STRINGSTRING
STRING protein interaction network
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.
Known Interactions
from curated databases
experimentally determined
Predicted Interactions
gene neighborhood
gene fusions
gene co-occurrence
Others
textmining
co-expression
protein homology
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Neighborhood
Gene Fusion
Cooccurrence
Coexpression
Experiments
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Textmining
[Homology]
Score
ntrXSWISSPROT: P03029 - Nitrogen assimilation regulatory protein ntrX; PFAM: PF00072, PF00158, PF02954; SUPERFAMILY: SSF52172, SSF52540; COG: COG2204; sigma factor 54. (471 aa)    
Predicted Functional Partners:
ntrY
Histidine kinase; SWISSPROT Q04850: Nitrogen regulation protein ntrY; PANTHER: Two-component Histidine Kinase; COG: COG5000 & PIRSF - Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation; PFAM: PF00512, PF00672, PF02518; TIGRFAM: TIGR00229; SMART: SM00091; PROSITE: PS50112; nitrogen regulation protein.
 0.993
ntrB
SWISSPROT P09431, P0AFB5: Nitrogen regulation protein ntrB; COG: COG3852 - Signal transduction histidine kinase, nitrogen specific; PFAM: PF00512, PF02518; SMART: SM00091.
 
 0.882
rpoN
RNA polymerase sigma-54 factor; Sigma factors are initiation factors that promote the attachment of RNA polymerase to specific initiation sites and are then released.
 
  
 0.778
Dshi_1094
Transcriptional regulator; Domains: GAF (present in phytochromes and cGMP-specific phosphodiesterases), FIS; Fis family.
 
      0.721
Dshi_0515
Histidine kinase; Unsure GC frame plot; - PFAM: ATP-binding region ATPase domain protein; histidine kinase A domain protein; NCBI conserved domains: HisKA; middle swissprot hit to Sensor protein fixL; good Ref ZP hit to probable sensor histidine kinase of two-component system from Roseovarius sp. HTCC2601.
 
 
 0.720
ntrC
SWISSPROT P10577: Nitrogen assimilation regulatory protein; COG: COG2204 - Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains; PFAM: PF02954, PF00072, PF00158; SUPERFAMILY: SSF52172; sigma factor 54.
 
   
0.684
dus
tRNA-dihydrouidine synthase; Catalyzes the synthesis of 5,6-dihydrouridine (D), a modified base found in the D-loop of most tRNAs, via the reduction of the C5-C6 double bond in target uridines; Belongs to the dus family.
  
  
 0.646
Dshi_3346
KEGG: sil:SPO0094 sensory box sensor histidine kinase/response regulator TIGRFAM: PAS sensor protein PFAM: response regulator receiver; ATP-binding region ATPase domain protein; histidine kinase A domain protein; PAS fold-3 domain protein; PAS fold-4 domain protein; PAS fold domain protein SMART: PAS domain containing protein; PAC repeat-containing protein.
 
 0.564
degP
Swiss-Prot: P0C0V0-Protease do [Precursor] TIGR02037: periplasmic serine protease, Do/DeqQ family PFAM: peptidase S1 and S6 chymotrypsin/Hap; PDZ/DHR/GLGF domain protein; Belongs to the peptidase S1C family.
  
     0.551
hfq
Putative protein Hfq; RNA chaperone that binds small regulatory RNA (sRNAs) and mRNAs to facilitate mRNA translational regulation in response to envelope stress, environmental stress and changes in metabolite concentrations. Also binds with high specificity to tRNAs. Belongs to the Hfq family.
  
 0.548
Your Current Organism:
Dinoroseobacter shibae
NCBI taxonomy Id: 398580
Other names: D. shibae DFL 12 = DSM 16493, Dinoroseobacter shibae DFL 12, Dinoroseobacter shibae DFL 12 = DSM 16493, Dinoroseobacter shibae DSM 16493, Dinoroseobacter shibae DSM 16493 = DFL 12, Jannaschia sp. DFL-12
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