rpoN RNA polymerase sigma factor RpoN [Escherichia coli str. K-12 substr. MG1655] - Gene

Summary

Go to the top of the page Help

Official Symbol: rpoN
Official Full Name: RNA polymerase sigma factor RpoN
Primary source: ECOCYC:EG10898
Locus tag: b3202
See related: ASAP:ABE-0010514
Gene type: protein coding
RefSeq status: PROVISIONAL
Organism: Escherichia coli str. K-12 substr. MG1655 (strain: K-12, substrain: MG1655)
Lineage: Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales; Enterobacteriaceae; Escherichia
Also known as: ECK3191; glnF; ntrA
Summary: RpoN, aslo called sigma N, was originally identified as the sigma factor for nitrogen-controlled genes. [More information is available at EcoGene: EG10898]. Sigma 54 controls expression of nitrogen-related genes, directing |FRAME: [More information is available at EcoCyc: EG10898].
NEW: Try the new Gene table
Try the new Transcript table

Genomic context

Go to the top of the page Help

Sequence:: NC_000913.3 (3344717..3346150)

NC_000913.3 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

Go to the top of the page Help

Go to reference sequence details

Genomic Sequence:: NC_000913.3

Go to nucleotide: Graphics FASTA GenBank

Bibliography

Go to the top of the page Help

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Interactions between DksA and Stress-Responsive Alternative Sigma Factors Control Inorganic Polyphosphate Accumulation in Escherichia coli.
Title: Interactions between DksA and Stress-Responsive Alternative Sigma Factors Control Inorganic Polyphosphate Accumulation in Escherichia coli.
DNA melting is an active process initiated in closed promoter complex (RPc) and that the RNAP conformations of intermediates are significantly different from that of RPc and open promoter complex.
Title: Structures of RNA Polymerase Closed and Intermediate Complexes Reveal Mechanisms of DNA Opening and Transcription Initiation.
Upregulation of fliZ by NtrC-sigma(N) was shown to be indirect and required an intact flagellar regulator flhDC.
Title: σ(N) -dependent control of acid resistance and the locus of enterocyte effacement in enterohemorrhagic Escherichia coli is activated by acetyl phosphate in a manner requiring flagellar regulator FlhDC and the σ(S) antagonist FliZ.
Data suggest a direct binding mechanism, in which sigma(54)RNA polymerase (rpoN) reaches the local vicinity of promoters by 3D diffusion.
Title: RNA polymerase approaches its promoter without long-range sliding along DNA.
Expression of the flagellar sigma(F) factor (FliA), another sigma(70) family protein, is controlled positively by RpoN but negatively by RpoS.
Title: Antagonistic regulation of motility and transcriptome expression by RpoN and RpoS in Escherichia coli.
These observations suggest a novel mechanism for negative regulation in bacterial enhancer binding proteins such as NorR in which the GAF domain targets the sigma(54)-interaction surface to prevent access of the AAA+ domain to the sigma factor.
Title: Nitric oxide-responsive interdomain regulation targets the σ54-interaction surface in the enhancer binding protein NorR.
Results inidicate that there are 70 sigma(54) promoters in total in the entire Escherichia coli genome.
Title: Promoter and regulon analysis of nitrogen assimilation factor, sigma54, reveal alternative strategy for E. coli MG1655 flagellar biosynthesis.
Analyses of promoter mutants obtained by in vitro chemical mutagenesis of the atoDAEB promoter verified both the importance of AtoC binding for the inducibility of the promoter by acetoacetate and the sigma54 dependence of atoDAEB expression.
Title: Interactions of the antizyme AtoC with regulatory elements of the Escherichia coli atoDAEB operon.
Identified as new member of the polyamine modulon together with Cra and H-NS.
Title: Enhancement of the synthesis of RpoN, Cra, and H-NS by polyamines at the level of translation in Escherichia coli cultured with glucose and glutamate.
We propose a passive model for ppGpp/DksA regulation of sigma54-dependent transcription that depends on the potent negative effects of these regulatory molecules on transcription from powerful stringently regulated sigma70 promoters.
Title: The guanosine tetraphosphate (ppGpp) alarmone, DksA and promoter affinity for RNA polymerase in regulation of sigma-dependent transcription.

Submit: New GeneRIF Correction See all GeneRIFs (11)

Interactions

Go to the top of the page Help

Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

Go to the top of the page Help

Homology

Orthologs from OrthoDB

Gene Ontology Provided by EcoCyc

Function	Evidence Code	Pubs
enables DNA binding	IEA Inferred from Electronic Annotation more info
enables DNA-binding transcription activator activity	IBA Inferred from Biological aspect of Ancestor more info
enables DNA-binding transcription activator activity	IEA Inferred from Electronic Annotation more info
enables DNA-binding transcription activator activity	IMP Inferred from Mutant Phenotype more info	PubMed
enables DNA-binding transcription activator activity	IPI Inferred from Physical Interaction more info	PubMed
enables nucleotidyltransferase activity	IEA Inferred from Electronic Annotation more info
enables sigma factor activity	IEA Inferred from Electronic Annotation more info
enables transcription cis-regulatory region binding	IBA Inferred from Biological aspect of Ancestor more info
enables transcription cis-regulatory region binding	IMP Inferred from Mutant Phenotype more info	PubMed
enables transcription cis-regulatory region binding	IPI Inferred from Physical Interaction more info	PubMed

Process	Evidence Code	Pubs
involved_in DNA-templated transcription initiation	IEA Inferred from Electronic Annotation more info
involved_in DNA-templated transcription initiation	ISS Inferred from Sequence or Structural Similarity more info
involved_in arginine metabolic process	IEA Inferred from Electronic Annotation more info
involved_in cell motility	NAS Non-traceable Author Statement more info	PubMed
involved_in nitrate assimilation	NAS Non-traceable Author Statement more info	PubMed
involved_in positive regulation of DNA-templated transcription	IDA Inferred from Direct Assay more info	PubMed
involved_in regulation of DNA-templated transcription	IBA Inferred from Biological aspect of Ancestor more info
involved_in regulation of DNA-templated transcription	IEA Inferred from Electronic Annotation more info
involved_in regulation of DNA-templated transcription initiation	ISS Inferred from Sequence or Structural Similarity more info
involved_in submerged biofilm formation	NAS Non-traceable Author Statement more info	PubMed

Component	Evidence Code	Pubs
part_of DNA-directed RNA polymerase complex	IEA Inferred from Electronic Annotation more info
part_of cytosolic DNA-directed RNA polymerase complex	ISS Inferred from Sequence or Structural Similarity more info
part_of protein-DNA complex	IBA Inferred from Biological aspect of Ancestor more info
part_of protein-DNA complex	IMP Inferred from Mutant Phenotype more info	PubMed
part_of protein-DNA complex	IPI Inferred from Physical Interaction more info	PubMed

General protein information

Go to the top of the page Help

Preferred Names: RNA polymerase sigma factor RpoN

NCBI Reference Sequences (RefSeq)

Go to the top of the page Help

NEW Try the new Transcript table

Genome Annotation

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference assembly

Genomic

NC_000913.3 Reference assembly

Range

3344717..3346150

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

NP_417669.1 RNA polymerase sigma factor RpoN [Escherichia coli str. K-12 substr. MG1655]

See identical proteins and their annotated locations for NP_417669.1

Status: PROVISIONAL

UniProtKB/TrEMBL

A0A3P5DUQ2, A0A8T6Q6H5, A0AAN3IM48

Conserved Domains (1) summary

PRK05932
Location:1 → 476

PRK05932; RNA polymerase factor sigma-54; Reviewed