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GSE80451: E.coli grown aerobically and anaerobically

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Results for FNR

Z-value: 0.44

Transcription factors associated with FNR

Gene Symbol Gene ID Gene Info
fnr
fnr FNR DNA-binding transcriptional dual regulator

Activity-expression correlation:

GenePromoterPearson corr. coef.P-valuePlot
fnr0.791.1e-01Click!

Activity profile of FNR motif

Sorted Z-values of FNR motif

Top targets:  

Promoter Log-likelihood Transcript Gene Gene Info
cydAB 1.58
cydA
cydB
cytochrome bd-I terminal oxidase subunit I
cytochrome bd-I terminal oxidase subunit II
arcA 1.14
arcA
ArcA transcriptional dual regulator
narK 0.68
narK
nitrate:nitrite antiporter NarK
sodA 0.67
sodA
superoxide dismutase (Mn)
garPLRK-rnpB 0.58
garL
rnpB
garR
garK
garP
α-dehydro-β-deoxy-D-glucarate aldolase
RnpB
tartronate semialdehyde reductase
glycerate kinase I
galactarate / glucarate / glycerate transporter GarP
moaABCDE 0.51
moaE
moaD
moaC
moaB
moaA
molybdopterin synthase large subunit
molybdopterin synthase small subunit
cyclic pyranopterin monophosphate synthase
MoaB protein
GTP 3',8'-cyclase
bcsBZ 0.49
bcsB
bcsZ
cellulose synthase, periplasmic subunit
endo-1,4-D-glucanase
pitA 0.48
pitA
metal phosphate:H+ symporter PitA
ompX 0.48
ompX
outer membrane protein X
emrKY 0.45
emrY
emrK
EmrKY multidrug efflux pump - membrane subunit
EmrKY-TolC multidrug efflux pump - membrane fusion protein
soxS 0.45
soxS
SoxS DNA-binding transcriptional dual regulator
focA-pflB 0.42
focA
pflB
formate channel FocA
pyruvate formate-lyase (inactive)
narGHJI 0.40
narG
narI
narH
narJ
nitrate reductase A, α subunit
nitrate reductase A, γ subunit
nitrate reductase A, β subunit
molybdenum cofactor assembly chaperone subunit (δ subunit) of nitrate reductase 1
fnr 0.39
fnr
FNR DNA-binding transcriptional dual regulator
ndh 0.36
ndh
NADH:quinone oxidoreductase II
yqjI 0.33
yqjI
YqjI DNA-binding transcriptional repressor
ydeJ 0.33
ydeJ
conserved protein
pepT 0.33
pepT
peptidase T
fumC 0.30
fumC
fumarase C
ygbA 0.29
ygbA
predicted protein
iraD 0.28
iraD
inhibitor of σS proteolysis
cadC 0.27
cadC
CadC DNA-binding transcriptional activator
ysgA 0.26
ysgA
predicted hydrolase
acnA 0.26
acnA
aconitate hydratase 1
aspA 0.25
aspA
aspartate ammonia-lyase
rplT-pheM 0.23
rplT
pheM
50S ribosomal subunit protein L20
phenylalanyl-tRNA synthetase (pheST) operon leader peptide
rplT 0.23
rplT
50S ribosomal subunit protein L20
aer 0.22
aer
aerotaxis sensor receptor, flavoprotein
aspA-dcuA 0.22
aspA
dcuA
aspartate ammonia-lyase
dicarboxylate transporter DcuA
ackA 0.22
ackA
acetate kinase
tpx 0.19
tpx
lipid hydroperoxide peroxidase
adhE 0.18
adhE
aldehyde-alcohol dehydrogenase
fumAC 0.17
fumA
fumC
fumarase A
fumarase C
hypBCDE 0.14
hypE
hypD
hypC
hypB
hydrogenase maturation protein, carbamoyl dehydratase
HypD, scaffold protein for assembly of the Fe-(CN)2CO cofactor
HypC, protein involved in hydrogenase 3 maturation
accessory protein for nickel incorporation into hydrogenase isoenzymes
moeAB 0.14
moeB
moeA
molybdopterin-synthase adenylyltransferase
molybdopterin molybdenumtransferase
nuoABCEFGHIJKLMN 0.13
nuoB
nuoC
nuoA
nuoF
nuoG
nuoE
nuoJ
nuoK
nuoH
nuoI
nuoN
nuoL
nuoM
NADH:ubiquinone oxidoreductase, chain B
