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
AJR22870.1Membrane protein; Derived by automated computational analysis using gene prediction method: Protein Homology. (197 aa)    
Predicted Functional Partners:
smpB
SsrA-binding protein; Required for rescue of stalled ribosomes mediated by trans- translation. Binds to transfer-messenger RNA (tmRNA), required for stable association of tmRNA with ribosomes. tmRNA and SmpB together mimic tRNA shape, replacing the anticodon stem-loop with SmpB. tmRNA is encoded by the ssrA gene; the 2 termini fold to resemble tRNA(Ala) and it encodes a 'tag peptide', a short internal open reading frame. During trans-translation Ala-aminoacylated tmRNA acts like a tRNA, entering the A-site of stalled ribosomes, displacing the stalled mRNA. The ribosome then switches to [...]
       0.860
dapA
Dihydrodipicolinate synthase; Catalyzes the condensation of (S)-aspartate-beta-semialdehyde [(S)-ASA] and pyruvate to 4-hydroxy-tetrahydrodipicolinate (HTPA).
       0.774
AJR26127.1
Histidine kinase; Derived by automated computational analysis using gene prediction method: Protein Homology.
       0.767
AJR22873.1
Lytic transglycosylase; Derived by automated computational analysis using gene prediction method: Protein Homology.
       0.586
AJR22869.1
Sensory transduction regulatory protein; Derived by automated computational analysis using gene prediction method: Protein Homology.
       0.547
greB
Transcription elongation factor GreB; 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. GreB releases sequences of up to 9 nucleotides in length.
       0.529
AJR25135.1
Hypothetical protein; Derived by automated computational analysis using gene prediction method: Protein Homology.
  
     0.525
AJR24091.1
Ribonuclease; Derived by automated computational analysis using gene prediction method: Protein Homology.
  
    0.476
recA
Recombinase RecA; Can catalyze the hydrolysis of ATP in the presence of single- stranded DNA, the ATP-dependent uptake of single-stranded DNA by duplex DNA, and the ATP-dependent hybridization of homologous single-stranded DNAs. It interacts with LexA causing its activation and leading to its autocatalytic cleavage; Belongs to the RecA family.
       0.469
AJR22827.1
Flagellar P-ring protein FlgI; Derived by automated computational analysis using gene prediction method: Protein Homology.
  
     0.467
Your Current Organism:
Sphingobium sp. YBL2
NCBI taxonomy Id: 484429
Other names: S. sp. YBL2
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