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GatR DNA-binding transcriptional repressor

Synonyms: GatR
Summary:
"Galactitol regulator," GatR, negatively controls the expression of an operon involved in transport and catabolism of hexitol galactitol [2, 4]. The gatYZABCD operon is expressed constitutively due to an insertion of IS3E into the gatR gene [4]. Currently, no DNA-binding sites for this regulator have been reported in the literature. As a member of the DeoR family, GatR features an N-terminal domain containing a putative helix-turn-helix motif [3, 4].


Transcription factor      
TF conformation(s):
Name Conformation Type TF-Effector Interaction Type Apo/Holo Conformation Evidence (Confirmed, Strong, Weak) References
GatR Functional   [HIFS] [1], [2], [3]
Sensing class: External sensing using transported metabolites
Connectivity class: Local Regulator
Gene name: gatR_2
  Genome position: 2171395-2171733
  Length: 339 bp / 112 aa
Operon name: gatR_2
TU(s) encoding the TF:
Transcription unit        Promoter
gatR_2
gatR_2p


Regulon       
Regulated gene(s) gatA, gatB, gatC, gatD, gatY, gatZ
Multifun term(s) of regulated gene(s) MultiFun Term (List of genes associated to the multifun term)
carbon compounds (6)
Phosphotransferase Systems (PEP-dependent PTS) (3)
membrane (2)
Regulated operon(s) gatYZABCD
First gene in the operon(s) gatY
Simple and complex regulons ArcA,CRP,GatR
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
  GatR repressor gatYp Sigma70 nd 2177204.0 gatY, gatZ, gatA, gatB, gatC, gatD nd nd [GEA] [2], [4]


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


Evidence    

 [HIFS] Human inference of function from sequence

 [GEA] Gene expression analysis



Reference(s)    

 [1] Komoda Y., Enomoto M., Tominaga A., 1991, Large inversion in Escherichia coli K-12 1485IN between inversely oriented IS3 elements near lac and cdd., Genetics 129(3):639-45

 [2] Nobelmann B., Lengeler JW., 1995, Sequence of the gat operon for galactitol utilization from a wild-type strain EC3132 of Escherichia coli., Biochim Biophys Acta 1262(1):69-72

 [3] Zeng G., Ye S., Larson TJ., 1996, Repressor for the sn-glycerol 3-phosphate regulon of Escherichia coli K-12: primary structure and identification of the DNA-binding domain., J Bacteriol 178(24):7080-9

 [4] Nobelmann B., Lengeler JW., 1996, Molecular analysis of the gat genes from Escherichia coli and of their roles in galactitol transport and metabolism., J Bacteriol 178(23):6790-5



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