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
Your Input:
Neighborhood
Gene fusion
Co-occurrence
Co-expression
Experiments
Databases
Textmining
[Homology]
Score
SPO3827Identified by match to protein family HMM PF02639; Belongs to the UPF0178 family. (154 aa)    
Predicted Functional Partners:
SPO3829
S-formylglutathione hydrolase, putative; Serine hydrolase involved in the detoxification of formaldehyde.
       0.582
SPO3822
HAD-superfamily hydrolase, subfamily IA, variant 1 family protein; Identified by match to protein family HMM PF00702; match to protein family HMM TIGR01509.
       0.510
SPO3436
Hypothetical protein; Identified by similarity to GB:CAE27628.1.
 
     0.474
sthA
Soluble pyridine nucleotide transhydrogenase; Identified by similarity to SP:P27306; match to protein family HMM PF00070; match to protein family HMM PF02852.
 
     0.461
SPO3833
ATP-dependent RNA helicase, DEAD/DEAH box family; Identified by match to protein family HMM PF00270; match to protein family HMM PF00271; match to protein family HMM PF03880; Belongs to the DEAD box helicase family.
 
    0.439
SPO1188
Putative protein TIGR00275; Identified by similarity to PIR:E97432; match to protein family HMM PF03486; match to protein family HMM TIGR00275.
 
     0.433
rpsJ
Ribosomal protein S10; Involved in the binding of tRNA to the ribosomes. Belongs to the universal ribosomal protein uS10 family.
       0.432
rplW
Ribosomal protein 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.
       0.415
rplD
Ribosomal protein L4; One of the primary rRNA binding proteins, this protein initially binds near the 5'-end of the 23S rRNA. 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.
       0.415
rplC
Ribosomal protein L3; One of the primary rRNA binding proteins, it binds directly near the 3'-end of the 23S rRNA, where it nucleates assembly of the 50S subunit.
       0.415
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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