmed.ncbi.nlm.nih.gov/17406915

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Genome of Geobacter sulfurreducens: Metal Reduction in Subsurface Environments

1 reference

https://pubmed.ncbi.nlm.nih.gov/17406915

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Finding DNA regulatory motifs within unaligned noncoding sequences clustered by whole-genome mRNA quantitation

1 reference

https://pubmed.ncbi.nlm.nih.gov/17406915

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

A comprehensive library of DNA-binding site matrices for 55 proteins applied to the complete Escherichia coli K-12 genome

1 reference

https://pubmed.ncbi.nlm.nih.gov/17406915

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Synthesis of Guanosine Tetra- and Pentaphosphate Requires the Presence of a Codon-Specific, Uncharged Transfer Ribonucleic Acid in the Acceptor Site of Ribosomes

1 reference

https://pubmed.ncbi.nlm.nih.gov/17406915

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Altered promoter recognition by mutant forms of the sigma 70 subunit of Escherichia coli RNA polymerase

1 reference

https://pubmed.ncbi.nlm.nih.gov/17406915

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

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