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
Pden_4097PFAM: protein of unknown function DUF1153; KEGG: rsp:RSP_2620 hypothetical protein. (103 aa)    
Predicted Functional Partners:
Pden_1619
PFAM: flagellar FlaF family protein; KEGG: rde:RD1_0159 flagellar protein, putative.
   
    0.903
Pden_2562
KEGG: sit:TM1040_3453 conserved hypothetical protein.
  
     0.756
mnmA
tRNA (5-methylaminomethyl-2-thiouridylate)-methyltransferase; Catalyzes the 2-thiolation of uridine at the wobble position (U34) of tRNA, leading to the formation of s(2)U34.
 
     0.728
Pden_0819
KEGG: jan:Jann_4052 putative anti-sigma regulatory factor (serine/threonine protein kinase).
   
  
 0.724
Pden_2043
PFAM: GcrA cell cycle regulator; KEGG: rsp:RSP_2007 conservd hypothetical protein.
  
     0.719
Pden_4096
Two component transcriptional regulator, winged helix family; PFAM: response regulator receiver; KEGG: sil:SPO1679 DNA-binding response regulator CtrA.
 
    0.711
Pden_2708
PFAM: NLP/P60 protein; KEGG: rsp:RSP_1380 hypothetical protein.
  
     0.669
Pden_4504
KEGG: rsp:RSP_3825 hypothetical protein.
  
    0.654
Pden_4464
PFAM: flagellar motor switch protein FliG; KEGG: rsp:RSP_2220 possible flagellar motor switch protein (FliG).
  
    0.647
Pden_1960
KEGG: sit:TM1040_3566 conserved hypothetical protein.
  
     0.628
Your Current Organism:
Paracoccus denitrificans
NCBI taxonomy Id: 318586
Other names: P. denitrificans PD1222, Paracoccus denitrificans PD1222
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