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
rlmH23S rRNA (pseudouridine(1915)-N(3))-methyltransferase RlmH; Specifically methylates the pseudouridine at position 1915 (m3Psi1915) in 23S rRNA; Belongs to the RNA methyltransferase RlmH family. (156 aa)    
Predicted Functional Partners:
ybeB
Iojap protein; Functions as a ribosomal silencing factor. Interacts with ribosomal protein L14 (rplN), blocking formation of intersubunit bridge B8. Prevents association of the 30S and 50S ribosomal subunits and the formation of functional ribosomes, thus repressing translation.
 
  
 0.986
penA
Penicillin-binding protein 2; Catalyzes cross-linking of the peptidoglycan cell wall. Belongs to the transpeptidase family. MrdA subfamily.
  
  
 0.917
rlpA
Hypothetical protein; Lytic transglycosylase with a strong preference for naked glycan strands that lack stem peptides.
     
 0.886
mrdB_1
Rod shape-determining protein RodA; Peptidoglycan polymerase that is essential for cell wall elongation; Belongs to the SEDS family. MrdB/RodA subfamily.
     
 0.869
dacA
D-alanyl-D-alanine carboxypeptidase; Derived by automated computational analysis using gene prediction method: Protein Homology; Belongs to the peptidase S11 family.
 
  
 0.804
holA
DNA polymerase III subunit delta; Required for the assembly and function of the DNAX complex which is required for the assembly of the beta subunit onto primed DNA; Derived by automated computational analysis using gene prediction method: Protein Homology.
       0.684
lptE
LPS biosynthesis protein; Together with LptD, is involved in the assembly of lipopolysaccharide (LPS) at the surface of the outer membrane. Required for the proper assembly of LptD. Binds LPS and may serve as the LPS recognition site at the outer membrane.
       0.684
leuS
leucine--tRNA ligase; LeuRS; class-I aminoacyl-tRNA synthetase; charges leucine by linking carboxyl group to alpha-phosphate of ATP and then transfers aminoacyl-adenylate to its tRNA; due to the large number of codons that tRNA(Leu) recognizes, the leucyl-tRNA synthetase does not recognize the anticodon loop of the tRNA, but instead recognition is dependent on a conserved discriminator base A37 and a long arm; an editing domain hydrolyzes misformed products; in Methanothermobacter thermautotrophicus this enzyme associates with prolyl-tRNA synthetase; Derived by automated computational [...]
       0.673
nadD
Nicotinate-nicotinamide nucleotide adenylyltransferase; Catalyzes the formation of deamido-NAD(+) from nicotinate ribonucleotide and ATP; Derived by automated computational analysis using gene prediction method: Protein Homology; Belongs to the NadD family.
  
  
 0.627
trmL
RNA methyltransferase; Methylates the ribose at the nucleotide 34 wobble position in the two leucyl isoacceptors tRNA(Leu)(CmAA) and tRNA(Leu)(cmnm5UmAA). Catalyzes the methyl transfer from S-adenosyl-L-methionine to the 2'-OH of the wobble nucleotide.
  
   
 0.604
Your Current Organism:
Grimontia hollisae
NCBI taxonomy Id: 673
Other names: ATCC 33564, CAIM 625, CCUG 13625, CDC 0075-80, CIP 101886, DSM 15132, G. hollisae, IMET 12291, LMG 17719, LMG:17719, NCTC 11640, Special Bacteriology group EF-13, Vibrio hollisae
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