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
DvMF_2026PFAM: Fmu (Sun) domain protein; KEGG: dde:Dde_0122 NOL1/NOP2/sun family protein; Belongs to the class I-like SAM-binding methyltransferase superfamily. RsmB/NOP family. (447 aa)    
Predicted Functional Partners:
rlmE
Ribosomal RNA methyltransferase RrmJ/FtsJ; Specifically methylates the uridine in position 2552 of 23S rRNA at the 2'-O position of the ribose in the fully assembled 50S ribosomal subunit.
  
 0.937
rpmD
PFAM: ribosomal protein L30; KEGG: dde:Dde_2239 50S ribosomal protein L30.
   
 0.931
rplJ
Ribosomal protein L10; Forms part of the ribosomal stalk, playing a central role in the interaction of the ribosome with GTP-bound translation factors. Belongs to the universal ribosomal protein uL10 family.
   
 0.930
rplW
Ribosomal protein L25/L23; One of the early assembly proteins it binds 23S rRNA. One of the proteins that surrounds the polypeptide exit tunnel on the outside of the ribosome. Forms the main docking site for trigger factor binding to the ribosome; Belongs to the universal ribosomal protein uL23 family.
   
 0.910
rplV
Ribosomal protein L22; This protein binds specifically to 23S rRNA; its binding is stimulated by other ribosomal proteins, e.g. L4, L17, and L20. It is important during the early stages of 50S assembly. It makes multiple contacts with different domains of the 23S rRNA in the assembled 50S subunit and ribosome (By similarity).
   
  0.905
fmt
methionyl-tRNA formyltransferase; Attaches a formyl group to the free amino group of methionyl- tRNA(fMet). The formyl group appears to play a dual role in the initiator identity of N-formylmethionyl-tRNA by promoting its recognition by IF2 and preventing the misappropriation of this tRNA by the elongation apparatus; Belongs to the Fmt family.
  
  
 0.822
DvMF_2125
PFAM: helicase domain protein; DbpA RNA-binding domain protein; DEAD/DEAH box helicase domain protein; SMART: DEAD-like helicases; KEGG: dde:Dde_0152 DEAD/DEAH box helicase-like; Belongs to the DEAD box helicase family.
   
 0.814
DvMF_2252
PFAM: helicase domain protein; DEAD/DEAH box helicase domain protein; SMART: DEAD-like helicases; KEGG: dde:Dde_0341 DEAD/DEAH box helicase-like.
   
 0.814
DvMF_3057
PFAM: helicase domain protein; DEAD/DEAH box helicase domain protein; SMART: DEAD-like helicases; KEGG: glo:Glov_2618 DEAD/DEAH box helicase domain protein.
   
 0.814
rplR
Ribosomal protein L18; This is one of the proteins that binds and probably mediates the attachment of the 5S RNA into the large ribosomal subunit, where it forms part of the central protuberance.
   
 
 0.760
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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