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GSE67402: E.coli regulatory changes under long-term starvation

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Results for NsrR

Z-value: 1.50

Transcription factors associated with NsrR

Gene Symbol Gene ID Gene Info
nsrR
nsrR NsrR DNA-binding transcriptional repressor

Activity profile of NsrR motif

Sorted Z-values of NsrR motif

Top targets:  

Promoter Log-likelihood Transcript Gene Gene Info
hmp 23.67
hmp
nitric oxide dioxygenase
ygbA 19.51
ygbA
predicted protein
rybB 19.34
rybB
RybB
bdcA 18.23
bdcA
c-di-GMP binding protein involved in biofilm dispersal
ytfE 15.46
ytfE
iron-sulfur cluster repair protein YtfE
norR 8.68
norR
NorR DNA-binding transcriptional dual regulator
bamE 6.69
bamE
Outer Membrane Protein Assembly Complex - BamE subunit
waaH 6.37
waaH
UDP-glucuronate:LPS(HepIII) glycosyltransferase
dsdC 6.08
dsdC
DsdC DNA-binding transcriptional dual regulator
yeaR-yoaG 5.62
yoaG
yeaR
predicted protein
conserved protein
feaB 5.55
feaB
phenylacetaldehyde dehydrogenase
ydbD 5.50
ydbD
protein involved in detoxification of methylglyoxal
mhpT 4.20
mhpT
3-hydroxyphenylpropionate / 3-hydroxycinnamate:H+ symporter
hcp-hcr 4.18
hcr
hcp
NADH oxidoreductase
hybrid-cluster protein
feaR 3.94
feaR
FeaR DNA-binding transcriptional activator
sufABCDSE 1.77
sufB
sufC
sufA
sufD
sufE
sufS
SufB component of SufBCD Fe-S cluster scaffold complex
SufC component of SufBCD Fe-S cluster scaffold complex
Fe-S transport protein in Fe-S cluster assembly
SufD component of SufBCD Fe-S cluster scaffold complex
sulfur acceptor for SufS cysteine desulfurase
L-cysteine desulfurase
tehAB 0.99
tehA
tehB
tellurite resistance protein / ethidium exporter
tellurite methyltransferase
hypABCDE-fhlA 0.36
fhlA
hypE
hypD
hypA
hypC
hypB
FhlA transcriptional activator
hydrogenase maturation protein, carbamoyl dehydratase
HypD, scaffold protein for assembly of the Fe-(CN)2CO cofactor
accessory protein for nickel incorporation into hydrogenase 3
HypC, protein involved in hydrogenase 3 maturation
accessory protein for nickel incorporation into hydrogenase isoenzymes
dkgB 0.36
dkgB
methylglyoxal reductase/4-nitrobenzaldehyde reductase/2,5-diketo-D-gluconate reductase
tsgA 0.34
tsgA
putative transport protein, major facilitator superfamily (MFS), implicated in the response to tellurite and selenite
mepH 0.28
mepH
murein DD-endopeptidase MepH
yeaE 0.07
yeaE
methylglyoxal reductase
nrfABCDEFG 0.04
nrfF
nrfG
nrfD
nrfE
nrfB
nrfC
nrfA
activator of formate-dependent nitrite reductase complex
NrfG
formate dependent nitrite reductase - NrfD subunit
formate-dependent nitrite reductase; possible assembly function
formate-dependent nitrite reductase - penta-heme cytochrome c
formate-dependent nitrite reductase, 4Fe-4S subunit
formate dependent nitrite reductase - NrfA subunit

Network of associatons between targets according to the STRING database.

First level regulatory network of NsrR

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
9.3 27.8 GO:0046209 nitric oxide metabolic process(GO:0046209) nitric oxide catabolic process(GO:0046210)
3.9 15.5 GO:0030091 protein repair(GO:0030091)
1.8 5.5 GO:1901654 response to methylglyoxal(GO:0051595) response to ketone(GO:1901654)
1.4 4.2 GO:0042908 xenobiotic transport(GO:0042908)
1.4 5.6 GO:0018958 phenol-containing compound metabolic process(GO:0018958) xenobiotic catabolic process(GO:0042178)
1.1 9.0 GO:2000144 positive regulation of protein complex assembly(GO:0031334) positive regulation of DNA-templated transcription, initiation(GO:2000144)
1.0 6.7 GO:0051205 protein insertion into membrane(GO:0051205)
0.9 18.2 GO:0044010 single-species biofilm formation(GO:0044010)
0.7 6.4 GO:0016036 cellular response to phosphate starvation(GO:0016036)
0.3 1.8 GO:0097428 protein maturation by iron-sulfur cluster transfer(GO:0097428)
0.1 3.9 GO:1902680 positive regulation of transcription, DNA-templated(GO:0045893) positive regulation of RNA metabolic process(GO:0051254) positive regulation of RNA biosynthetic process(GO:1902680) positive regulation of nucleic acid-templated transcription(GO:1903508)
0.1 0.4 GO:0009438 methylglyoxal metabolic process(GO:0009438) methylglyoxal catabolic process(GO:0051596)
0.1 0.3 GO:0009254 peptidoglycan turnover(GO:0009254)
0.0 1.0 GO:0006812 cation transport(GO:0006812)
0.0 0.0 GO:0017006 protein-heme linkage(GO:0017003) protein-tetrapyrrole linkage(GO:0017006) cytochrome c-heme linkage(GO:0018063) anaerobic electron transport chain(GO:0019645)

Gene overrepresentation in cellular component category:

Log-likelihood per target  Total log-likelihood Term Description
1.0 6.7 GO:1990063 Bam protein complex(GO:1990063)

Gene overrepresentation in molecular function category:

Log-likelihood per target  Total log-likelihood Term Description
7.9 23.7 GO:0032843 hydroperoxide reductase activity(GO:0032843)
6.1 18.2 GO:0070402 NADPH binding(GO:0070402)
3.0 9.0 GO:0035326 bacterial-type RNA polymerase enhancer sequence-specific DNA binding(GO:0001150) enhancer sequence-specific DNA binding(GO:0001158) enhancer binding(GO:0035326)
0.9 5.6 GO:0004029 aldehyde dehydrogenase (NAD) activity(GO:0004029)
0.8 6.4 GO:0008194 UDP-glycosyltransferase activity(GO:0008194)
0.6 4.2 GO:0016684 peroxidase activity(GO:0004601) oxidoreductase activity, acting on peroxide as acceptor(GO:0016684)
0.4 4.2 GO:1901618 organic hydroxy compound transmembrane transporter activity(GO:1901618)
0.4 12.3 GO:0005506 iron ion binding(GO:0005506)
0.2 3.9 GO:0000986 bacterial-type RNA polymerase core promoter proximal region sequence-specific DNA binding(GO:0000986) core promoter proximal region sequence-specific DNA binding(GO:0000987) core promoter proximal region DNA binding(GO:0001159)
0.2 1.0 GO:0015562 efflux transmembrane transporter activity(GO:0015562)
0.1 0.4 GO:0004033 aldo-keto reductase (NADP) activity(GO:0004033)
0.1 6.1 GO:0003700 transcription factor activity, sequence-specific DNA binding(GO:0003700)
0.0 0.0 GO:0016662 oxidoreductase activity, acting on other nitrogenous compounds as donors, cytochrome as acceptor(GO:0016662)