NADH:ubiquinone oxidoreductase, chain CD
NADH:ubiquinone oxidoreductase, membrane subunit A
NADH:ubiquinone oxidoreductase, chain F
NADH:ubiquinone oxidoreductase, chain G
NADH:ubiquinone oxidoreductase, chain E
NADH:ubiquinone oxidoreductase, membrane subunit J
NADH:ubiquinone oxidoreductase, membrane subunit K
NADH:ubiquinone oxidoreductase, membrane subunit H
NADH:ubiquinone oxidoreductase, chain I
NADH:ubiquinone oxidoreductase, membrane subunit N
NADH:ubiquinone oxidoreductase, membrane subunit L
NADH:ubiquinone oxidoreductase, membrane subunit M
hypBCDE-fhlA 0.13
hypE
hypD
fhlA
hypC
hypB
hydrogenase maturation protein, carbamoyl dehydratase
HypD, scaffold protein for assembly of the Fe-(CN)2CO cofactor
FhlA transcriptional activator
HypC, protein involved in hydrogenase 3 maturation
accessory protein for nickel incorporation into hydrogenase isoenzymes
hlyE 0.13
hlyE
hemolysin E
frdABCD 0.13
frdA
frdB
frdC
frdD
fumarate reductase flavoprotein
fumarate reductase iron-sulfur protein
fumarate reductase membrane protein
fumarate reductase membrane protein
caiTABCDE 0.12
caiT
caiE
caiD
caiC
caiB
caiA
L-carnitine : γ-butyrobetaine antiporter
predicted acyl transferase
crotonobetainyl-CoA hydratase
carnitine-CoA ligase
γ-butyrobetainyl-CoA:carnitine CoA transferase
crotonobetainyl-CoA reductase
fumB 0.12
fumB
fumarase B
narXL 0.11
narL
narX
NarL
NarX
caiF 0.10
caiF
CaiF transcriptional activator
ybdN 0.09
ybdN
conserved protein
dmsABC 0.07
dmsA
dmsB
dmsC
dimethyl sulfoxide reductase, chain A
dimethyl sulfoxide reductase, chain B
dimethyl sulfoxide reductase, chain C
napFDAGHBC-ccmABCDEFGH 0.07
napG
napF
napD
napC
ccmH
napA
ccmE
ccmD
ccmG
ccmF
ccmA
ccmC
ccmB
napH
napB
ferredoxin-type protein
ferredoxin-type protein
signal peptide-binding chaperone for NapA
periplasmic nitrate reductase, cytochrome c protein
holocytochrome c synthetase - thiol:disulfide oxidoreductase CcmH
large subunit of periplasmic nitrate reductase, molybdoprotein
membrane anchored periplasmic heme chaperone CcmE
ABC complex for formation and release of holoCcmE - membrane subunit CcmD
holocytochrome c synthetase - thiol:disulfide oxidoreductase CcmG
holocytochrome c synthetase - CcmF subunit
ABC complex for formation and release of holoCcmE - ATP binding subunit
ABC complex for formation and release of holoCcmE - membrane subunit CcmC
ABC complex for formation and release of holoCcmE - membrane subunit CcmB
ferredoxin-type protein
subunit of periplasmic nitrate reductase, cytochrome c550 protein
soxR 0.06
soxR
SoxR DNA-binding transcriptional dual regulator
yeiL 0.04
yeiL
YeiL DNA-binding transcriptional activator
ansB 0.04
ansB
asparaginase II
glnK-amtB 0.04
glnK
amtB
nitrogen regulatory protein GlnK
ammonia / ammonium transporter
ychO 0.02
ychO
predicted invasin
glnD 0.02
glnD
PII uridylyltransferase / uridylyl removing enzyme
zwf 0.01
zwf
glucose-6-phosphate dehydrogenase (NADP+)
rplM-rpsI 0.00
rplM
rpsI
50S ribosomal subunit protein L13
30S ribosomal subunit protein S9
ssuEADCB 0.00
ssuE
ssuD
ssuA
ssuC
ssuB
NADPH-dependent FMN reductase
alkanesulfonate monooxygenase, FMNH2-dependent
aliphatic sulfonate ABC transporter - periplasmic binding protein
aliphatic sulfonate ABC transporter - membrane subunit
aliphatic sulfonate ABC transporter - ATP binding subunit

