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CreB DNA-binding transcriptional dual regulator

Synonyms: CreB, CreB-Phosphorylated
Summary:
CreB "Carbon source responsive response regulator," is a DNA-binding transcriptional dual regulator [2, 3] and belongs to the CreBC two-component system (TCS) [2, 3], which controls genes involved in acetate [4] and ribose [] metabolism, in the maltose regulon [5], in the pentose phosphate pathway [], and genes which repair DNA damage associated with the replication fork [6]. CreBC regulates the expression of cre regulon genes in response to a switch from complex to minimal medium [2].
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Transcription factor      
TF conformation(s):
Name Conformation Type TF-Effector Interaction Type Apo/Holo Conformation Evidence (Confirmed, Strong, Weak) References
CreB Non-Functional   Apo [BPP], [IPI] [1]
CreB-Phosphorylated Functional Covalent Holo [AIFS], [APPH], [BPP], [IEP], [IPI] [1], [2], [3]
Evolutionary Family: OmpR
Sensing class: External-Two-component systems
Connectivity class: Local Regulator
Gene name: creB
  Genome position: 4636007-4636696
  Length: 690 bp / 229 aa
Operon name: creABCD
TU(s) encoding the TF:
Transcription unit        Promoter
creABC
creAp2
creABCD
creAp


Regulon       
Regulated gene(s) creD, malE, malF, malG, talA
Multifun term(s) of regulated gene(s) MultiFun Term (List of genes associated to the multifun term)
membrane (3)
carbon compounds (2)
ABC superfamily, membrane component (2)
ABC superfamily, periplasmic binding component (1)
motility, chemotaxis, energytaxis (aerotaxis, redoxtaxis etc) (1)
Regulated operon(s) creABCD, malEFG, talA-tktB
First gene in the operon(s) creD, malE, talA
Simple and complex regulons CRP,CreB,Fis,MalT
CreB
Simple and complex regulatory phrases Regulatory phrase (List of promoters regulated by the phrase)
[CreB,+](2)
[CreB,-](1)


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
  CreB-Phosphorylated activator creDp nd -52.5 -70.5 creD
cctcgcttcgACTTCACCGTCACTTCACAtagcttcaaa
4638099 4638117 [AIBSCS], [BPP], [CV(GEA)], [CV(GEA)], [GEA] [2], [3]
  CreB-Phosphorylated repressor malEp Sigma70 18.5 -27.5 malE, malF, malG
ccgtttaggtGTTTTCACGAGCACTTCACcaacaaggac
4246438 4246456 [AIBSCS], [CV(GEA)], [GEA] [2]
  CreB-Phosphorylated activator talAp nd -211.5 -269.5 talA
ttggttgttcCTTTCACGTAACGTTCACAaataaagtgt
2578388 2578406 [AIBSCS], [CV(GEA)], [GEA] [2]



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
  CreB-Phosphorylated activator recG tu nd
nd
nd nd nd nd [AIBSCS], [GEA] [2]
  CreB-Phosphorylated activator nd tu nd
nd
nd nd nd nd [AIBSCS], [GEA] [2]
  CreB-Phosphorylated activator ackA-pta tu nd
nd
nd nd nd nd [AIBSCS], [GEA] [2]
  CreB-Phosphorylated activator nd tu nd
nd
nd nd nd nd [APIORCISFBSCS], [GEA] [2]
  CreB-Phosphorylated activator cbrA tu nd
nd
nd nd nd nd [AIBSCS], [GEA] [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

 [IPI] Inferred from physical interaction

 [AIFS] Automated inference of function from sequence

 [APPH] Assay of protein purified to homogeneity

 [IEP] Inferred from expression pattern

 [AIBSCS] Automated inference based on similarity to consensus sequences

 [CV(GEA)] cross validation(GEA)

 [GEA] Gene expression analysis

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



Reference(s)    

 [1] Yamamoto K., Hirao K., Oshima T., Aiba H., Utsumi R., Ishihama A., 2005, Functional characterization in vitro of all two-component signal transduction systems from Escherichia coli., J Biol Chem 280(2):1448-56

 [2] Avison MB., Horton RE., Walsh TR., Bennett PM., 2001, Escherichia coli CreBC is a global regulator of gene expression that responds to growth in minimal media., J Biol Chem 276(29):26955-61

 [3] Cariss SJ., Tayler AE., Avison MB., 2008, Defining the growth conditions and promoter-proximal DNA sequences required for activation of gene expression by CreBC in Escherichia coli., J Bacteriol 190(11):3930-9

 [4] Kakuda H., Hosono K., Shiroishi K., Ichihara S., 1994, Identification and characterization of the ackA (acetate kinase A)-pta (phosphotransacetylase) operon and complementation analysis of acetate utilization by an ackA-pta deletion mutant of Escherichia coli., J Biochem 116(4):916-22

 [5] Richet E., 1996, On the role of the multiple regulatory elements involved in the activation of the Escherichia coli malEp promoter., J Mol Biol 264(5):852-62

 [6] Saveson CJ., Lovett ST., 1999, Tandem repeat recombination induced by replication fork defects in Escherichia coli requires a novel factor, RadC., Genetics 152(1):5-13



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