RegulonDB

TRANSCRIPTION FACTOR:

Name:

Fis	Weight Matrix Tractordb tool

Connectivity class

Global Regulator

Sensing Class

TFs for DNA-bending

Synonym(s):

DNA-binding transcriptional dual regulator Fis, Nbp, site-specific DNA inversion stimulation factor

Gene name(s):

fis

Functional conformation(s):

Fis

Coregulator(s):

AcrR, AdiY, AppY, ArcA, ArgP, BasR, CRP, CpxR, Cra, CreB, CspA, CusR, CytR, DeoR, DksA, DksA-ppGpp, DnaA, FNR, FadR, Fis, FlhDC, FliZ, Fur, GadE, GadE-RcsB, GadW, GadX, GlcC, GlpR, H-NS, HprR, IHF, IscR, LeuO, Lrp, MalT, MarA, MarR, MazE, MazE-MazF, Mlc, MntR, ModE, NanR, NarL, NarP, NrdR, NsrR, NtrC, OmpR, OxyR, PdhR, PepA, PurR, RcsB, RcsB-BglJ, Rob, RstA, RutR, SlyA, SoxS, StpA, TorR, XylR, YdeO, 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 , CRP-cyclic-AMP

Coregulator(s):

AaeR, 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, FrlR, 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, PlaR, PrpR, PurR, PuuR, QseB, RbsR, RcdA, RcsAB, RcsB, RcsB-BglJ, RhaR, RhaS, Rob, RspR, RstA, SdiA, SlyA, SoxR, SoxS, SrlR, StpA, TdcA, TdcR, TorR, TreR, UhpA, UidR, UlaR, UvrY, UxuR, XylR, YdeO, YjjQ, ZraR, ppGpp

Summary:

TF Summary ...[more]

TRANSCRIPTION FACTOR:

Info

Name:

H-NS	Tractordb tool

Connectivity class

Global Regulator

Sensing Class

TFs for DNA-bending

Synonym(s):

BglY, Cur, DNA-binding protein HLP-II (HU, BH2, HD, NS), DNA-binding transcriptional dual regulator H-NS, Drc, DrdX, Drs, FimG, Hns, HnsA, Irk, MsyA, OsmZ, PilG, TopS, TopX, VirR

Gene name(s):

hns

Functional conformation(s):

H-NS

Coregulator(s):

AcrR, AdiY, ArcA, ArgP, ArgR, BasR, BolA, BtsR, CRP, CadC, CaiF, CdaR, CpxR, Cra, CreB, CsgD, CspA, CysB, DksA, DksA-ppGpp, DnaA, DpiA, EvgA, FNR, Fis, FlhDC, FliZ, Fur, GadE, GadE-RcsB, GadW, GadX, GalR, GalS, GlaR, GutM, H-NS, HU, HdfR, HypT, IHF, LacI, LeuO, LrhA, Lrp, MalT, MarA, MatA, McbR, MlrA, MntR, MqsA, NagC, NanR, NarL, NarP, NhaR, NrdR, NsrR, OmpR, OxyR, PhoB, PhoP, QseB, RcdA, RcsAB, RcsB, RcsB-BglJ, Rob, RstA, RutR, SdiA, SlyA, SoxS, SrlR, StpA, SutR, TorR, UvrY, YdeO, YjjQ, ppGpp

Summary:

TF Summary ...[more]

TRANSCRIPTION FACTOR:

Info

Name:

MalT	Weight Matrix Tractordb tool

Connectivity class

Local Regulator

Sensing Class

Using internal synthesized signals

Synonym(s):

DNA-binding transcriptional activator MalT, MalA

Gene name(s):

malT

Functional conformation(s):

MalT-maltotriose-ADP , MalT , MalT-Aes , MalT-MalK , MalT-MalY , MalT-maltotriose-ATP

Coregulator(s):

CRP, CreB, FNR, Fis, H-NS, MalT, PhoP, StpA

Summary:

TF Summary ...[more]

TRANSCRIPTION FACTOR:

Info

Name:

StpA	Tractordb tool

Connectivity class

Local Regulator

Synonym(s):

DNA-binding transcriptional repressor StpA with RNA chaperone activity, H-NS-like DNA-binding transcriptional repressor with RNA chaperone activity, HnsB

Gene name(s):

stpA

Functional conformation(s):

StpA

Coregulator(s):

CRP, CreB, Fis, H-NS, LeuO, Lrp, MalT, RcsB-BglJ, SlyA, StpA

Summary:

TF Summary ...[more]

TRANSCRIPTION FACTOR:

Info

Name:

CreB	Tractordb tool

Connectivity class

Local Regulator

Sensing Class

External-Two-component systems

Synonym(s):

CreB response regulator, DNA-binding transcriptional regulator CreB, YjjE

Gene name(s):

creB

Functional conformation(s):

CreB , CreB-phosphorylated

Coregulator(s):

CRP, CreB, Fis, H-NS, MalT, StpA

Summary:

TF Summary ...[more]

