RegulonDB RegulonDB 10.9: Regulon Form
   
   


BtsR,CRP,Cra,FNR,PdhR regulon in Escherichia coli K-12 genome


TRANSCRIPTION FACTOR: Info
Name:
FNR Weight Matrix      Tractordb tool
Connectivity class Global Regulator
Sensing Class Using internal synthesized signals
Synonym(s): DNA-binding transcriptional dual regulator FNR, NirA, NirR, OssA, OxrA
Gene name(s): fnr
Functional conformation(s): FNR , FNR-[4Fe-4S]2+ reduced , FNR-[2Fe-2S]2+ oxidized
Coregulator(s): AcrR, AdiY, ArcA, ArgP, ArgR, BtsR, CRP, CadC, CaiF, Cbl, CdaR, Cra, CueR, CusR, CysB, DcuR, DksA, DksA-ppGpp, DnaA, DpiA, EvgA, ExuR, FNR, FhlA, Fis, FlhDC, Fur, GadE, GadE-RcsB, GadW, GadX, GcvA, GlpR, H-NS, HdfR, HprR, HyfR, HypT, IHF, LeuO, Lrp, MalT, MarA, MetR, MlrA, ModE, Nac, NagC, NarL, NarP, NfeR, NikR, NorR, NrdR, NsrR, NtrC, OmpR, OxyR, PdhR, PhoB, PhoP, PurR, PuuR, RcsB, Rob, RstA, RutR, SlyA, SoxR, SoxS, TdcA, TdcR, TorR, YeiL, ppGpp
Summary: TF Summary ...[more]
TRANSCRIPTION FACTOR: Info
Name:
CRP Weight Matrix      Tractordb tool
Connectivity class Global Regulator
Sensing Class Using internal synthesized signals
Synonym(s): Cap, Csm, DNA-binding transcriptional dual regulator CRP, GurB
Gene name(s): crp
Functional conformation(s): CRP-cAMP , CRP
Coregulator(s): AcrR, AdiY, AgaR, AraC, ArcA, ArgP, ArgR, AscG, BasR, BolA, BtsR, CRP, CRP-Sxy, CaiF, ChbR, ComR, CpxR, Cra, CreB, CsgD, CspA, CsqR, CusR, CytR, DcuR, DeoR, DgoR, DksA-ppGpp, DnaA, DpiA, DsdC, EbgR, EnvY, EvgA, ExuR, FNR, FadR, FeaR, FhlA, Fis, FlhDC, FliZ, FucR, Fur, GadE, GadE-RcsB, GadW, GadX, GalR, GalS, GatR, GcvA, GlaR, GlcC, GlpR, GlrR, GntR, GutM, H-NS, HU, HdfR, HipB, HprR, HyfR, HypT, IHF, IclR, IdnR, LacI, LeuO, LexA, LrhA, Lrp, LsrR, MalI, MalT, MarA, MarR, MatA, McbR, MelR, MetJ, MhpR, Mlc, MlrA, ModE, MprA, MqsA, MurR, Nac, NadR, NagC, NanR, NarL, NarP, NrdR, NsrR, NtrC, OmpR, OxyR, PaaX, PdhR, PhoB, PhoP, PrpR, PurR, PuuR, QseB, RbsR, RcdA, RcsAB, RcsB, RcsB-BglJ, RhaR, RhaS, Rob, RstA, SdiA, SlyA, SoxR, SoxS, SrlR, StpA, TdcA, TdcR, TorR, TreR, UhpA, UidR, UlaR, UvrY, UxuR, XylR, YdeO, YiaJ, YjjQ, ZraR, ppGpp
Summary: TF Summary ...[more]
TRANSCRIPTION FACTOR: Info
Name:
PdhR Weight Matrix      Tractordb tool
Connectivity class Local Regulator
Sensing Class Using internal synthesized signals
Synonym(s): AceC, DNA-binding transcriptional dual regulator PdhR, GenA, YacB
Gene name(s): pdhR
Functional conformation(s): PdhR-pyruvate , PdhR
Coregulator(s): ArcA, AscG, BasR, BtsR, CRP, CpxR, Cra, CusR, FNR, Fis, Fur, GadE, GlcC, HprR, HypT, IHF, MraZ, NsrR, PdhR, PhoP
Summary: TF Summary ...[more]
TRANSCRIPTION FACTOR: Info
Name:
Cra Weight Matrix      Tractordb tool
Connectivity class Local Regulator
Sensing Class Using internal synthesized signals
Synonym(s): DNA-binding transcriptional dual regulator Cra, FruC, FruR, Shl
Gene name(s): cra
Functional conformation(s): Cra , Cra-β-D-fructofuranose 1-phosphate , Cra-β-D-fructose 1,6-bisphosphate , Cra-;-D-fructose 1,6-bisphosphate
Coregulator(s): AcrR, ArcA, BasR, BetI, BolA, BtsR, CRP, CpxR, Cra, CsgD, CusR, DcuR, DksA, FNR, Fis, FliZ, Fur, GadE, GlcC, GntR, H-NS, HprR, IHF, IclR, KdgR, Lrp, MarA, MarR, Mlc, MlrA, MqsA, NagC, NarL, NarP, OmpR, PdhR, PrpR, RcdA, RcsAB, Rob, RstA, SgrR, SoxS, TyrR, ppGpp
Summary: TF Summary ...[more]
TRANSCRIPTION FACTOR: Info
Name:
BtsR      Tractordb tool
Connectivity class Local Regulator
Sensing Class External-Two-component systems
Synonym(s): DNA-binding transcriptional dual regulator BtsR, YehT
Gene name(s): btsR
Functional conformation(s): BtsR-Phosphorylated , BtsR
Coregulator(s): ArcA, BasR, BolA, BtsR, CRP, CpxR, Cra, CsgD, DpiA, FNR, FlhDC, FliZ, H-NS, IHF, MlrA, MqsA, OmpR, PdhR, RcdA, RcsAB, RstA, ppGpp
Summary: TF Summary ...[more]

