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yafW yafW leuO leuO dksA dksA ykfI ykfI yagI yagI argF argF yagL yagL yagM yagM yagN yagN intF intF yaiP yaiP appY appY ybcH ybcH ybdJ ybdJ ybhA ybhA intE intE cohE cohE ymfM ymfM ymfR ymfR stfP stfP tpx tpx intR intR ydaV ydaV trkG trkG stfR stfR fliA fliA flu flu yffL yffL yffN yffN iscR iscR rpoE rpoE pka pka smpB smpB intA intA alpA alpA rpoS rpoS relA relA rpoD rpoD yhcD yhcD trkA trkA rpoA rpoA rpoH rpoH xylR xylR rpoZ rpoZ rho rho trkH trkH rpoB rpoB rpoC rpoC basS basS groL groL yjfJ yjfJ argI argI fecI fecI yjhG yjhG yjhH yjhH
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splice isoforms or post-translational modifications are collapsed, i.e. each node represents all the proteins produced by a single, protein-coding gene locus.
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query proteins and first shell of interactors
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second shell of interactors
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proteins of unknown 3D structure
filled nodes:
a 3D structure is known or predicted
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Known Interactions
from curated databases
experimentally determined
Predicted Interactions
gene neighborhood
gene fusions
gene co-occurrence
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textmining
co-expression
protein homology
Your Input:
yafWCP4-6 prophage; Antitoxin component of a type IV toxin-antitoxin (TA) system. Antitoxin that counteracts the effect of cognate toxin YkfI. It does not seem to bind to the cognate toxin but instead induces toxin loss by an unknown mechanism. Co-overexpression of toxin YkfI and antitoxin YafW leads to formation of elongated cells. (105 aa)
leuOGlobal transcription factor; A global transcription factor. Activates transcription of the 9 following operons; yjjQ-bglJ, yjjP, acrEF, ybdO, yjcRQP, casABCDE12, rhsD-ybbC, fepE and gltF, in most cases it probably interferes with silencing by H-NS and activates transcription. Represses transcription of the 3 following operons; uxaCA, sdaCB and btsT. H-NS repression of the bgl operon, leading to the ability to metabolize some beta- glucosides. It also directly activates the bgl operon. Activation is H- NS and BglJ-RcsB independent. (314 aa)
dksATranscriptional regulator of rRNA transcription; Transcription factor that acts by binding directly to the RNA polymerase (RNAP). Required for negative regulation of rRNA expression and positive regulation of several amino acid biosynthesis promoters. Also required for regulation of fis expression. Binding to RNAP disrupts interaction of RNAP with DNA, inhibits formation of initiation complexes, and amplifies effects of ppGpp and the initiating NTP on rRNA transcription. Inhibits transcript elongation, exonucleolytic RNA cleavage and pyrophosphorolysis, and increases intrinsic terminat [...] (151 aa)
ykfIToxin YkfI; Toxic component of a type IV toxin-antitoxin (TA) system. Acts as a toxin inhibitor that blocks cell division and cell elongation via FtsZ and possibly also MreB (although no interaction with MreB has been proven). Overexpression results in inhibition of growth in liquid cultures and a decrease in colony formation. These effects are overcome by concomitant expression of cognate antitoxin YafW, which leads to toxin loss by an unknown mechanism. Overexpression leads to formation of lemon-shaped cells and cell lysis; inactivated by overexpression of cognate antitoxin YafW but [...] (113 aa)
yagICP4-6 prophage; Involved in regulation of xylonate catabolism. Represses the expression of both yagA and yagEF operons. Binds mainly at a single site within the spacer of the bidirectional transcription units yagA and yagEF. (252 aa)
argFOrnithine carbamoyltransferase 2, chain F; Reversibly catalyzes the transfer of the carbamoyl group from carbamoyl phosphate (CP) to the N(epsilon) atom of ornithine (ORN) to produce L-citrulline, which is a substrate for argininosuccinate synthetase, the enzyme involved in the final step in arginine biosynthesis. (334 aa)
yagLCP4-6 prophage; DNA-binding protein. (232 aa)
yagMCP4-6 prophage; uncharacterized protein. (284 aa)
yagNCP4-6 prophage; uncharacterized protein. (146 aa)