REGULATION EXERTED BY CRP,CreB,Fis,H-NS,MalT,StpA

Info M3D | Colombos

KNOWN BINDING SITES (The central relative position is relative to the promoter +1)
CRP activator CreB repressor Fis activator H-NS activator MalT activator StpA activator
Transcription Factor		Regulated		Binding Sites				Evidence	References
Functional conformation	Function	Promoter	Gene(s)	LeftPos	RigthPos	Central Rel-Pos	Sequence
MalT-maltotriose-ATP	activator	malEp	malH , malG , malF , malE	4246667	4246676	-207.5	cttttttatgGGGGAGGAGGcgggaggatg		[1] [2]
MalT-maltotriose-ATP	activator	malEp	malH , malG , malF , malE	4246657	4246666	-197.5	ggggaggaggCGGGAGGATGagaacacggc		[2] [3] [4]
CRP-cyclic-AMP	activator	malEp	malH , malG , malF , malE	4246625	4246646	-171.5	agaacacggcTTCTGTGAACTAAACCGAGGTCatgtaaggaa		[2] [5]
CRP-cyclic-AMP	activator	malEp	malH , malG , malF , malE	4246593	4246614	-139.5	atgtaaggaaTTTCGTGATGTTGCTTGCAAAAatcgtggcga		[2] [6] [5]
CRP-cyclic-AMP	activator	malEp	malH , malG , malF , malE	4246559	4246580	-105.5	cgtggcgattTTATGTGCGCATCTCCACATTAccgccaattc		[1] [6] [5]
CRP-cyclic-AMP	activator	malEp	malH , malG , malF , malE	4246530	4246551	-76.5	ttaccgccaaTTCTGTAACAGAGATCACACAAagcgacggtg		[2] [6] [5]
MalT-maltotriose-ATP	activator	malEp	malH , malG , malF , malE	4246691	4246700	-231.5	tggcttaaatCCTCCACCCCctggcttttt		[1] [2]
MalT-maltotriose-ATP	activator	malEp	malH , malG , malF , malE	4246511	4246520	-51.5	aagcgacggtGGGGCGTAGGggcaaggagg		[1]
MalT-maltotriose-ATP	activator	malEp	malH , malG , malF , malE	4246501	4246510	-41.5	ggggcgtaggGGCAAGGAGGatggaaagag		[2] [3] [4]
Fis	activator	malEp	malH , malG , malF , malE	4246571	4246590	-116.0	ttgcaaaaatCGTGGCGATTTTATGTGCGCatctccacat	[EXP-IEP-GENE-EXPRESSION-ANALYSIS]	[7]
Fis	activator	malEp	malH , malG , malF , malE	4246404	4246423	52.0	aaggaccataGATTATGAAAATAAAAACAGgtgcacgcat	[EXP-IEP-GENE-EXPRESSION-ANALYSIS]	[7]
CreB-phosphorylated	repressor	malEp	malH , malG , malF , malE	4246438	4246456	18.5	ccgtttaggtGTTTTCACGAGCACTTCACcaacaaggac	[EXP-IEP-GENE-EXPRESSION-ANALYSIS]	[8]
H-NS	activator	malEp	malH , malG , malF , malE

Evidence:	[EXP-IEP-GENE-EXPRESSION-ANALYSIS] Gene expression analysis
Reference(s):	[1] Raibaud O. 1989 [2] Raibaud O., et al., 1989 [3] Richet E. 1996 [4] Richet E., et al., 1991 [5] Vidal-Ingigliardi D., et al., 1991 [6] Richet E. 2000 [7] Bradley MD., et al., 2007 [8] Avison MB., et al., 2001

Reference(s)
[1] Raibaud O., 1989, Nucleoprotein structures at positively regulated bacterial promoters: homology with replication origins and some hypotheses on the quaternary structure of the activator proteins in these complexes., Mol Microbiol 3(3):455-8
[2] Raibaud O., Vidal-Ingigliardi D., Richet E., 1989, A complex nucleoprotein structure involved in activation of transcription of two divergent Escherichia coli promoters., J Mol Biol 205(3):471-85
[3] 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
[4] Richet E., Raibaud O., 1991, Supercoiling is essential for the formation and stability of the initiation complex at the divergent malEp and malKp promoters., J Mol Biol 218(3):529-42
[5] Vidal-Ingigliardi D., Raibaud O., 1991, Three adjacent binding sites for cAMP receptor protein are involved in the activation of the divergent malEp-malKp promoters., Proc Natl Acad Sci U S A 88(1):229-33
[6] Richet E., 2000, Synergistic transcription activation: a dual role for CRP in the activation of an Escherichia coli promoter depending on MalT and CRP., EMBO J 19(19):5222-32
[7] Bradley MD., Beach MB., de Koning AP., Pratt TS., Osuna R., 2007, Effects of Fis on Escherichia coli gene expression during different growth stages., Microbiology 153(Pt 9):2922-40
[8] 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
[9] Sun D., Mao X., Fei M., Chen Z., Zhu T., Qiu J., 2020, Histone-like Nucleoid-Structuring Protein (H-NS) Paralogue StpA Activates the Type I-E CRISPR-Cas System against Natural Transformation in Escherichia coli., Appl Environ Microbiol 86(14)