TRANSCRIPTION FACTOR: |
Info |
Name: |
|
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-[4Fe-4S]2+ reduced
, FNR-[2Fe-2S]2+ oxidized
, FNR
|
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: |
|
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-cAMP
|
Coregulator(s): |
AcrR,
AdiY,
AgaR,
AraC,
ArcA,
ArgP,
ArgR,
AscG,
BasR,
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: |
|
Connectivity class |
Local Regulator |
Synonym(s): |
DNA-binding transcriptional dual regulator Nac |
Gene name(s): |
nac
|
|
Functional conformation(s): |
Nac
|
Coregulator(s): |
AdiY,
ArgP,
ArgR,
AsnC,
CRP,
CytR,
FNR,
Fur,
GadE,
HdfR,
IHF,
Lrp,
Nac,
NsrR,
NtrC,
PhoB,
PurR,
QseB
|
Summary: |
TF Summary ...[more] |
TRANSCRIPTION FACTOR: |
Info |
Name: |
|
Connectivity class |
Global Regulator |
Sensing Class |
Sensing external and internal signals |
Synonym(s): |
AlsB, DNA-binding transcriptional dual regulator Lrp, Ihb, LivR, Lrs, Lss, LstR, Mbf, OppI, RblA |
Gene name(s): |
lrp
|
|
Functional conformation(s): |
Lrp-leucine
, Lrp
|
Coregulator(s): |
AcrR,
Ada,
AdiY,
AidB,
ArcA,
ArgP,
ArgR,
CRP,
CadC,
CpxR,
Cra,
DksA,
DksA-ppGpp,
EnvY,
FNR,
Fis,
FliZ,
Fur,
GadE,
GadE-RcsB,
GadW,
GadX,
GcvA,
GlaR,
H-NS,
HU,
HdfR,
IHF,
LrhA,
Lrp,
MarA,
Mlc,
ModE,
Nac,
NarL,
NhaR,
NsrR,
OmpR,
PhoP,
PurR,
QseB,
RcsB,
Rob,
SoxS,
StpA,
TorR,
YeiL,
YjjQ,
ppGpp
|
Summary: |
TF Summary ...[more] |
TRANSCRIPTION FACTOR: |
Info |
Name: |
|
Connectivity class |
Local Regulator |
Sensing Class |
Sensing external and internal signals |
Synonym(s): |
DNA-binding transcriptional dual regulator ArgR, XerA |
Gene name(s): |
argR
|
|
Functional conformation(s): |
ArgR
, ArgR-L-arginine
|
Coregulator(s): |
AdiY,
ArgR,
CRP,
DksA-ppGpp,
FNR,
Fur,
GadE,
H-NS,
HdfR,
IHF,
Lrp,
Nac,
NtrC,
PhoP,
ppGpp
|
Summary: |
TF Summary ...[more] |
TRANSCRIPTION FACTOR: |
Info |
Name: |
|
Connectivity class |
Local Regulator |
Synonym(s): |
DNA-binding transcriptional activator GadE, YhiE, YhiT, acid-responsive regulator of gadA and gadBC |
Gene name(s): |
gadE
|
|
Functional conformation(s): |
GadE
|
Coregulator(s): |
AdiY,
ArcA,
ArgR,
CRP,
CadC,
CpxR,
Cra,
CusR,
EvgA,
FNR,
Fis,
FliZ,
Fur,
GadE,
GadE-RcsB,
GadW,
GadX,
H-NS,
HdfR,
HprR,
IHF,
Lrp,
MarA,
MatA,
Nac,
NsrR,
OmpR,
PdhR,
PhoB,
PhoP,
PurR,
RcsAB,
RcsB,
Rob,
RutR,
TorR,
YdeO,
ppGpp
|
Summary: |
TF Summary ...[more] |
TRANSCRIPTION FACTOR: |
Info |
Name: |
|
Connectivity class |
Local Regulator |
Synonym(s): |
DNA-binding transcriptional dual regulator HdfR, YifA, YifD |
Gene name(s): |
hdfR
|
|
Functional conformation(s): |
