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RelB-RelE DNA-binding transcriptional repressor

Synonyms: RelB-RelE
Summary:
RelB is a DNA-binding transcriptional regulator which belongs to the ribbon-helix-helix (RHH) family of transcription factors [1]and it is an antitoxin that prevents the lethal action of the toxin [] RelB is part of the relBE-hokD operon, which specifies a toxin-antitoxin system, and it is autoregulated by its own products, RelB and RelE [1] On the other hand, relE encodes a cytotoxin that is lethal or inhibitory to host cells [] and it also encodes a cofactor that enhances the repressor activity of RelB [1] The relBE-hokD operon is induced upon entering nutritional starvation conditions, such as the stringent response or acid starvation [] while the level of RelB antitoxin is reduced as a result of Lon-dependent proteolysis.
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Transcription factor      
TF conformation(s):
Name Conformation Type TF-Effector Interaction Type Apo/Holo Conformation Evidence (Confirmed, Strong, Weak) References
RelB-RelE Functional   [APPHINH], [ICWHO], [IEP] [1]
Connectivity class: Local Regulator
Gene name: relB
  Genome position: 1645633-1645872
  Length: 240 bp / 79 aa
Operon name: relBE-hokD
TU(s) encoding the TF:
Transcription unit        Promoter
relBE-hokD
relBp
 
 
Gene name: relE
  Genome position: 1645346-1645633
  Length: 288 bp / 95 aa
Operon name: relBE-hokD
TU(s) encoding the TF:
Transcription unit        Promoter
relBE-hokD
relBp
 
 


Regulon       
Regulated gene(s) hokD, relB, relE
Multifun term(s) of regulated gene(s) MultiFun Term (List of genes associated to the multifun term)
RNA degradation (2)
translation attenuation and efficiency (2)
cell killing (2)
prophage genes and phage related functions (1)
Transcription related (1)
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Regulated operon(s) relBE-hokD
First gene in the operon(s) relB
Simple and complex regulons RelB,RelB-RelE
Simple and complex regulatory phrases Regulatory phrase (List of promoters regulated by the phrase)


Transcription factor regulation    


Transcription factor binding sites (TFBSs) arrangements
      

  Functional conformation Function Promoter Sigma factor Central Rel-Pos Distance to first Gene Genes Sequence LeftPos RightPos Evidence (Confirmed, Strong, Weak) References
  RelB-RelE repressor relBp Sigma70 -13.5 -44.5 relB, relE, hokD
cctaagcatgTTGTAGTGCGATacttgtaatg
1645911 1645922 [APIORCISFBSCS], [BPP], [CV(GEA)], [CV(GEA)], [GEA] [1]
  RelB-RelE repressor relBp Sigma70 1.5 -30.5 relB, relE, hokD
agtgcgatacTTGTAATGACATttgtaattac
1645897 1645908 [APIORCISFBSCS], [BPP], [CV(GEA)], [CV(GEA)], [CV(GEA/SM)], [CV(SM)], [GEA], [SM] [1], [2]
  RelB-RelE repressor relBp Sigma70 13.5 -18.5 relB, relE, hokD
tgtaatgacaTTTGTAATTACAAgaggtgtaag
1645885 1645897 [APIORCISFBSCS], [BPP] [1]
  RelB-RelE repressor relBp Sigma70 28.0 -4.0 relB, relE, hokD
aattacaagaGGTGTAAGACATgggtagcatt
1645871 1645882 [APIORCISFBSCS], [BPP], [CV(GEA)], [CV(GEA)], [GEA] [1]


Evolutionary conservation of regulatory elements    
     Note: Evolutionary conservation of regulatory interactions and promoters is limited to gammaproteobacteria.
Promoter-target gene evolutionary conservation


Evidence    

 [APPHINH] Assay of protein purified to homogeneity from its native host

 [ICWHO] Inferred computationally without human oversight

 [IEP] Inferred from expression pattern

 [APIORCISFBSCS] A person inferred or reviewed a computer inference of sequence function based on similarity to a consensus sequence.

 [BPP] Binding of purified proteins

 [CV(GEA)] cross validation(GEA)

 [GEA] Gene expression analysis

 [CV(GEA/SM)] cross validation(GEA/SM)

 [CV(SM)] cross validation(SM)

 [SM] Site mutation



Reference(s)    

 [1] Li GY., Zhang Y., Inouye M., Ikura M., 2008, Structural mechanism of transcriptional autorepression of the Escherichia coli RelB/RelE antitoxin/toxin module., J Mol Biol 380(1):107-19

 [2] Belliveau NM., Barnes SL., Ireland WT., Jones DL., Sweredoski MJ., Moradian A., Hess S., Kinney JB., Phillips R., 2018, Systematic approach for dissecting the molecular mechanisms of transcriptional regulation in bacteria., Proc Natl Acad Sci U S A 115(21):E4796-E4805

 [3] Bech FW., Jorgensen ST., Diderichsen B., Karlstrom OH., 1985, Sequence of the relB transcription unit from Escherichia coli and identification of the relB gene., EMBO J 4(4):1059-66



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