intFCP4-6 prophage; Integrase is necessary for integration of the phage into the host genome by site-specific recombination. In conjunction with excisionase, integrase is also necessary for excision of the prophage from the host genome. (466 aa)
yaiPPutative family 2 glycosyltransferase; Polysaccharide metabolism; Protein involved in polysaccharide biosynthetic process; Belongs to the glycosyltransferase 2 family. (398 aa)
appYHTH-type transcriptional regulator AppY; Induces the synthesis of acid phosphatase (AppA) and several other polypeptides (such as AppBC) during the deceleration phase of growth. It also acts as a transcriptional repressor for one group of proteins that are synthesized preferentially in exponential growth and for one group synthesized only in the stationary phase. Also involved in the stabilization of the sigma stress factor RpoS during stress conditions. (249 aa)
ybcHPRK09936 family protein. (296 aa)
ybdJDUF1158 family putative inner membrane protein. (82 aa)
ybhAPyridoxal phosphate (PLP) phosphatase; Catalyzes the dephosphorylation of pyridoxal-phosphate (PLP). Can also hydrolyze erythrose-4-phosphate (Ery4P) and fructose-1,6-bis- phosphate (Fru1,6bisP); Belongs to the HAD-like hydrolase superfamily. CbbY/CbbZ/Gph/YieH family. (272 aa)
intEE14 prophage; Integrase from the cryptic lambdoic prophage e14. Integrase is necessary for integration of the phage into the host genome by site- specific recombination. In conjunction with excisionase, integrase is also necessary for excision of the prophage from the host genome. (375 aa)
cohEE14 prophage; repressor protein phage e14. (224 aa)
ymfME14 prophage; uncharacterized protein. (112 aa)
ymfRUncharacterized protein YmfR; Pseudogene, phage terminase protein A family, e14 prophage;Phage or Prophage Related. (60 aa)
stfPE14 prophage; uncharacterized protein; To E.coli YfdL and M.jannaschii MJ0347. (209 aa)
tpxLipid hydroperoxide peroxidase; Thiol-specific peroxidase that catalyzes the reduction of hydrogen peroxide and organic hydroperoxides to water and alcohols, respectively. Plays a role in cell protection against oxidative stress by detoxifying peroxides. Has a preference for alkyl hydroperoxides and acts as lipid peroxidase to inhibit bacterial membrane oxidation. Acts as principal antioxidant during anaerobic growth. (168 aa)
intRRac prophage; Integrase is necessary for integration of the phage into the host genome by site-specific recombination. In conjunction with excisionase, integrase is also necessary for excision of the prophage from the host genome (By similarity). (411 aa)
ydaVRac prophage; Putative DNA replication factor. (248 aa)
trkGRac prophage; Low-affinity potassium transport system. Interacts with Trk system potassium uptake protein TrkA. Requires TrkE (sapD) for maximal transport activity, low activity is seen in its absence; no further stimulation is seen with SapF. Transport in the absence of SapD is dependent on a high membrane potential and a high cytoplasmic ATP concentration, suggesting this protein may be able to interact with other ATP-binding proteins. Can transport potassium and rubidium. (485 aa)
stfRRac prophage; putative tail fiber protein; Belongs to the tail fiber family. (1120 aa)
fliARNA polymerase, sigma 28 (sigma F) factor; Sigma factors are initiation factors that promote the attachment of RNA polymerase to specific initiation sites and are then released. This sigma factor controls the expression of flagella-related genes. (239 aa)
fluNovel sRNA, CP4-44; Controls colony form variation and autoaggregation. May function as an adhesin. (1039 aa)
yffLCPZ-55 prophage; uncharacterized protein. (213 aa)
yffNCPZ-55 prophage; uncharacterized protein. (122 aa)
iscRIsc operon transcriptional repressor; Regulates the transcription of several operons and genes involved in the biogenesis of Fe-S clusters and Fe-S-containing proteins. Transcriptional repressor of the iscRSUA operon, which is involved in the assembly of Fe-S clusters into Fe-S proteins. In its apoform, under conditions of oxidative stress or iron deprivation, it activates the suf operon, which is a second operon involved in the assembly of Fe-S clusters. Represses its own transcription as well as that of toxin rnlA. (162 aa)
