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YgiV DNA-binding transcriptional dual regulator

Synonyms: YgiV
Summary:
YgiV had been predicted as a transcriptional regulator [2] However, based on nickel enrichment DNA microarrays and additional gel shift assays, it was identified as a transcriptional repressor of mcbR, which regulates biofilm formation and mucoidity by repressing expression of mcbA (ybiM) [1]. MqsR has a toxic effect on Escherichia coli bacterial growth, which is partially reduced by the ygiV mutation [1].


Transcription factor      
TF conformation(s):
Name Conformation Type TF-Effector Interaction Type Apo/Holo Conformation Evidence (Confirmed, Strong, Weak) References
YgiV Functional   [AUP], [IEP] [1]
Connectivity class: Local Regulator
Gene name: ygiV
  Genome position: 3168749-3169231
  Length: 483 bp / 160 aa
Operon name: ygiV
TU(s) encoding the TF:
Transcription unit        Promoter
 
 


Regulon       
Regulated gene(s)
Regulated operon(s)
First gene in the operon(s)
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



High-throughput Transcription factor binding sites (TFBSs)
      

  Functional conformation Function Object name Object type Distance to first Gene Sequence LeftPos RightPos Center Position Growth Condition Evidence (Confirmed, Strong, Weak) References
  YgiV repressor nd tu nd
nd
nd nd nd nd [BPP], [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    


Reference(s)    

 [1] Zhang XS., Garcia-Contreras R., Wood TK., 2008, Escherichia coli transcription factor YncC (McbR) regulates colanic acid and biofilm formation by repressing expression of periplasmic protein YbiM (McbA)., ISME J 2(6):615-31

 [2] Blattner FR., Plunkett G., Bloch CA., Perna NT., Burland V., Riley M., Collado-Vides J., Glasner JD., Rode CK., Mayhew GF., Gregor J., Davis NW., Kirkpatrick HA., Goeden MA., Rose DJ., Mau B., Shao Y., 1997, The complete genome sequence of Escherichia coli K-12., Science 277(5331):1453-74



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