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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Neighborhood
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Co-occurrence
Co-expression
Experiments
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[Homology]
Score
Ppha_0019PFAM: conserved hypothetical protein; KEGG: cph:Cpha266_1465 hypothetical protein. (224 aa)    
Predicted Functional Partners:
Ppha_0017
PFAM: protein of unknown function UPF0102; KEGG: cph:Cpha266_0037 hypothetical protein; Belongs to the UPF0102 family.
       0.568
rnhB
Ribonuclease H; Endonuclease that specifically degrades the RNA of RNA-DNA hybrids; Belongs to the RNase HII family.
       0.568
Ppha_0020
PFAM: HicB family protein; KEGG: cph:Cpha266_2191 HicB family protein.
       0.558
Ppha_0021
HicA protein; KEGG: cph:Cpha266_2192 HicA protein.
       0.558
gyrB
DNA gyrase, B 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.
       0.416
Your Current Organism:
Pelodictyon phaeoclathratiforme
NCBI taxonomy Id: 324925
Other names: P. phaeoclathratiforme BU-1, Pelodictyon phaeoclathratiforme BU-1, Pelodictyon phaeoclathratiforme DSM 5477, Pelodictyon phaeoclathratiforme str. BU-1, Pelodictyon phaeoclathratiforme strain BU-1
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