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.
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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
paaDPhenylacetic acid degradation protein PaaD; Identified by similarity to SP:P76084; match to protein family HMM PF03061; match to protein family HMM TIGR00369. (142 aa)    
Predicted Functional Partners:
paaF
phenylacetate-CoA ligase; Catalyzes the activation of phenylacetic acid (PA) to phenylacetyl-CoA (PA-CoA).
 
 
 0.994
paaI
Phenylacetic acid degradation protein PaaI; Identified by similarity to SP:P76079; match to protein family HMM PF05138; match to protein family HMM TIGR02158.
 
 
 0.988
paaH
Phenylacetic acid degradation protein PaaH; Identified by similarity to SP:P76078; match to protein family HMM PF06243; match to protein family HMM TIGR02157.
 
 
 0.987
paaJ
Phenylacetic acid degradation protein PaaJ; Identified by similarity to SP:P76080; match to protein family HMM PF01883; match to protein family HMM TIGR02159.
 
 
 0.986
paaG
Phenylacetic acid degradation protein PaaG; Identified by similarity to GB:AAC24334.1; match to protein family HMM PF05138; match to protein family HMM TIGR02156.
 
 
 0.986
paaK
Phenylacetic acid degradation oxidoreductase PaaK; Identified by similarity to SP:P76081; match to protein family HMM PF00111; match to protein family HMM PF00175; match to protein family HMM PF00970; match to protein family HMM TIGR02160.
 
 
 0.980
SPO0752
Phenylacetic acid degradation protein, putative.
 
 
 0.947
paaB
enoyl-CoA hydratase/isomerase PaaB; Identified by similarity to SP:P77467; match to protein family HMM PF00378.
 
 
 0.913
nylA
6-aminohexanoate-cyclic-dimer hydrolase; Identified by similarity to SP:P13397; match to protein family HMM PF01425; Belongs to the amidase family.
    
  0.900
SPO2583
Identified by match to protein family HMM PF01425.
    
  0.900
Your Current Organism:
Ruegeria pomeroyi
NCBI taxonomy Id: 246200
Other names: R. pomeroyi DSS-3, Ruegeria pomeroyi DSS-3, Ruegeria pomeroyi str. DSS-3, Ruegeria pomeroyi strain DSS-3, Silicibacter pomeroyi DSS-3
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