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.
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colored nodes:
query proteins and first shell of interactors
white nodes:
second shell of interactors
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empty nodes:
proteins of unknown 3D structure
filled nodes:
a 3D structure is known or predicted
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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
nlpD_2lysM domain protein. (228 aa)    
Predicted Functional Partners:
mrcA
PBP_1a_fam: penicillin-binding, 1A family protein.
  
   
 0.582
amiB
N-acetylmuramoyl-L-alanine amidase family protein.
 
   
 0.564
hfq
RNA chaperone 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.
 
    0.534
lepB
sigpep_I_bact: signal peptidase I; Belongs to the peptidase S26 family.
 
  
 0.493
secF
Export membrane protein secF; Part of the Sec protein translocase complex. Interacts with the SecYEG preprotein conducting channel. SecDF uses the proton motive force (PMF) to complete protein translocation after the ATP-dependent function of SecA.
 
   
 0.471
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.
   
    0.467
raiA-2
Ribosome-associated inhibitor A.
  
    0.451
rpoS
RNA polymerase sigma factor RpoS; Sigma factors are initiation factors that promote the attachment of RNA polymerase to specific initiation sites and are then released. This sigma factor is the master transcriptional regulator of the stationary phase and the general stress response.
  
  
 0.437
pla
Coagulase/fibrinolysin.
   
    0.434
rseP
RIP metalloprotease RseP.
 
  
 0.420
Your Current Organism:
Yersinia intermedia
NCBI taxonomy Id: 631
Other names: ATCC 29909, CCUG 11292, CIP 80.28, DSM 18517, JCM 7579, NCTC 11469, Y. intermedia, strain 3953, strain Bottone 48, strain Chester 48
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