REGULATION EXERTED BY BtsR,CRP,Cra,FNR,PdhR Info M3D | Colombos
KNOWN BINDING SITES (The central relative position is relative to the promoter +1)    
BtsR repressor CRP activator Cra repressor FNR dual PdhR repressor    
Transcription Factor
Regulated
Binding Sites
Evidence
References
Functional conformation
Function
Promoter
Gene(s)
LeftPos
RigthPos
Central Rel-Pos
Sequence
CRP-cAMP activator pdhRp pdhR , aceE , aceF , lpd 121973 121994 -50.5 atgtgcacagTTTCATGATTTCAATCAAAACCTgtatggacat   [1]
CRP-cAMP activator pdhRp pdhR , aceE , aceF , lpd 121961 121982 -62.5 caagttgttaAAATGTGCACAGTTTCATGATTTcaatcaaaac   [1]
CRP-cAMP activator pdhRp pdhR , aceE , aceF , lpd 121913 121934 -110.5 taaagtctacATTTGTGCATAGTTACAACTTTGaaacgttata   [1]
CRP-cAMP activator pdhRp pdhR , aceE , aceF , lpd 121646 121667 -377.5 tacatcaaagAAGTTTGAATTGTTACAAAAAGActtccgtcag   [1]
CRP-cAMP activator pdhRp pdhR , aceE , aceF , lpd 121941 121962 -82.5 ctttgaaacgTTATATATGTCAAGTTGTTAAAAtgtgcacagt   [2]
[1]
CRP-cAMP activator pdhRp pdhR , aceE , aceF , lpd 121953 121974 -70.5 atatatgtcaAGTTGTTAAAATGTGCACAGTTTcatgatttca   [2]
[1]
PdhR repressor pdhRp pdhR , aceE , aceF , lpd 122044 122060 19.0 acagacatgaAATTGGTAAGACCAATTGacttcggcaa   [3]
[4]
[2]
FNR activator pdhRp pdhR , aceE , aceF , lpd 121977 121990 -50.5 gcacagtttcATGATTTCAATCAAAacctgtatgg   [5]
[2]
[6]
Cra repressor pdhRp pdhR , aceE , aceF , lpd 121840 121857 -185.5 caaaattggtAAGTGAATCGGTTCAATTCggatttttat   [7]
[8]
FNR repressor pdhRp pdhR , aceE , aceF , lpd 121977 121990 -50.5 gcacagtttcATGATTTCAATCAAAacctgtatgg   [5]
[2]
[6]
BtsR-Phosphorylated repressor pdhRp pdhR , aceE , aceF , lpd 121826 121837 -203.0 tgaattaaaaATCACAAAATTGgtaagtgaat   [9]
BtsR-Phosphorylated repressor pdhRp pdhR , aceE , aceF , lpd 121841 121852 -188.0 aaaattggtaAGTGAATCGGTTcaattcggat   [9]
Cra repressor pdhRp2 pdhR , aceE , aceF , lpd 121840 121857 -185.5 caaaattggtAAGTGAATCGGTTCAATTCggatttttat   [7]
[8]
CRP-cAMP activator pdhRp2 pdhR , aceE , aceF , lpd 121953 121974 -70.5 atatatgtcaAGTTGTTAAAATGTGCACAGTTTcatgatttca   [2]
[1]
CRP-cAMP activator pdhRp2 pdhR , aceE , aceF , lpd 121961 121982 -62.5 caagttgttaAAATGTGCACAGTTTCATGATTTcaatcaaaac   [1]
FNR repressor pdhRp2 pdhR , aceE , aceF , lpd 121977 121990 -50.5 gcacagtttcATGATTTCAATCAAAacctgtatgg   [5]
[2]
[6]
CRP-cAMP activator pdhRp2 pdhR , aceE , aceF , lpd 121941 121962 -82.5 ctttgaaacgTTATATATGTCAAGTTGTTAAAAtgtgcacagt   [2]
[1]
FNR activator pdhRp2 pdhR , aceE , aceF , lpd 121977 121990 -50.5 gcacagtttcATGATTTCAATCAAAacctgtatgg   [5]
[2]
[6]
BtsR-Phosphorylated repressor pdhRp2 pdhR , aceE , aceF , lpd 121826 121837 -203.0 tgaattaaaaATCACAAAATTGgtaagtgaat   [9]
CRP-cAMP activator pdhRp2 pdhR , aceE , aceF , lpd 121913 121934 -110.5 taaagtctacATTTGTGCATAGTTACAACTTTGaaacgttata   [1]
CRP-cAMP activator pdhRp2 pdhR , aceE , aceF , lpd 121973 121994 -50.5 atgtgcacagTTTCATGATTTCAATCAAAACCTgtatggacat   [1]
PdhR repressor pdhRp2 pdhR , aceE , aceF , lpd 122044 122060 19.0 acagacatgaAATTGGTAAGACCAATTGacttcggcaa   [3]
[4]
[2]
BtsR-Phosphorylated repressor pdhRp2 pdhR , aceE , aceF , lpd 121841 121852 -188.0 aaaattggtaAGTGAATCGGTTcaattcggat   [9]
CRP-cAMP activator pdhRp2 pdhR , aceE , aceF , lpd 121646 121667 -377.5 tacatcaaagAAGTTTGAATTGTTACAAAAAGActtccgtcag   [1]

