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
EIJ34732.1PFAM: 3'-5' exonuclease; HRDC domain; TIGRFAM: ribonuclease D; COGs: COG0349 Ribonuclease D; InterPro IPR002562:IPR002121:IPR006292; KEGG: tgr:Tgr7_0509 ribonuclease D; PFAM: 3'-5' exonuclease; Helicase/RNase D C-terminal, HRDC domain; SMART: 3'-5' exonuclease; Helicase/RNase D C-terminal, HRDC domain; SPTR: Ribonuclease D; TIGRFAM: Ribonuclease D. (380 aa)    
Predicted Functional Partners:
rph
RNAse PH; Phosphorolytic 3'-5' exoribonuclease that plays an important role in tRNA 3'-end maturation. Removes nucleotide residues following the 3'-CCA terminus of tRNAs; can also add nucleotides to the ends of RNA molecules by using nucleoside diphosphates as substrates, but this may not be physiologically important. Probably plays a role in initiation of 16S rRNA degradation (leading to ribosome degradation) during starvation.
  
 0.999
EIJ33642.1
PFAM: Ribonuclease B OB domain; RNB domain; S1 RNA binding domain; TIGRFAM: ribonuclease R; VacB and RNase II family 3'-5' exoribonucleases; COGs: COG0557 Exoribonuclease R; InterProIPR013223:IPR001900:IPR003029:IPR011805:IPR 004476:IPR011129; KEGG: tkm:TK90_1938 ribonuclease R; PFAM: Ribonuclease II/R; Ribonuclease B, OB region N-terminal; Ribosomal protein S1, RNA binding domain; SMART: Cold shock protein; SPTR: Ribonuclease R; TIGRFAM: Ribonuclease R, bacterial; Ribonuclease II/ribonuclease R, bacteria.
   
 0.996
rpsD
SSU ribosomal protein S4P; One of the primary rRNA binding proteins, it binds directly to 16S rRNA where it nucleates assembly of the body of the 30S subunit.
   
  0.991
EIJ32942.1
Ribosomal protein S1; PFAM: S1 RNA binding domain; TIGRFAM: ribosomal protein S1; COGs: COG0539 Ribosomal protein S1; InterPro IPR018032:IPR003029; KEGG: tgr:Tgr7_1543 30S ribosomal protein S1; PFAM: Ribosomal protein S1, RNA binding domain; SPTR: Ribosomal protein S1; TIGRFAM: Ribosomal S1 synthesis/modification protein.
  
 0.990
rpsK
SSU ribosomal protein S11P; Located on the platform of the 30S subunit, it bridges several disparate RNA helices of the 16S rRNA. Forms part of the Shine- Dalgarno cleft in the 70S ribosome; Belongs to the universal ribosomal protein uS11 family.
    
  0.990
EIJ36125.1
ATP-dependent helicase HrpB; PFAM: Helicase conserved C-terminal domain; ATP-dependent helicase C-terminal; Helicase associated domain (HA2); DEAD/DEAH box helicase; TIGRFAM: ATP-dependent helicase HrpB; COGs: COG1643 HrpA-like helicase; InterProIPR014001:IPR001650:IPR010225:IPR007502:IPR 013689; KEGG: pmk:MDS_4056 ATP-dependent helicase HrpB; PFAM: RNA helicase, ATP-dependent, HrpB type, C-terminal; DNA/RNA helicase, C-terminal; Helicase-associated region; SMART: DEAD-like helicase, N-terminal; DNA/RNA helicase, C-terminal; SPTR: ATP-dependent helicase HrpB; TIGRFAM: RNA helicase, ATP [...]
  
  0.984
EIJ34377.1
ATP-dependent helicase HrpA; PFAM: Helicase conserved C-terminal domain; Helicase associated domain (HA2); Domain of unknown function (DUF3418); DEAD/DEAH box helicase; Domain of unknown function (DUF1605); TIGRFAM: ATP-dependent helicase HrpA; COGs: COG1643 HrpA-like helicase; InterProIPR014001:IPR003593:IPR001650:IPR007502:IPR 011709:IPR010222; KEGG: nhl:Nhal_1290 ATP-dependent helicase HrpA; PFAM: Helicase-associated region; DNA/RNA helicase, C-terminal; Domain of unknown function DUF1605; SMART: DEAD-like helicase, N-terminal; ATPase, AAA+ type, core; DNA/RNA helicase, C-terminal; [...]
  
  0.982
EIJ35829.1
PFAM: Ribosomal protein L23; COGs: COG0089 Ribosomal protein L23; InterPro IPR013025; KEGG: cvi:CV_4184 50S ribosomal protein L23; PFAM: Ribosomal protein L25/L23; SPTR: 50S ribosomal protein L23.
  
 
  0.966
rplD
LSU ribosomal protein L4P; Forms part of the polypeptide exit tunnel.
    
  0.958
rpsM
30S ribosomal protein S13; Located at the top of the head of the 30S subunit, it contacts several helices of the 16S rRNA. In the 70S ribosome it contacts the 23S rRNA (bridge B1a) and protein L5 of the 50S subunit (bridge B1b), connecting the 2 subunits; these bridges are implicated in subunit movement. Contacts the tRNAs in the A and P-sites. Belongs to the universal ribosomal protein uS13 family.
    
   0.958
Your Current Organism:
Thiothrix nivea
NCBI taxonomy Id: 870187
Other names: T. nivea DSM 5205, Thiothrix nivea DSM 5205, Thiothrix nivea JP2, Thiothrix nivea str. DSM 5205, Thiothrix nivea strain DSM 5205
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