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YhaJ DNA-binding transcriptional activator

Synonyms: YhaJ
Summary:
YhaJ is a member of the LysR protein family. It was previously associated with regulation of virulence in an enterohemorrhagic Escherichia coli (EHEC) strain [] Recently, its capability to bind to the promoter regions of several genes in E. coli and regulate their activity has been demonstrated [1]


Transcription factor      
TF conformation(s):
Name Conformation Type TF-Effector Interaction Type Apo/Holo Conformation Evidence (Confirmed, Strong, Weak) References
YhaJ Functional   [APPHINH], [HIFS], [IEP] [1], [2], [3]
Evolutionary Family: LysR
Connectivity class: Local Regulator
Gene name: yhaJ
  Genome position: 3253318-3254214
  Length: 897 bp / 298 aa
Operon name: yhaJ
TU(s) encoding the TF:
Transcription unit        Promoter
yhaJ
null


Regulon       
Regulated gene(s) bssS
Multifun term(s) of regulated gene(s)
information transfer (1)
Regulated operon(s) bssS
First gene in the operon(s) bssS
Simple and complex regulons YhaJ
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
  YhaJ activator bssSp1 Sigma32 nd 1120955.0 bssS nd nd [BPP], [GEA] [1]



High-throughput Transcription factor binding sites (TFBSs)
      

  Functional conformation Function Object name Object type Distance to first Gene Sequence LeftPos RightPos Evidence (Confirmed, Strong, Weak) References
  YhaJ activator ybiJ nd nd nd nd [ICWHO] nd
  YhaJ activator ygiD nd nd nd nd [AISGDTU] nd
  YhaJ activator yqjF nd nd nd nd [ICWHO] nd
  YhaJ activator yhaKL nd nd nd nd [ICWHO] nd
  YhaJ activator yhhW nd nd nd nd [ICWHO] nd


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

 [HIFS] Human inference of function from sequence

 [IEP] Inferred from expression pattern

 [BPP] Binding of purified proteins

 [GEA] Gene expression analysis

 [ICWHO] Inferred computationally without human oversight

 [AISGDTU] Automated inference that a single-gene directon is a transcription unit



Reference(s)    

 [1] Palevsky N., Shemer B., Connolly JP., Belkin S., 2016, The Highly Conserved Escherichia coli Transcription Factor YhaJ Regulates Aromatic Compound Degradation., Front Microbiol 7:1490

 [2] Perez-Rueda E., Collado-Vides J., 2000, The repertoire of DNA-binding transcriptional regulators in Escherichia coli K-12., Nucleic Acids Res 28(8):1838-47

 [3] Perez-Rueda E., Collado-Vides J., Segovia L., 2004, Phylogenetic distribution of DNA-binding transcription factors in bacteria and archaea., Comput Biol Chem 28(5-6):341-50



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