Reference(s): [1] Zhang Z., et al., 2005
[2] Quail MA., et al., 1994
[3] Gohler AK., et al., 2011
[4] Quail MA., et al., 1995
[5] Constantinidou C., et al., 2006
[6] Salmon K., et al., 2003
[7] Sarkar D., et al., 2008
[8] Shimada T., et al., 2011
[9] Ogasawara H., et al., 2019



Reference(s)    

 [1] Zhang Z., Gosset G., Barabote R., Gonzalez CS., Cuevas WA., Saier MH., 2005, Functional interactions between the carbon and iron utilization regulators, Crp and Fur, in Escherichia coli., J Bacteriol 187(3):980-90

 [2] Quail MA., Haydon DJ., Guest JR., 1994, The pdhR-aceEF-lpd operon of Escherichia coli expresses the pyruvate dehydrogenase complex., Mol Microbiol 12(1):95-104

 [3] Gohler AK., Kokpinar O., Schmidt-Heck W., Geffers R., Guthke R., Rinas U., Schuster S., Jahreis K., Kaleta C., 2011, More than just a metabolic regulator - elucidation and validation of new targets of PdhR in Escherichia coli., BMC Syst Biol 5(1):197

 [4] Quail MA., Guest JR., 1995, Purification, characterization and mode of action of PdhR, the transcriptional repressor of the pdhR-aceEF-lpd operon of Escherichia coli., Mol Microbiol 15(3):519-29

 [5] Constantinidou C., Hobman JL., Griffiths L., Patel MD., Penn CW., Cole JA., Overton TW., 2006, A reassessment of the FNR regulon and transcriptomic analysis of the effects of nitrate, nitrite, NarXL, and NarQP as Escherichia coli K12 adapts from aerobic to anaerobic growth., J Biol Chem 281(8):4802-15

 [6] Salmon K., Hung SP., Mekjian K., Baldi P., Hatfield GW., Gunsalus RP., 2003, Global gene expression profiling in Escherichia coli K12. The effects of oxygen availability and FNR., J Biol Chem 278(32):29837-55

 [7] Sarkar D., Siddiquee KA., Arauzo-Bravo MJ., Oba T., Shimizu K., 2008, Effect of cra gene knockout together with edd and iclR genes knockout on the metabolism in Escherichia coli., Arch Microbiol 190(5):559-71

 [8] Shimada T., Yamamoto K., Ishihama A., 2011, Novel members of the Cra regulon involved in carbon metabolism in Escherichia coli., J Bacteriol 193(3):649-59

 [9] Ogasawara H., Ishizuka T., Yamaji K., Kato Y., Shimada T., Ishihama A., 2019, Regulatory role of pyruvate-sensing BtsSR in biofilm formation by Escherichia coli K-12., FEMS Microbiol Lett 366(24)


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