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
DvMF_0654PFAM: Amidohydrolase 3; KEGG: bpe:BP2617 hypothetical protein. (540 aa)    
Predicted Functional Partners:
DvMF_0653
TIGRFAM: N-carbamoylputrescine amidase; PFAM: Nitrilase/cyanide hydratase and apolipoprotein N-acyltransferase; KEGG: ypb:YPTS_3343 N-carbamoylputrescine amidase.
 
   
 0.826
gyrA
DNA gyrase, A subunit; A type II topoisomerase that negatively supercoils closed circular double-stranded (ds) DNA in an ATP-dependent manner to modulate DNA topology and maintain chromosomes in an underwound state. Negative supercoiling favors strand separation, and DNA replication, transcription, recombination and repair, all of which involve strand separation. Also able to catalyze the interconversion of other topological isomers of dsDNA rings, including catenanes and knotted rings. Type II topoisomerases break and join 2 DNA strands simultaneously in an ATP-dependent manner.
     
  0.770
DvMF_3107
PFAM: FxsA cytoplasmic membrane protein; KEGG: dde:Dde_2422 FxsA protein.
  
  
 0.716
DvMF_1012
Amidohydrolase; KEGG: dde:Dde_2667 peptidase M20D, amidohydrolase; TIGRFAM: amidohydrolase; PFAM: peptidase M20; peptidase dimerisation domain protein.
 
     0.425
DvMF_0564
PFAM: cyclase family protein; KEGG: dde:Dde_1664 cyclase, putative.
 
   
 0.401
Your Current Organism:
Desulfovibrio vulgaris Miyazaki
NCBI taxonomy Id: 883
Other names: D. vulgaris str. 'Miyazaki F', Desulfovibrio vulgaris (strain Miyazaki), Desulfovibrio vulgaris str. 'Miyazaki F'
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