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
ccmFCytochrome c-type biogenesis protein CcmF; Identified by match to protein family HMM PF01578. (631 aa)    
Predicted Functional Partners:
ccmB
Cytochrome c-type biogenesis protein CcmB.
 
  
 0.990
ccmE
Cytochrome c-type biogenesis protein CcmE; Heme chaperone required for the biogenesis of c-type cytochromes. Transiently binds heme delivered by CcmC and transfers the heme to apo-cytochromes in a process facilitated by CcmF and CcmH.
 
 
 0.988
ccmC
Cytochrome c-type biogenesis protein CcmC; Identified by similarity to SP:P33929; match to protein family HMM PF01578.
 
  
 0.986
DVU_1049
ABC transporter, ATP-binding protein; Identified by similarity to SP:P46903; match to protein family HMM PF00005.
 
    0.886
DVU_1045
Hypothetical protein; Identified by Glimmer2; putative.
  
 
 0.884
DVU_1586
Thioredoxin family protein; Identified by similarity to SP:P36893.
  
  
 0.778
DVU_2579
TPR domain protein; Identified by match to protein family HMM PF00515.
  
 
 0.772
nrfA
Cytochrome c nitrite reductase, catalytic subunit NfrA, putative; Catalytic subunit of the cytochrome c nitrite reductase holocomplex NrfHA. Has both nitrite and sulfite reductase activities. Catalyzes the reduction of nitrite to ammonia, consuming six electrons acquired by the electron donor subunit NrfH from the menaquinone pool, in an anaerobic respiratory process of nitrite. The other biological function of the NrfHA holocomplex is to detoxify nitrite. This function is essential for the survival of this organism as it enables it to overcome inhibition by nitrite, which is produced [...]
  
  
 0.767
cyf
Cytochrome c-553; Natural electron acceptor for a formate dehydrogenase.
  
  
 0.515
DVU_1052
CBS domain protein; Identified by match to protein family HMM PF00571; match to protein family HMM PF01595.
       0.502
Your Current Organism:
Desulfovibrio vulgaris Hildenborough
NCBI taxonomy Id: 882
Other names: D. vulgaris str. Hildenborough, Desulfovibrio vulgaris (STRAIN HILDENBOROUGH), Desulfovibrio vulgaris ATCC 29579, Desulfovibrio vulgaris str. Hildenborough, Desulfovibrio vulgaris subsp. vulgaris (strain Hildenborough), Desulfovibrio vulgaris subsp. vulgaris ATCC 29579, Desulfovibrio vulgaris subsp. vulgaris str. Hildenborough
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