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GSE55662: Plasticity of transcriptional regulation under antibiotic stress

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Results for PhoP

Z-value: 1.02

Transcription factors associated with PhoP

Gene Symbol Gene ID Gene Info
phoP
phoP PhoP

Activity-expression correlation:

GenePromoterPearson corr. coef.P-valuePlot
phoP0.049.3e-01Click!

Activity profile of PhoP motif

Sorted Z-values of PhoP motif

Top targets:  

Promoter Log-likelihood Transcript Gene Gene Info
treR 4.64
treR
TreR DNA-binding transcriptional repressor
iraM 4.31
iraM
inhibitor of σS proteolysis
pagP 1.79
pagP
palmitoyl transferase for Lipid A
dcuD 1.69
dcuD
putative transport protein, C4-dicarboxylate uptake C family
safA-ydeO 1.68
ydeO
safA
YdeO DNA-binding transcriptional dual regulator
two-component system connector protein
ompT 1.26
ompT
outer membrane protease VII (outer membrane protein 3b)
mgtLA 1.22
mgtA
mgtL
Mg2+ / Ni2+ transporting ATPase
predicted leader peptide
purHD 1.01
purH
purD
AICAR transformylase/IMP cyclohydrolase
phosphoribosylamine-glycine ligase
phoPQ 0.83
phoQ
phoP
PhoQ sensory histidine kinase
PhoP
malS 0.75
malS
α-amylase
gadW 0.60
gadW
GadW DNA-binding transcriptional dual regulator
rstAB 0.36
rstA
rstB
RstA transcriptional regulator
RstB sensory histidine kinase
rutABCDEFG 0.18
rutC
rutB
rutA
rutG
rutF
rutE
rutD
predicted aminoacrylate peracid reductase
peroxyureidoacrylate / ureidoacrylate amido hydrolase
pyrimidine oxygenase
uracil:H+ symporter RutG
flavin reductase
predicted malonic semialdehyde reductase
predicted aminoacrylate hydrolase
ydeP 0.16
ydeP
acid resistance protein
tolC-ygiABC 0.11
ygiC
ygiB
ygiA
tolC
predicted enzyme with ATPase activity
conserved outer membrane protein
predicted protein
TolC outer membrane channel
ybjG 0.06
ybjG
undecaprenyl pyrophosphate phosphatase
gadE 0.06
gadE
GadE DNA-binding transcriptional activator
argD 0.01
argD
N-acetylornithine aminotransferase / N-succinyldiaminopimelate aminotransferase

Network of associatons between targets according to the STRING database.

First level regulatory network of PhoP

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
1.7 5.1 GO:0010350 cellular response to magnesium starvation(GO:0010350)
0.3 0.8 GO:0030980 alpha-glucan metabolic process(GO:0030978) alpha-glucan catabolic process(GO:0030980)
0.2 1.2 GO:0031556 transcriptional attenuation by ribosome(GO:0031556)
0.2 1.7 GO:0015740 C4-dicarboxylate transport(GO:0015740)
0.1 1.8 GO:0046493 lipid A biosynthetic process(GO:0009245) lipid A metabolic process(GO:0046493)
0.1 1.0 GO:0006164 purine nucleotide biosynthetic process(GO:0006164)
0.1 0.4 GO:0018106 peptidyl-histidine phosphorylation(GO:0018106) peptidyl-histidine modification(GO:0018202)
0.1 4.6 GO:1903507 negative regulation of transcription, DNA-templated(GO:0045892) negative regulation of RNA biosynthetic process(GO:1902679) negative regulation of nucleic acid-templated transcription(GO:1903507)
0.1 0.2 GO:0006208 pyrimidine nucleobase catabolic process(GO:0006208) pyrimidine nucleobase transport(GO:0015855)
0.1 1.3 GO:0006508 proteolysis(GO:0006508)
0.0 1.7 GO:0051254 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)
0.0 0.1 GO:0015891 siderophore transport(GO:0015891)
0.0 0.7 GO:2001141 regulation of transcription, DNA-templated(GO:0006355) regulation of nucleic acid-templated transcription(GO:1903506) regulation of RNA biosynthetic process(GO:2001141)

Gene overrepresentation in cellular component category:

Log-likelihood per target  Total log-likelihood Term Description
0.3 1.2 GO:0043231 membrane-bounded organelle(GO:0043227) intracellular membrane-bounded organelle(GO:0043231)
0.1 1.3 GO:0031230 intrinsic component of cell outer membrane(GO:0031230)
0.0 3.8 GO:0005887 integral component of plasma membrane(GO:0005887)
0.0 0.6 GO:0030288 outer membrane-bounded periplasmic space(GO:0030288)
0.0 0.5 GO:0016021 integral component of membrane(GO:0016021)

Gene overrepresentation in molecular function category:

Log-likelihood per target  Total log-likelihood Term Description
1.1 4.3 GO:0043856 anti-sigma factor antagonist activity(GO:0043856)
0.3 1.0 GO:0019238 cyclohydrolase activity(GO:0019238)
0.2 1.8 GO:0008374 O-acyltransferase activity(GO:0008374)
0.2 1.2 GO:0019829 cation-transporting ATPase activity(GO:0019829)
0.2 1.3 GO:0004252 serine-type endopeptidase activity(GO:0004252)
0.1 0.8 GO:0005509 calcium ion binding(GO:0005509)
0.1 6.9 GO:0003700 transcription factor activity, sequence-specific DNA binding(GO:0003700)
0.1 1.2 GO:0004673 phosphorelay sensor kinase activity(GO:0000155) protein histidine kinase activity(GO:0004673)
0.1 0.2 GO:0004497 monooxygenase activity(GO:0004497) pyrimidine nucleobase transmembrane transporter activity(GO:0005350)
0.0 0.1 GO:0050380 undecaprenyl-diphosphatase activity(GO:0050380)
0.0 0.1 GO:0015562 efflux transmembrane transporter activity(GO:0015562)