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AllR DNA-binding transcriptional repressor

Synonyms: AllR, AllR-Glyoxylate, AllR-allantoin


Transcription factor      
TF conformation(s):
Name Conformation Type TF-Effector Interaction Type Apo/Holo Conformation Evidence (Confirmed, Strong, Weak) References
AllR Functional   Apo [BPP], [GEA] [1]
AllR-Glyoxylate Non-Functional Allosteric Holo [BPP], [GEA] [1]
AllR-allantoin     nd nd
Evolutionary Family: IclR
Sensing class: External sensing using transported metabolites
Connectivity class: Local Regulator
Gene name: allR
  Genome position: 533011-533826
  Length: 816 bp / 271 aa
Operon name: allR
TU(s) encoding the TF:
Transcription unit        Promoter
allR
allRp


Regulon       
Regulated gene(s) allA, allB, allS, gcl, glxK, glxR, hyi, ybbW, ybbY
Multifun term(s) of regulated gene(s) MultiFun Term (List of genes associated to the multifun term)
glyoxylate degradation (3)
allantoin assimilation (2)
nitrogen metabolism (2)
glycolate metabolism (2)
carbon compounds (2)
Read more >
Regulated operon(s) allA, allS, gcl-hyi-glxR-ybbW-allB-ybbY-glxK
First gene in the operon(s) allA, allS, gcl
Simple and complex regulons AllR
Simple and complex regulatory phrases Regulatory phrase (List of promoters regulated by the phrase)
[AllR,-](3)


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
  AllR-allantoin repressor allAp nd -53.0 -114.0 allA
aaatctagttTTGGAAAAATATTCCAActtttgtatt
 532329 532345 [BCE], [BPP], [GEA], [SM] [1], [2]
  AllR-allantoin repressor allSp nd -37.0 -116.0 allS
aatacaaaagTTGGAATATTTTTCCAAaactagattt
 532329 532345 [BCE], [BPP], [GEA], [SM] [1], [2]
  AllR-allantoin repressor gclp Sigma70 -20.0 -29.0 gcl, hyi, glxR, ybbW, allB, ybbY, glxK
aatttgaaagTTGGAAAAATTTTCCAAtaaatagagg
 533879 533895 [BCE], [BPP], [GEA], [SM] [1], [2]


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


Evidence    

 [BPP] Binding of purified proteins

 [GEA] Gene expression analysis

 [BCE] Binding of cellular extracts

 [SM] Site mutation


Reference(s)    

 [1] Rintoul MR., Cusa E., Baldoma L., Badia J., Reitzer L., Aguilar J., 2002, Regulation of the Escherichia coli allantoin regulon: coordinated function of the repressor AllR and the activator AllS., J Mol Biol. 324(4):599-610

 [2] Hasegawa A., Ogasawara H., Kori A., Teramoto J., Ishihama A., 2008, The transcription regulator AllR senses both allantoin and glyoxylate and controls a set of genes for degradation and reutilization of purines., Microbiology. 154(Pt 11):3366-78


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