STRINGSTRING
STRING protein interaction network
Nodes:
Network nodes represent proteins
splice isoforms or post-translational modifications are collapsed, i.e. each node represents all the proteins produced by a single, protein-coding gene locus.
Node Color
colored nodes:
query proteins and first shell of interactors
white nodes:
second shell of interactors
Node Content
empty nodes:
proteins of unknown 3D structure
filled nodes:
some 3D structure is known or predicted
Edges:
Edges represent protein-protein associations
associations are meant to be specific and meaningful, i.e. proteins jointly contribute to a shared function; this does not necessarily mean they are physically binding each other.
Known Interactions
from curated databases
experimentally determined
Predicted Interactions
gene neighborhood
gene fusions
gene co-occurrence
Others
textmining
co-expression
protein homology
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[Homology]
Score
arfBPeptidyl-tRNA hydrolase ArfB; Rescues stalled ribosomes. Can hydrolyze peptidyl-tRNA on ribosomes stalled by both non-stop mRNAs and mRNAs that contain rare codon clusters or ribosomes stalled in the middle of mRNA. First identified as a complementary ribosome rescue system when the stalled ribosome cannot be rescued by the SsrA(tmRNA)-SmpB quality control system or the alternative ribosome-rescue factor A (arfA) (140 aa)    
Predicted Functional Partners:
arfA
Alternative ribosome-rescue factor A; Rescues ribosomes stalled at the 3' end of non-stop mRNAs. This activity is crucial when the stalled ribosome cannot be rescued by the SsrA(tmRNA)- SmpB quality control system. Binds the 30S subunit, contacting 16S rRNA with the N-terminus near the decoding center and its C-terminus in the mRNA entry channel; contacts change in the presence of release factor 2 (RF2, also named PrfB). Requires RF2/PrfB to hydrolyze stalled peptidyl-tRNA on the ribosome; recruits and probably helps position RF2/PrfB correctly in the ribosomal A site so RF2's GGQ moti [...]
      
 0.921
nlpE
Lipoprotein NlpE; Involved in copper homeostasis, could be involved in both copper efflux and the delivery of copper to copper-dependent enzymes. Required for efficient binding of stationary phase cells to hydrophobic surfaces, part of the process of biofilm formation. Functions during envelope stress responses; when overproduced induces degP through the activation of the two-component envelope stress response system CpxA/CpxR. DegP induction seems to require membrane anchoring of this protein. Structural changes and/or interaction of the CXXC motif with its environment may lead to act [...]
  
    0.879
yaeQ
Uncharacterized protein YaeQ; Putative enzyme; Not classified
  
    0.864
smpB
SsrA-binding 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 Ala-aminoacylation o [...]
     
 0.859
rpsP
30S ribosomal protein S16; In addition to being a ribosomal protein, S16 also has a cation-dependent endonuclease activity
  
   0.737
rplU
50S ribosomal protein L21; This protein binds to 23S rRNA in the presence of protein L20
   
   0.730
hpf
Ribosome hibernation promoting factor; During stationary phase, promotes and stabilizes dimerization of 70S ribosomes by the ribosome modulation factor (RMF), leading to the formation of inactive 100S ribosomes. Converts immature 90S particles formed by RMF into 100S ribosomes. Crystallization with T.thermophilus 70S ribosomes shows it binds in the channel between the head and body of the 30S subunit, where mRNA, tRNAs, initiation factors IF1 and IF3 and elongation factor G would bind; however RMF is still able to bind. In this crystal binding of HPF induces movement of the 30S head do [...]
     
 0.693
rmf
Ribosome modulation factor; During stationary phase, converts 70S ribosomes to an immature dimeric form (90S ribosomes) which are converted to inactive 100S ribosomes (a process called ribosomal hibernation) by the hibernation promoting factor HPF. Inactivates ribosomes by covering the peptidyl transferase (PTase) center of the 23S rRNA and the entrance of peptide exit tunnel. However crystallization with T.thermophilus 70S ribosomes shows it binds near the 3'-end of the 16S rRNA near the anti-Shine-Dalgarno sequence, where it would sterically hinder translation inititation. In this cr [...]
      
 0.684
rsfS
Ribosomal silencing factor RsfS; Functions as a ribosomal silencing factor. Addition to isolated ribosomal subunits partially inhibits their association, preventing translation. Interacts with ribosomal protein L14 (rplN), blocking formation of intersubunit bridge B8, preventing association of the 30S and 50S ribosomal subunits and the formation of functional ribosomes, thus repressing translation
  
 
 0.650
rplT
50S ribosomal protein L20; One of the primary rRNA binding proteins, it binds close to the 5'-end of the 23S rRNA. It is important during the early stages of 50S assembly
  
 
 0.634
Your Current Organism:
Escherichia coli K12 MG1655
NCBI taxonomy Id: 511145
Other names: E. coli str. K-12 substr. MG1655, Escherichia coli K12 MG1655, Escherichia coli K12 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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