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:
a 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 to each other.
Knowledge-based Evidence
from curated databases
textmining
Assay-based Predictions
experimentally determined
co-expression
Genomic Predictions
gene neighborhood
gene co-occurrence
gene fusions
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[Homology]
Score
ydgTPutative cytoplasmic protein; Binds to H-NS and modified the range of genes it silences; H- NS alonge silences core gene while the H-NS-Hha complex (and presumably also H-NS-YdgT) silences genes acquired by horizontal gene transfer. Plays a role silencing virulence factors in the absence of factors that induce pathogenicity (By similarity). The complex formed with H-NS binds to the specific 26-bp cnb site in the origin of replication oriC (By similarity); Belongs to the Hha/YmoA/Cnu family. (71 aa)    
Predicted Functional Partners:
stpA
DNA-binding protein with chaperone activity; A DNA-binding protein that acts in a fashion similar to H-NS, repressing gene transcription. A subset of H-NS/StpA-regulated genes require auxillary proteins for repression; these auxillary proteins (Hha and other similar proteins) may also modulate oligomerization of the H-NS/StpA complex (By similarity).
   
 
 0.963
hns
DNA-binding protein HLP-II; Binds tightly to dsDNA. Acts as a global transcriptional regulator through its ability to bind to AT-rich DNA sequences. Binds in the minor groove of AT-rich DNA. Was found to bind 746 genes, about half of which show no change in expression in disruption experiments suggesting these sites are important for nucleoid structure. On a global level genes bound by H-NS are expressed at a lower than average level; H-NS is excluded from binding to highly transcribed genes and does not co-localize with RNA polymerase in DNA-binding studies during exponential growth i [...]
    
   0.881
ydgK
Putative inner membrane protein; Similar to E. coli orf, hypothetical protein (AAC74698.1); Blastp hit to AAC74698.1 (154 aa), 82% identity in aa 9 - 154.
  
    0.823
ssrB
Secretion system regulator: transcriptonal activator; Homologous with degU/uvrY/bvgA; SsrB (gi|2765824).
      
 0.725
ssrA
Secretion system regulator: Sensor component; SpiR (gi|1498305).
      
 0.713
slyA
MarR family transcriptional regulator for hemolysin; Transcription regulator that can specifically activate or repress expression of target genes. Required for virulence and survival in the macrophage environment. Probably activates expression of ispA, xseB genes, and of omp operon.
   
  
 0.698
phoP
Response regulator in two-component regulatory system with PhoQ; Member of the two-component regulatory system PhoP/PhoQ which regulates the expression of genes involved in virulence, adaptation to acidic and low Mg(2+) environments and resistance to host defense antimicrobial peptides. Essential for intramacrophage survival of S.typhimurium. In low periplasmic Mg(2+), PhoQ phosphorylates PhoP, resulting in the expression of PhoP-activated genes (PAG) and repression of PhoP-repressed genes (PRG). In high periplasmic Mg(2+), PhoQ dephosphorylates phospho-PhoP, resulting in the repressio [...]
   
  
 0.675
phoQ
Sensory kinase protein in two-component regulatory system with PhoP; Member of the two-component regulatory system PhoP/PhoQ which regulates the expression of genes involved in virulence, adaptation to acidic and low Mg(2+) environments and resistance to host defense antimicrobial peptides. Essential for intramacrophage survival of S.typhimurium. In low periplasmic Mg(2+), PhoQ functions as a membrane- associated protein kinase that undergoes autophosphorylation and subsequently transfers the phosphate to PhoP, resulting in the expression of PhoP-activated genes (PAG) and repression of [...]
   
  
 0.552
yjbR
Putative cytoplasmic protein; Similar to E. coli orf, hypothetical protein (AAC77027.1); Blastp hit to AAC77027.1 (118 aa), 92% identity in aa 1 - 117.
      
 0.550
yffB
Putative glutaredoxin family protein; Similar to E. coli orf, hypothetical protein (AAC75524.1); Blastp hit to AAC75524.1 (118 aa), 80% identity in aa 1 - 118; Belongs to the ArsC family.
   
  
 0.521
Your Current Organism:
Salmonella enterica Typhimurium
NCBI taxonomy Id: 99287
Other names: S. enterica subsp. enterica serovar Typhimurium str. LT2, Salmonella enterica subsp. enterica serovar Typhimurium LT2, Salmonella enterica subsp. enterica serovar Typhimurium str. LT2, Salmonella enterica subsp. enterica serovar Typhimurium strain LT2, Salmonella enterica subsp. enterica serovar Typhimurium strain LT2-LTL2, Salmonella typhimurium LT2
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