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
Pden_1237KEGG: sil:SPO0951 hypothetical protein. (250 aa)    
Predicted Functional Partners:
Pden_1236
PFAM: Uracil-DNA glycosylase superfamily; KEGG: sil:SPO0950 uracil-DNA glycosylase, putative.
       0.855
Pden_0427
KEGG: sil:SPO0311 hypothetical protein.
  
     0.774
Pden_1931
KEGG: rsp:RSP_6052 hypothetical protein.
  
     0.770
Pden_0537
PFAM: Peptidoglycan-binding domain 1 protein; KEGG: rsp:RSP_1855 hypothetical protein.
  
     0.765
Pden_1234
KEGG: jan:Jann_3657 capsule polysaccharide export protein-like.
 
     0.765
Pden_0577
KEGG: rsp:RSP_2271 hypothetical protein.
  
     0.762
Pden_2607
KEGG: rsp:RSP_1154 hypothetical protein.
  
     0.762
Pden_2217
KEGG: rsp:RSP_6009 hypothetical protein.
  
     0.759
Pden_3810
KEGG: rde:RD1_2747 hypothetical protein.
  
     0.757
Pden_2686
KEGG: sil:SPO3441 hypothetical protein.
  
     0.756
Your Current Organism:
Paracoccus denitrificans
NCBI taxonomy Id: 318586
Other names: P. denitrificans PD1222, Paracoccus denitrificans PD1222
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