RegulonDB

TRANSCRIPTION FACTOR:

Name:

ModE	Weight Matrix Tractordb tool

Connectivity class

Local Regulator

Sensing Class

External sensing using transported metabolites

Synonym(s):

ChlD, DNA-binding transcriptional dual regulator ModE, ModE-MoO₄^2-, ModR

Gene name(s):

modE

Functional conformation(s):

ModE-molybdate , ModE

Coregulator(s):

ArcA, CRP, CytR, DeoR, FNR, FhlA, Fis, FlhDC, Fur, IHF, Lrp, ModE, NarL, NarP, NsrR

Summary:

TF Summary ...[more]

TRANSCRIPTION FACTOR:

Info

Name:

FhlA	Weight Matrix Tractordb tool

Connectivity class

Local Regulator

Sensing Class

Using internal synthesized signals

Synonym(s):

DNA-binding transcriptional activator FhlA, Fhl, formate hydrogen-lyase transcriptional activator for fdhF, hyc and hyp operons

Gene name(s):

fhlA

Functional conformation(s):

FhlA-formate , FhlA

Coregulator(s):

CRP, FNR, FhlA, FlhDC, HyfR, IHF, ModE, NarL, NarP, NsrR

Summary:

TF Summary ...[more]

TRANSCRIPTION FACTOR:

Info

Name:

NsrR	Weight Matrix Tractordb tool

Connectivity class

Local Regulator

Synonym(s):

DNA-binding transcriptional regulator NsrR, YjeB

Gene name(s):

nsrR

Functional conformation(s):

NsrR-nitric oxide , NsrR , NsrR-[2Fe-2S]reduced , NsrR-[2Fe-2S]²⁺ oxidized

Coregulator(s):

ArcA, CRP, CpxR, CsgD, CytR, DksA, DksA-ppGpp, DsdC, FNR, FeaR, FhlA, Fis, FlhDC, Fur, GadE, H-NS, IHF, IscR, Lrp, MatA, MetR, ModE, Nac, NarL, NarP, NorR, NsrR, OxyR, PdhR, PhoB, QseB, SutR, ppGpp

Summary:

TF Summary ...[more]

TRANSCRIPTION FACTOR:

Info

Name:

IHF	Weight Matrix Tractordb tool

Connectivity class

Global Regulator

Sensing Class

TFs for DNA-bending

Synonym(s):

DNA-binding transcriptional dual regulator IHF

Gene name(s):

ihfB, ihfA

Functional conformation(s):

IHF

Coregulator(s):

AcrR, AdiY, ArcA, ArgR, AtoC, BasR, BolA, BtsR, CRP, Cbl, CpxR, Cra, CsgD, CysB, DksA, DksA-ppGpp, EnvY, FNR, FadR, FhlA, Fis, FlhDC, FliZ, Fur, GadE, GlcC, GlpR, GlrR, H-NS, HU, HdfR, HipAB, HipB, IHF, IclR, IscR, LrhA, Lrp, MarA, MatA, MlrA, MntR, ModE, MprA, MqsA, Nac, NagC, NanR, NarL, NarP, NorR, NsrR, NtrC, OmpR, OxyR, PaaX, PdhR, PepA, PhoB, PlaR, PspF, PurR, QseB, RcdA, RcsAB, Rob, RstA, RtcR, RutR, SlyA, SoxR, SoxS, SutR, TdcA, TdcR, TrpR, TyrR, UlaR, UvrY, YeiL, YjjQ, ppGpp

Summary:

TF Summary ...[more]

REGULATION EXERTED BY FhlA,IHF,ModE,NsrR

Info M3D | Colombos

KNOWN BINDING SITES (The central relative position is relative to the promoter +1)
FhlA activator IHF activator ModE activator NsrR repressor
Transcription Factor		Regulated		Binding Sites				Evidence	References
Functional conformation	Function	Promoter	Gene(s)	LeftPos	RigthPos	Central Rel-Pos	Sequence
ModE-molybdate	activator	hycAp	hycI , hycH , hycG , hycF , hycE , hycD , hycC , hycB , hycA	2850641	2850664	-192.0	cccgttggcaGAGGGTTATTTCGTGCATATCGCCtcccattaac	[GEA]	[1]
FhlA-formate	activator	hycAp	hycI , hycH , hycG , hycF , hycE , hycD , hycC , hycB , hycA	2850553	2850566	-98.0	aatgtcgatgATGTCGAAATGACAcgtcgacacg	[GEA]	[2] [3] [4] [5]
IHF	activator	hycAp	hycI , hycH , hycG , hycF , hycE , hycD , hycC , hycB , hycA	2850493	2850505	-38.5	atctctttaaTAACAATAAATTAaaagttggca	[GEA]	[2]
FhlA-formate	activator	hycAp	hycI , hycH , hycG , hycF , hycE , hycD , hycC , hycB , hycA	2850539	2850552	-84.5	cgaaatgacaCGTCGACACGGCGAcgaaattcat	[GEA]	[2] [3] [4]
NsrR	repressor	hycAp	hycI , hycH , hycG , hycF , hycE , hycD , hycC , hycB , hycA	2850526	2850537	-70.0	acacggcgacGAAATTCATCTTtagcttaaaa	[GEA]	[6]

Evidence:	[GEA] Gene expression analysis
Reference(s):	[1] Self WT., et al., 1999 [2] Hopper S., et al., 1994 [3] Leonhartsberger S., et al., 2000 [4] Schlensog V., et al., 1994 [5] Self WT., et al., 2000 [6] Partridge JD., et al., 2009

Reference(s)
[1] Self WT., Grunden AM., Hasona A., Shanmugam KT., 1999, Transcriptional regulation of molybdoenzyme synthesis in Escherichia coli in response to molybdenum: ModE-molybdate, a repressor of the modABCD (molybdate transport) operon is a secondary transcriptional activator for the hyc and nar operons., Microbiology 145 ( Pt 1):41-55
[2] Hopper S., Babst M., Schlensog V., Fischer HM., Hennecke H., Bock A., 1994, Regulated expression in vitro of genes coding for formate hydrogenlyase components of Escherichia coli., J Biol Chem 269(30):19597-604
[3] Leonhartsberger S., Ehrenreich A., Bock A., 2000, Analysis of the domain structure and the DNA binding site of the transcriptional activator FhlA., Eur J Biochem 267(12):3672-84
[4] Schlensog V., Lutz S., Bock A., 1994, Purification and DNA-binding properties of FHLA, the transcriptional activator of the formate hydrogenlyase system from Escherichia coli., J Biol Chem 269(30):19590-6
[5] Self WT., Shanmugam KT., 2000, Isolation and characterization of mutated Fh1A proteins which activate transcription of the hyc operon (formate hydrogenlyase) of Escherichia coli in the absence of molybdate(1)., FEMS Microbiol Lett 184(1):47-52
[6] Partridge JD., Bodenmiller DM., Humphrys MS., Spiro S., 2009, NsrR targets in the Escherichia coli genome: new insights into DNA sequence requirements for binding and a role for NsrR in the regulation of motility., Mol Microbiol 73(4):680-94