rpoERNA polymerase sigma E factor; Sigma factors are initiation factors that promote the attachment of RNA polymerase (RNAP) to specific initiation sites and are then released. Extracytoplasmic function (ECF) sigma-E controls the envelope stress response, responding to periplasmic protein stress, increased levels of periplasmic lipopolysaccharide (LPS) as well as heat shock and oxidative stress; it controls protein processing in the extracytoplasmic compartment. The 90 member regulon consists of the genes necessary for the synthesis and maintenance of both proteins and LPS of the outer me [...] (191 aa)
pkaProtein lysine acetyltransferase; Catalyzes the acetyl-CoA-dependent acetylation of lysine residues of a large number of target proteins. Acetylates RNase R in exponential phase cells and RNase II. Required for the glucose-dependent acetylation on multiple lysines of alpha, beta and beta' RNAP subunits. Also acetylates acetyl-coenzyme A synthetase (Acs) and the chromosomal replication initiator protein DnaA, and inhibits their activity. Overexpression leads to the acetylation of a large number of additional proteins and inhibits motility. (886 aa)
smpBtmRNA-binding trans-translation protein; Required for rescue of stalled ribosomes mediated by trans- translation. Binds to tmRNA RNA (also known as SsrA or 10Sa RNA, 363 nucleotides in this organism), required for stable binding of tmRNA to ribosomes. tmRNA and SmpB together mimic tRNA shape, replacing the anticodon stem-loop with SmpB (Probable). tmRNA is encoded by the ssrA gene; the 2 termini fold to resemble tRNA(Ala) and it encodes a 'tag peptide', a short internal open reading frame. Able to recruit charged tmRNA to ribosomes. Does not play a role in transcription, processing or [...] (160 aa)
intACP4-57 prophage; Integrase is necessary for integration of the phage into the host genome by site-specific recombination. In conjunction with excisionase, integrase is also necessary for excision of the prophage from the host genome. Part of the cryptic P4-like prophage CP4-57, it excises the prophage when overexpressed, which also requires integration host factor (encoded by ihfA and ihfB). Overexpression of AlpA leads to excision of the CP4-57 prophage, which inactivates ssrA (the gene upstream of the prophage) that encodes tmRNA which is required to rescue stalled ribosomes in a pro [...] (413 aa)
alpACP4-57 prophage; Positive regulator of the expression of the slpA gene. When overexpressed, leads to suppression of the capsule overproduction and UV sensitivity phenotypes of cells mutant for the Lon ATP-dependent protease. Part of the cryptic P4-like prophage CP4-57. Overexpression of AlpA leads to excision of the CP4-57 prophage by IntA. This inactivates ssrA (the gene upstream of the prophage) that encodes tmRNA which is required to rescue stalled ribosomes in a process known as trans- translation. (70 aa)
rpoSRNA polymerase, sigma S (sigma 38) factor; Sigma factors are initiation factors that promote the attachment of RNA polymerase to specific initiation sites and are then released. This sigma factor is the master transcriptional regulator of the stationary phase and the general stress response. Controls, positively or negatively, the expression of several hundred genes, which are mainly involved in metabolism, transport, regulation and stress management. (330 aa)
relA(p)ppGpp synthetase I/GTP pyrophosphokinase; In eubacteria ppGpp (guanosine 3'-diphosphate 5-' diphosphate) is a mediator of the stringent response which coordinates a variety of cellular activities in response to changes in nutritional abundance. This enzyme catalyzes the formation of pppGpp which is then hydrolyzed to form ppGpp. The second messengers ppGpp and c-di-GMP together control biofilm formation in response to translational stress; ppGpp represses biofilm formation while c-di-GMP induces it. ppGpp activates transcription of CsrA-antagonistic small RNAs CsrB and CsrC, which d [...] (744 aa)
rpoDRNA polymerase, sigma 70 (sigma D) factor; Sigma factors are initiation factors that promote the attachment of RNA polymerase to specific initiation sites and are then released. This sigma factor is the primary sigma factor during exponential growth. Preferentially transcribes genes associated with fast growth, such as ribosomal operons, other protein-synthesis related genes, rRNA- and tRNA-encoding genes and prfB. Belongs to the sigma-70 factor family. RpoD/SigA subfamily. (613 aa)