HdfR
|
Coregulator(s): |
AcrR,
AdiY,
ArgR,
CRP,
FNR,
FliZ,
Fur,
GadE,
H-NS,
HdfR,
IHF,
LrhA,
Lrp,
MatA,
Nac,
OmpR,
QseB,
RcsAB,
YjjQ
|
Summary: |
TF Summary ...[more] |
TRANSCRIPTION FACTOR: |
Info |
Name: |
|
Connectivity class |
Local Regulator |
Synonym(s): |
DNA-binding transcriptional activator AdiY |
Gene name(s): |
adiY
|
|
Functional conformation(s): |
AdiY
|
Coregulator(s): |
AdiY,
ArcA,
ArgR,
CRP,
FNR,
Fis,
FliZ,
Fur,
GadE,
GadE-RcsB,
GadW,
GadX,
H-NS,
HdfR,
IHF,
Lrp,
Nac,
RcsB,
TorR,
ppGpp
|
Summary: |
TF Summary ...[more] |
TRANSCRIPTION FACTOR: |
Info |
Name: |
|
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,
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,
PspF,
PurR,
QseB,
RcdA,
RcsAB,
Rob,
RstA,
RtcR,
RutR,
SlyA,
SoxR,
SoxS,
SutR,
TdcA,
TdcR,
TrpR,
TyrR,
UlaR,
UvrY,
YeiL,
YiaJ,
YjjQ,
ppGpp
|
Summary: |
TF Summary ...[more] |
TRANSCRIPTION FACTOR: |
Info |
Name: |
|
Connectivity class |
Local Regulator |
Sensing Class |
External sensing using transported metabolites |
Synonym(s): |
DNA-binding transcriptional dual regulator Fur |
Gene name(s): |
fur
|
|
Functional conformation(s): |
Fur-Mn2+
, Fur-Fe2+
, Fur
|
Coregulator(s): |
AcrR,
AdiY,
ArcA,
ArgP,
ArgR,
CRP,
CdaR,
CpxR,
Cra,
CusR,
EnvY,
FNR,
Fis,
FliZ,
Fur,
GadE,
GadX,
H-NS,
HdfR,
HprR,
HypT,
IHF,
IscR,
LrhA,
Lrp,
MarA,
MatA,
MetR,
MntR,
ModE,
MqsA,
Nac,
NagC,
NarL,
NfeR,
NrdR,
NsrR,
NtrC,
OmpR,
OxyR,
PdhR,
PhoB,
PurR,
QseB,
RcnR,
RcsAB,
Rob,
RstA,
RutR,
SlyA,
SoxR,
SoxS,
YjjQ,
Zur,
ppGpp
|
Summary: |
TF Summary ...[more] |
REGULATION EXERTED BY AdiY,ArgR,CRP,FNR,Fur,GadE,HdfR,IHF,Lrp,Nac |
Info
M3D |
Colombos |
KNOWN BINDING SITES (The central relative position is relative to the promoter +1) |
|
|
AdiY activator ArgR repressor CRP repressor FNR repressor Fur repressor GadE activator HdfR activator IHF activator Lrp activator Nac repressor |
|
|
Transcription Factor |
Regulated
| Binding Sites |
Evidence |
References |
Functional conformation |
Function |
Promoter |
Gene(s) |
LeftPos |
RigthPos |
Central Rel-Pos |
Sequence |
|
|
IHF |
activator |
gltBp |
gltB
,
gltD
,
gltF
|
3354418 |
3354430
|
-85.0
|
ttttaatttcAGTCATTTAATAAagaattttgc |
[BPP] [GEA]
|
[1] [2]
|
IHF |
activator |
gltBp |
gltB
,
gltD
,
gltF
|
3354414 |
3354426
|
-89.0
|
tccattttaaTTTCAGTCATTTAataaagaatt |
[BPP] [GEA]
|
[1] [2]
|
Lrp |
activator |
gltBp |
gltB
,
gltD
,
gltF
|
3354350 |
3354364
|
-152.0
|
cctttatgacAGTCAGGAATTGACTgtttctctaa |
[APIORCISFBSCS] [BPP] [CV(SM)] [SM]
|
[3] [2] [4]
|
Lrp |
activator |
gltBp |
gltB
,
gltD
,
gltF
|
3354287 |
3354301
