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
rlmDRNA methyltransferase, TrmA family; Catalyzes the formation of 5-methyl-uridine at position 1939 (m5U1939) in 23S rRNA; Belongs to the class I-like SAM-binding methyltransferase superfamily. RNA M5U methyltransferase family. RlmD subfamily. (432 aa)    
Predicted Functional Partners:
Slit_2299
PFAM: 3'-5' exonuclease, PolB-like; KEGG: nmu:Nmul_A2217 hypothetical protein.
 
     0.839
Slit_2297
KEGG: cli:Clim_0691 rhodanese domain protein; PFAM: Rhodanese domain protein; SMART: Rhodanese domain protein.
       0.746
Slit_2751
Maf protein; Nucleoside triphosphate pyrophosphatase that hydrolyzes dTTP and UTP. May have a dual role in cell division arrest and in preventing the incorporation of modified nucleotides into cellular nucleic acids.
      0.573
guaA
GMP synthase, large subunit; Catalyzes the synthesis of GMP from XMP.
   
  
 0.523
trmB
tRNA (guanine-N(7)-)-methyltransferase; Catalyzes the formation of N(7)-methylguanine at position 46 (m7G46) in tRNA.
  
  
 0.513
recO
DNA repair protein RecO; Involved in DNA repair and RecF pathway recombination.
 
   
 0.469
Slit_2300
TIGRFAM: LexA repressor; KEGG: mei:Msip34_2108 LexA repressor; PFAM: Peptidase S24/S26A/S26B, conserved region; Belongs to the peptidase S24 family.
  
  
 0.454
pheT
TIGRFAM: phenylalanyl-tRNA synthetase, beta subunit; KEGG: mei:Msip34_0722 phenylalanyl-tRNA synthetase, beta subunit; Belongs to the phenylalanyl-tRNA synthetase beta subunit family. Type 1 subfamily.
 
  
 0.437
Slit_0010
Sun protein; Specifically methylates the cytosine at position 967 (m5C967) of 16S rRNA.
  
  
 0.434
Slit_1016
KEGG: tbd:Tbd_1242 hypothetical protein.
  
  
 0.415
Your Current Organism:
Sideroxydans lithotrophicus
NCBI taxonomy Id: 580332
Other names: S. lithotrophicus ES-1, Sideroxydans lithotrophicus ES-1, Sideroxydans lithotrophicus str. ES-1, Sideroxydans lithotrophicus strain ES-1, iron-oxidizing lithotroph ES-1
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