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
Your Input:
Neighborhood
Gene Fusion
Co-occurrence
Co-expression
Experiments
Databases
Textmining
[Homology]
Score
ybiSLD-transpeptidase YbiS. (304 aa)    
Predicted Functional Partners:
SO_2183
LD-transpeptidase ErfK/YbiS/YcfS/YnhG family.
 
  
 0.771
dsbC
Thiol:disulfide interchange protein DsbC; Required for disulfide bond formation in some periplasmic proteins. Acts by transferring its disulfide bond to other proteins and is reduced in the process; Belongs to the thioredoxin family. DsbC subfamily.
   
  
 0.751
dsbB
Disulfide bond formation protein DsbB; Required for disulfide bond formation in some periplasmic proteins. Acts by oxidizing the DsbA protein; Belongs to the DsbB family.
     
 0.663
pilQ
Type IV pilus secretin PilQ.
      
 0.662
lpp
Murein lipoprotein Lpp.
      
 0.662
SO_2109
Peptidoglycan-binding protein.
 
  
 0.599
SO_1899
Periplasmic protein with peptidoglycan binding domain.
 
  
 0.594
dsbA
Periplasmic thiol:disulfide interchange protein DsbA.
  
  
 0.587
dacA
D-alanyl-D-alanine carboxypeptidase DacA; Belongs to the peptidase S11 family.
    
 0.574
dacB
D-alanyl-D-alanine carboxypeptidase DacB.
     
 0.559
Your Current Organism:
Shewanella oneidensis
NCBI taxonomy Id: 211586
Other names: S. oneidensis MR-1, Shewanella oneidensis ATCC 700550, Shewanella oneidensis MR-1, Shewanella oneidensis str. MR-1, Shewanella oneidensis strain MR-1, Shewanella sp. MR-1
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