yhcDPutative outer membrane fimbrial subunit usher protein; Involved in the export and assembly of a fimbrial subunit across the outer membrane; Belongs to the fimbrial export usher family. (793 aa)
trkANAD-binding component of TrK potassium transporter; Part of the constitutive potassium transport systems TrkG and TrkH. May regulate the transport activity of TrkG and TrkH systems. Binds to NAD(+) and NADH. (458 aa)
rpoARNA polymerase, alpha subunit; DNA-dependent RNA polymerase (RNAP) catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates. This subunit plays an important role in subunit assembly since its dimerization is the first step in the sequential assembly of subunits to form the holoenzyme. (329 aa)
rpoHRNA polymerase, sigma 32 (sigma H) factor; Sigma factors are initiation factors that promote the attachment of RNA polymerase to specific initiation sites and are then released. This sigma factor is involved in regulation of expression of heat shock genes. Intracellular concentration of free RpoH protein increases in response to heat shock, which causes association with RNA polymerase (RNAP) and initiation of transcription of heat shock genes, including numerous global transcriptional regulators and genes involved in maintaining membrane functionality and homeostasis. RpoH is then quic [...] (284 aa)
xylRXylose divergent operon transcriptional activator; Regulatory protein for the xylBAFGHR operon. (392 aa)
rpoZRNA polymerase, omega subunit; Promotes RNA polymerase assembly. Latches the N- and C- terminal regions of the beta' subunit thereby facilitating its interaction with the beta and alpha subunits. (91 aa)
rhoTranscription termination factor; Facilitates transcription termination by a mechanism that involves Rho binding to the nascent RNA, activation of Rho's RNA- dependent ATPase activity, and release of the mRNA from the DNA template. RNA-dependent NTPase which utilizes all four ribonucleoside triphosphates as substrates. (419 aa)
trkHPotassium transporter; Low-affinity potassium transport system. Interacts with Trk system potassium uptake protein TrkA. Requires TrkE (sapD) for transport activity, 20% more uptake is seen with both SapD and SapF. Transport in the absence of SapD and SapF is dependent on a high membrane potential and a high cytoplasmic ATP concentration, suggesting this protein may be able to interact with other ATP-binding proteins. Can transport potassium and rubidium. (483 aa)
rpoBRNA polymerase, beta subunit; DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates. (1342 aa)
rpoCRNA polymerase, beta prime subunit; DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates. (1407 aa)
basSSensory histidine kinase in two-component regulatory system with BasR; Member of the two-component regulatory system BasS/BasR Autophosphorylates and activates BasR by phosphorylation. (363 aa)
groLCpn60 chaperonin GroEL, large subunit of GroESL; Prevents misfolding and promotes the refolding and proper assembly of unfolded polypeptides generated under stress conditions. (548 aa)
yjfJPspA/IM30 family protein; Putative alpha helical protein; Belongs to the PspA/IM30 family. (232 aa)
argIOrnithine carbamoyltransferase 1; Reversibly catalyzes the transfer of the carbamoyl group from carbamoyl phosphate (CP) to the N(epsilon) atom of ornithine (ORN) to produce L-citrulline, which is a substrate for argininosuccinate synthetase, the enzyme involved in the final step in arginine biosynthesis. (334 aa)
fecIRNA polymerase sigma-19 factor, fec operon-specific; Sigma factors are initiation factors that promote the attachment of RNA polymerase to specific initiation sites and are then released. This sigma factor regulates the fec genes for iron dicitrate transport (Probable); Belongs to the sigma-70 factor family. ECF subfamily. (173 aa)
yjhGPutative dehydratase; Catalyzes the dehydration of D-xylonic acid to form 2- dehydro-3-deoxy-D-pentonate. (655 aa)
yjhHPutative lyase/synthase; Functions as a 2-dehydro-3-deoxy-D-pentonate aldolase. Belongs to the DapA family. (301 aa)
Your Current Organism:
Escherichia coli K12
NCBI taxonomy Id: 511145
Other names: E. coli str. K-12 substr. MG1655, Escherichia coli MG1655, Escherichia coli str. K-12 substr. MG1655, Escherichia coli str. K12 substr. MG1655, Escherichia coli str. MG1655, Escherichia coli strain MG1655
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