dksA RNA polymerase-binding transcription factor DksA [Escherichia coli str. K-12 substr. MG1655] - Gene

Summary

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Official Symbol: dksA
Official Full Name: RNA polymerase-binding transcription factor DksA
Primary source: ECOCYC:EG10230
Locus tag: b0145
See related: ASAP:ABE-0000499
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: ECK0144; msmA
Summary: High copy dksA suppresses mukB and TS growth and filamentation of a dnaK mutant. dksA is also a multicopy suppressor of dnaJ, grpE and prc. dksA transcription is alkali-inducible. [More information is available at EcoGene: EG10230]. The DksA protein binds directly to RNA polymerase, affecting transcript elongation and augmenting the effect of the alarmone ppGpp on transcription initiation . [More information is available at EcoCyc: EG10230].
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Genomic context

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Sequence:: NC_000913.3 (160149..160604, complement)

NC_000913.3 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:: NC_000913.3

Go to nucleotide: Graphics FASTA GenBank

Bibliography

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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.
Data suggest that rRNA promoters are inhibited by the secondary channel factors (SCFs) transcription factors GreB and DksA because their short-lived RNA polymerases (RNAPs) complexes do not allow sufficient time for SCFs to dissociate.
Title: Delayed inhibition mechanism for secondary channel factor regulation of ribosomal RNA transcription.
It appears that depending on the type and possibly location of DNA damage, DksA can play either a passive or an active role in DNA double-strand break repair.
Title: DksA and DNA double-strand break repair.
Stringent mutations of RNA polymerase that frequently arise spontaneously in strains defective in (p)ppGpp synthesis and null mutations of the stringent-response-associated transcription factor DksA both strongly inhibit inorganic polyphosphate accumulation.
Title: Inorganic Polyphosphate Accumulation in Escherichia coli Is Regulated by DksA but Not by (p)ppGpp.
We report here a requirement of the E. coli RNAP-associated protein, DksA, in the formation of new origins of replication in dnaA46ts DeltarnhA or DeltaoriC DeltarnhA mutants.
Title: DksA-RNA polymerase interactions support new origin formation and DNA repair in Escherichia coli.
These data demonstrate that DksA is critical for nitric oxide (NO) detoxification by E. coli and that loss of this regulator leads to NO defense deficiencies that span multiple levels.
Title: Loss of DksA leads to multi-faceted impairment of nitric oxide detoxification by Escherichia coli.
destabilization of rRNA promoter complexes by the sigma finger makes them a target for robust regulation by the stringent response factors under stress conditions, including repression by DksA
Title: Region 3.2 of the σ factor controls the stability of rRNA promoter complexes and potentiates their repression by DksA.
Deleting dksA, which encodes a regulator of the stringent response to nutrient starvation, decreases growth under glucose phosphate stress conditions. The stringent response alarmone regulator ppGpp (synthesized by RelA and SpoT) also contributes to recovery from glucose phosphate stress: as with dksA, mutating relA and spoT worsens the growth defect of an sgrS mutant during stress.
Title: Stringent Response Regulators Contribute to Recovery from Glucose Phosphate Stress in Escherichia coli.
The structural data support a model for transcriptional inhibition in which ppGpp potentiates the destabilization of open complexes by DksA. This work establishes a structural basis for understanding the pleiotropic effects of DksA and ppGpp on transcriptional regulation in proteobacteria.
Title: Allosteric Effector ppGpp Potentiates the Inhibition of Transcript Initiation by DksA.
The authors conclude that DksA lowers T4 phage early gene expression.
Title: The E. coli Global Regulator DksA Reduces Transcription during T4 Infection.

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Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Homology

Orthologs from OrthoDB

Gene Ontology Provided by EcoCyc

Function	Evidence Code	Pubs
enables guanosine tetraphosphate binding	IDA Inferred from Direct Assay more info	PubMed
enables metal ion binding	IEA Inferred from Electronic Annotation more info
enables zinc ion binding	IEA Inferred from Electronic Annotation more info

Process	Evidence Code	Pubs
acts_upstream_of_or_within double-strand break repair	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in regulation of DNA-templated transcription	IBA Inferred from Biological aspect of Ancestor more info
involved_in regulation of gene expression	IEA Inferred from Electronic Annotation more info

Component	Evidence Code	Pubs
located_in cytoplasm	HDA more info	PubMed
located_in cytoplasm	IEA Inferred from Electronic Annotation more info
located_in cytosol	IDA Inferred from Direct Assay more info	PubMed