Network of associatons between targets according to the STRING database.

First level regulatory network of FNR

PNG image of the network

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Gene Ontology Analysis

Gene overrepresentation in biological process category:

Log-likelihood per target  Total log-likelihood Term Description
0.4 1.5 GO:0019646 aerobic electron transport chain(GO:0019646)
0.2 0.7 GO:0000303 response to superoxide(GO:0000303) superoxide metabolic process(GO:0006801)
0.2 0.6 GO:0046039 GTP metabolic process(GO:0046039)
0.2 0.6 GO:0015707 nitrite transport(GO:0015707)
0.2 0.6 GO:0019579 aldaric acid metabolic process(GO:0019577) aldaric acid catabolic process(GO:0019579)
0.2 0.2 GO:0006067 ethanol metabolic process(GO:0006067)
0.2 0.5 GO:0071941 nitrogen cycle metabolic process(GO:0071941)
0.2 0.5 GO:0015710 tellurite transport(GO:0015710)
0.2 0.5 GO:0006108 malate metabolic process(GO:0006108)
0.1 0.3 GO:0006097 glyoxylate cycle(GO:0006097)
0.1 0.2 GO:0009895 negative regulation of catabolic process(GO:0009895) regulation of protein catabolic process(GO:0042176) negative regulation of protein catabolic process(GO:0042177)
0.1 0.3 GO:0018249 protein dehydration(GO:0018249) peptidyl-S-carbamoyl-L-cysteine dehydration(GO:0046892)
0.1 0.5 GO:0006531 aspartate metabolic process(GO:0006531)
0.0 0.1 GO:1902600 hydrogen ion transmembrane transport(GO:1902600)
0.0 0.1 GO:0051715 cell killing(GO:0001906) cell death(GO:0008219) programmed cell death(GO:0012501) cytolysis(GO:0019835) killing of cells of other organism(GO:0031640) modification of morphology or physiology of other organism(GO:0035821) disruption of cells of other organism(GO:0044364) cytolysis in other organism(GO:0051715)
0.0 0.1 GO:0006083 acetate metabolic process(GO:0006083)
0.0 0.4 GO:0000027 ribosomal large subunit assembly(GO:0000027) ribosomal large subunit biogenesis(GO:0042273)
0.0 0.1 GO:0015697 quaternary ammonium group transport(GO:0015697) amino-acid betaine transport(GO:0015838)
0.0 0.8 GO:0007165 signal transduction(GO:0007165)
0.0 0.4 GO:0015718 monocarboxylic acid transport(GO:0015718)
0.0 0.1 GO:0051223 regulation of protein localization(GO:0032880) regulation of protein transport(GO:0051223) regulation of establishment of protein localization(GO:0070201)
0.0 0.0 GO:0009405 pathogenesis(GO:0009405)
0.0 0.1 GO:0006808 regulation of nitrogen utilization(GO:0006808)
0.0 0.1 GO:0044781 bacterial-type flagellum assembly(GO:0044780) bacterial-type flagellum organization(GO:0044781)
0.0 0.2 GO:1901698 response to nitrogen compound(GO:1901698)
0.0 0.0 GO:0006528 asparagine metabolic process(GO:0006528)
0.0 0.3 GO:0046677 response to antibiotic(GO:0046677)

Gene overrepresentation in cellular component category:

Log-likelihood per target  Total log-likelihood Term Description
0.4 1.2 GO:0070069 cytochrome complex(GO:0070069)
0.2 0.5 GO:0031235 intrinsic component of the cytoplasmic side of the plasma membrane(GO:0031235)
0.1 0.4 GO:0005576 extracellular region(GO:0005576)
0.0 0.1 GO:0031237 intrinsic component of periplasmic side of plasma membrane(GO:0031237)
0.0 0.2 GO:0015934 large ribosomal subunit(GO:0015934) cytosolic large ribosomal subunit(GO:0022625)

Gene overrepresentation in molecular function category:

Log-likelihood per target  Total log-likelihood Term Description
0.5 1.6 GO:0016679 oxidoreductase activity, acting on diphenols and related substances as donors(GO:0016679) oxidoreductase activity, acting on diphenols and related substances as donors, oxygen as acceptor(GO:0016682)
0.2 0.7 GO:0016721 superoxide dismutase activity(GO:0004784) oxidoreductase activity, acting on superoxide radicals as acceptor(GO:0016721)
0.2 1.1 GO:0015563 uptake transmembrane transporter activity(GO:0015563)
0.2 1.1 GO:0000156 phosphorelay response regulator activity(GO:0000156)
0.1 0.4 GO:0001098 basal transcription machinery binding(GO:0001098) bacterial-type RNA polymerase holo enzyme binding(GO:0001108)
0.1 0.4 GO:0008137 NADH dehydrogenase (ubiquinone) activity(GO:0008137) NADH dehydrogenase (quinone) activity(GO:0050136)
0.1 0.5 GO:0008940 nitrate reductase activity(GO:0008940)
0.1 0.5 GO:0016662 oxidoreductase activity, acting on other nitrogenous compounds as donors, cytochrome as acceptor(GO:0016662)
0.1 0.3 GO:0004177 aminopeptidase activity(GO:0004177)
0.1 0.5 GO:0016783 sulfurtransferase activity(GO:0016783)
0.1 0.4 GO:0004333 fumarate hydratase activity(GO:0004333)
0.1 0.3 GO:0070025 carbon monoxide binding(GO:0070025)
0.1 0.5 GO:0090079 translation repressor activity, nucleic acid binding(GO:0000900) translation regulator activity, nucleic acid binding(GO:0090079)
0.1 0.2 GO:0051920 peroxiredoxin activity(GO:0051920)
0.1 0.2 GO:0043856 anti-sigma factor antagonist activity(GO:0043856)
0.0 0.5 GO:0008028 monocarboxylic acid transmembrane transporter activity(GO:0008028)
0.0 0.1 GO:0005469 succinate:fumarate antiporter activity(GO:0005469)
0.0 0.5 GO:0004553 hydrolase activity, hydrolyzing O-glycosyl compounds(GO:0004553)
0.0 0.3 GO:0044822 mRNA binding(GO:0003729) poly(A) RNA binding(GO:0044822)
0.0 0.1 GO:0070566 adenylyltransferase activity(GO:0070566)