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
rpfERegulatory protein; Identified by sequence similarity; putative; ORF located using Blastx/Glimmer/Genemark. (306 aa)    
Predicted Functional Partners:
greA
Transcriptional elongation factor; Necessary for efficient RNA polymerase transcription elongation past template-encoded arresting sites. The arresting sites in DNA have the property of trapping a certain fraction of elongating RNA polymerases that pass through, resulting in locked ternary complexes. Cleavage of the nascent transcript by cleavage factors such as GreA or GreB allows the resumption of elongation from the new 3'terminus. GreA releases sequences of 2 to 3 nucleotides.
     
 0.880
recJ
single-stranded-DNA-specific exonuclease; Identified by sequence similarity; putative; ORF located using Blastx/Glimmer/Genemark.
     
 0.848
carB
Carbamoyl-phosphate synthase large chain; Identified by sequence similarity; putative; ORF located using Blastx/Glimmer/Genemark; Belongs to the CarB family.
       0.820
carA
Carbamoyl-phosphate synthase small chain; Identified by sequence similarity; putative; ORF located using Blastx/Glimmer/Genemark; Belongs to the CarA family.
       0.808
XOO2952
Conserved hypothetical protein; Identified by sequence similarity; putative; ORF located using Blastx/Glimmer/Genemark.
 
     0.761
XOO4854
Hypothetical protein; Putative; ORF located using FrameD.
       0.751
XOO0922
Conserved hypothetical protein; Identified by sequence similarity; putative; ORF located using Blastx/Glimmer/Genemark.
  
     0.730
XOO3931
Conserved hypothetical protein; Identified by sequence similarity; putative; ORF located using Blastx/Glimmer/Genemark.
  
     0.712
XOO4241
Conserved hypothetical protein; Identified by sequence similarity; putative; ORF located using Blastx/Glimmer/Genemark.
  
     0.675
XOO0506
Conserved hypothetical protein; Identified by sequence similarity; putative; ORF located using Blastx/Glimmer/Genemark.
  
     0.618
Your Current Organism:
Xanthomonas oryzae
NCBI taxonomy Id: 291331
Other names: X. oryzae pv. oryzae KACC 10331, Xanthomonas oryzae pv. oryzae KACC 10331, Xanthomonas oryzae pv. oryzae str. KACC 10331, Xanthomonas oryzae pv. oryzae strain KACC 10331
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