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
Your Input:
Neighborhood
Gene Fusion
Cooccurrence
Coexpression
Experiments
Databases
Textmining
[Homology]
Score
rlmD23S rRNA (uracil-5-)-methyltransferase RumA; 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. (455 aa)    
Predicted Functional Partners:
Sfri_1043
DNA repair protein RecN; May be involved in recombinational repair of damaged DNA.
 
  
 0.689
Sfri_1047
Multi-sensor hybrid histidine kinase; PFAM: response regulator receiver; ATP-binding region, ATPase domain protein domain protein; histidine kinase, HAMP region domain protein; histidine kinase A domain protein domain protein; Hpt domain protein; KEGG: son:SO3457 sensor histidine kinase/response regulator.
  
    0.659
Sfri_1049
(p)ppGpp synthetase I, SpoT/RelA; In eubacteria ppGpp (guanosine 3'-diphosphate 5-' diphosphate) is a mediator of the stringent response that coordinates a variety of cellular activities in response to changes in nutritional abundance.
 
     0.634
Sfri_2570
PFAM: peptidase S49; Peptidase S49, N-terminal domain protein; KEGG: son:SO2933 sohB protein, peptidase U7 family.
  
    0.549
Sfri_1046
PFAM: protein of unknown function DUF416; KEGG: son:SO3458 hypothetical protein.
       0.546
Sfri_1050
TIGRFAM: MazG family protein; PFAM: MazG nucleotide pyrophosphohydrolase; KEGG: son:SO3442 MazG family protein.
 
     0.506
rsmA
Dimethyladenosine transferase; Specifically dimethylates two adjacent adenosines (A1518 and A1519) in the loop of a conserved hairpin near the 3'-end of 16S rRNA in the 30S particle. May play a critical role in biogenesis of 30S subunits.
   
  
 0.506
trmB
tRNA (guanine-N(7)-)-methyltransferase; Catalyzes the formation of N(7)-methylguanine at position 46 (m7G46) in tRNA.
 
  
 0.483
Sfri_0022
Sun protein; Specifically methylates the cytosine at position 967 (m5C967) of 16S rRNA.
 
  
 0.480
rlmN
Radical SAM enzyme, Cfr family protein; Specifically methylates position 2 of adenine 2503 in 23S rRNA and position 2 of adenine 37 in tRNAs. m2A2503 modification seems to play a crucial role in the proofreading step occurring at the peptidyl transferase center and thus would serve to optimize ribosomal fidelity; Belongs to the radical SAM superfamily. RlmN family.
  
  
 0.475
Your Current Organism:
Shewanella frigidimarina
NCBI taxonomy Id: 318167
Other names: S. frigidimarina NCIMB 400, Shewanella frigidimarina NCIMB 400, Shewanella frigidimarina str. NCIMB 400, Shewanella frigidimarina strain NCIMB 400
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