|
-215.0
|
caattaaggcAGTATAAAATGCTGGttttgtcgtc |
[APIORCISFBSCS] [BPP] [CV(SM)] [SM]
|
[3] [2] [4]
|
Lrp |
activator |
gltBp |
gltB
,
gltD
,
gltF
|
3354256 |
3354270
|
-246.0
|
aggcaaaaacAGTAGCATGAAACGTcattaccaat |
[APIORCISFBSCS] [BPP] [CV(SM)] [SM]
|
[5] [2] [4]
|
CRP-cAMP |
repressor |
gltBp |
gltB
,
gltD
,
gltF
|
3354433 |
3354454
|
-65.5
|
tttaataaagAATTTTGCGCTAAAGCACATTTctgtaccaat |
[APIORCISFBSCS] [BPP] [CV(GEA)] [CV(GEA)] [CV(GEA/SM)] [CV(SM)] [GEA] [SM]
|
[2]
|
Lrp-leucine |
activator |
gltBp |
gltB
,
gltD
,
gltF
|
3354394 |
3354409
|
-108.0
|
ttttagccttAAAGATAAAATCCATTttaatttcag |
[AIBSCS] [CV(GEA)] [GEA]
|
[6]
|
ArgR-L-arginine |
repressor |
gltBp |
gltB
,
gltD
,
gltF
|
3354169 |
3354186
|
-331.5
|
aatcaaaattACCGAAATTTCATGCATAatcacataaa |
[APIORCISFBSCS] [BPP] [CV(GEA)] [CV(GEA)] [GEA]
|
[7] [2]
|
ArgR-L-arginine |
repressor |
gltBp |
gltB
,
gltD
,
gltF
|
3354148 |
3354165
|
-352.0
|
gcttttatcaACTGCATAATCAATCAAAattaccgaaa |
[APIORCISFBSCS] [BPP] [CV(GEA)] [CV(GEA)] [GEA]
|
[7] [2]
|
FNR |
repressor |
gltBp |
gltB
,
gltD
,
gltF
|
3354476 |
3354489
|
-26.5
|
agcttgccatTTGACCTGTATCAGctttcccgat |
[AIBSCS] [CV(GEA)] [GEA]
|
[8] [9]
|
HdfR |
activator |
gltBp |
gltB
,
gltD
,
gltF
|
|
|
|
|
[BPP]
|
[10]
|
AdiY |
activator |
gltBp |
gltB
,
gltD
,
gltF
|
|
|
|
|
[BPP]
|
[10]
|
Nac |
repressor |
gltBp |
gltB
,
gltD
,
gltF
|
|
|
|
|
[GEA]
|
[11]
|
GadE |
activator |
gltBp |
gltB
,
gltD
,
gltF
|
3354215 |
3354234
|
-284.0
|
gcttatcttgTGTCAGATTTTTTTATCTCCtgatggattt |
[BPP] [CEUMA] [CV(GEA)] [CV(GEA)] [GEA] [IHBCE] [RE]
|
[12] [13]
|
Fur-Fe2+ |
repressor |
gltBp |
gltB
,
gltD
,
gltF
|
|
|
|
|
[GEA]
|
[9]
|
Evidence: |
[BPP] Binding of purified proteins [GEA] Gene expression analysis [APIORCISFBSCS] A person inferred or reviewed a computer inference of sequence function based on similarity to a consensus sequence. [CV(SM)] cross validation(SM) [SM] Site mutation [CV(GEA)] cross validation(GEA) [CV(GEA/SM)] cross validation(GEA/SM) [AIBSCS] Automated inference based on similarity to consensus sequences [CEUMA] ChIP-exo evidence used in manual assertion [IHBCE] Inferred by a human based on computational evidence [RE] RNA-seq evidence
|
Reference(s): |
[1] Paul L., et al., 2001 [2] Paul L., et al., 2007 [3] Oliver G., et al., 1987 [4] Wiese DE., et al., 1997 [5] Ernsting BR., et al., 1992 [6] Lintner RE., et al., 2008 [7] Cho S., et al., 2015 [8] Constantinidou C., et al., 2006 [9] Kumar R., et al., 2011 [10] Krin E., et al., 2010 [11] Zimmer DP., et al., 2000 [12] Hommais F., et al., 2004 [13] Seo SW., et al., 2015
|
|