STRINGSTRING
rnr rnr pheT pheT ligA ligA aspS aspS BF1806 BF1806 BF1556 BF1556 BF1552 BF1552 BF1043 BF1043 rsgA rsgA BF0542 BF0542 efp efp recO recO nusA nusA miaB miaB BF3643 BF3643 ruvA ruvA lysS lysS recG recG BF2539 BF2539 rimO rimO BF2827 BF2827 rho rho BF2888 BF2888 BF2915 BF2915 asnS asnS infA infA rpsQ rpsQ rplB rplB rpsL rpsL pnp pnp metG metG
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
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:
rnrRibonuclease R; 3'-5' exoribonuclease that releases 5'-nucleoside monophosphates and is involved in maturation of structured RNAs. (714 aa)
pheTphenylalanyl-tRNA synthetase beta chain; Similar to gp:AE016928_139 [Bacteroides thetaiotaomicron VPI-5482], percent identity 91 in 820 aa, BLASTP E(): 0.0; Belongs to the phenylalanyl-tRNA synthetase beta subunit family. Type 1 subfamily. (820 aa)
ligADNA ligase; DNA ligase that catalyzes the formation of phosphodiester linkages between 5'-phosphoryl and 3'-hydroxyl groups in double- stranded DNA using NAD as a coenzyme and as the energy source for the reaction. It is essential for DNA replication and repair of damaged DNA. (665 aa)
aspSaspartyl-tRNA synthetase; Catalyzes the attachment of L-aspartate to tRNA(Asp) in a two-step reaction: L-aspartate is first activated by ATP to form Asp- AMP and then transferred to the acceptor end of tRNA(Asp). Belongs to the class-II aminoacyl-tRNA synthetase family. Type 1 subfamily. (585 aa)
BF1806Putative RNA binding protein with S1 RNA-binding domain; Similar to gp:AE016931_29 [Bacteroides thetaiotaomicron VPI-5482], percent identity 82 in 704 aa, BLASTP E(): 0.0. (707 aa)
BF1556Single-strand binding protein; Similar to gp:AE016932_29 [Bacteroides thetaiotaomicron VPI-5482], percent identity 67 in 161 aa, BLASTP E(): 2e-56. (152 aa)
BF1552Similar to gp:AE016932_32 [Bacteroides thetaiotaomicron VPI-5482], percent identity 94 in 524 aa, BLASTP E(): 0.0. (524 aa)
BF104330S ribosomal protein S1; Binds mRNA; thus facilitating recognition of the initiation point. It is needed to translate mRNA with a short Shine-Dalgarno (SD) purine-rich sequence. (597 aa)
rsgAPutative GTPase; One of several proteins that assist in the late maturation steps of the functional core of the 30S ribosomal subunit. Helps release RbfA from mature subunits. May play a role in the assembly of ribosomal proteins into the subunit. Circularly permuted GTPase that catalyzes slow GTP hydrolysis, GTPase activity is stimulated by the 30S ribosomal subunit; Belongs to the TRAFAC class YlqF/YawG GTPase family. RsgA subfamily. (310 aa)
BF0542Conserved hypothetical protein; Similar to gp:AE016936_92 [Bacteroides thetaiotaomicron VPI-5482], percent identity 83 in 276 aa, BLASTP E(): e-132; Belongs to the CvfB family. (282 aa)
efpElongation factor P; Involved in peptide bond synthesis. Stimulates efficient translation and peptide-bond synthesis on native or reconstituted 70S ribosomes in vitro. Probably functions indirectly by altering the affinity of the ribosome for aminoacyl-tRNA, thus increasing their reactivity as acceptors for peptidyl transferase (By similarity). (188 aa)
recODNA repair protein; Involved in DNA repair and RecF pathway recombination. (242 aa)
nusAPutative nitrogen utilization substance protein; Participates in both transcription termination and antitermination. (420 aa)
miaBConserved hypothetical protein; Catalyzes the methylthiolation of N6-(dimethylallyl)adenosine (i(6)A), leading to the formation of 2-methylthio-N6- (dimethylallyl)adenosine (ms(2)i(6)A) at position 37 in tRNAs that read codons beginning with uridine. (457 aa)
BF3643Putative DNA-binding protein; Similar to gp:AE016933_171 [Bacteroides thetaiotaomicron VPI-5482], percent identity 46 in 145 aa, BLASTP E(): 4e-34. (146 aa)
ruvAHolliday junction DNA helicase RuvA; The RuvA-RuvB complex in the presence of ATP renatures cruciform structure in supercoiled DNA with palindromic sequence, indicating that it may promote strand exchange reactions in homologous recombination. RuvAB is a helicase that mediates the Holliday junction migration by localized denaturation and reannealing. RuvA stimulates, in the presence of DNA, the weak ATPase activity of RuvB. (201 aa)
lysSlysyl-tRNA synthetase; Similar to gp:AE016934_203 [Bacteroides thetaiotaomicron VPI-5482], percent identity 82 in 576 aa, BLASTP E(): 0.0; Belongs to the class-II aminoacyl-tRNA synthetase family. (575 aa)
recGATP-dependent DNA helicase RecG; Critical role in recombination and DNA repair. Helps process Holliday junction intermediates to mature products by catalyzing branch migration. Has a DNA unwinding activity characteristic of a DNA helicase with a 3'- to 5'- polarity. Unwinds branched duplex DNA (Y- DNA); Belongs to the helicase family. RecG subfamily. (698 aa)
BF2539RNA methyltransferase; Similar to gp:AE016928_156 [Bacteroides thetaiotaomicron VPI-5482], percent identity 91 in 454 aa, BLASTP E(): 0.0; Belongs to the class I-like SAM-binding methyltransferase superfamily. RNA M5U methyltransferase family. (472 aa)
rimOPutative Fe-S oxidoreductase; Catalyzes the methylthiolation of an aspartic acid residue of ribosomal protein S12; Belongs to the methylthiotransferase family. RimO subfamily. (432 aa)
BF2827Putative single stranded DNA binding protein; Similar to gp:AY082070_39 [Bacteriophage phi3626], percent identity 26 in 131 aa, BLASTP E():0.001. (137 aa)
rhoTranscription termination factor rho; Facilitates transcription termination by a mechanism that involves Rho binding to the nascent RNA, activation of Rho's RNA- dependent ATPase activity, and release of the mRNA from the DNA template. (687 aa)
BF2888Hypothetical protein. (203 aa)
BF2915Putative single strand binding protein; Similar to gp:AE017166_133 [Prochlorococcus marinus subsp. marinus str. CCMP1375], percent identity 36 in 85 aa, BLASTP E(): 9e-08. (126 aa)
asnSasparaginyl-tRNA synthetase; Similar to gp:AE016942_146 [Bacteroides thetaiotaomicron VPI-5482], percent identity 94 in 467 aa, BLASTP E(): 0.0. (467 aa)
infATranslation initiation factor IF-1; One of the essential components for the initiation of protein synthesis. Stabilizes the binding of IF-2 and IF-3 on the 30S subunit to which N-formylmethionyl-tRNA(fMet) subsequently binds. Helps modulate mRNA selection, yielding the 30S pre-initiation complex (PIC). Upon addition of the 50S ribosomal subunit IF-1, IF-2 and IF-3 are released leaving the mature 70S translation initiation complex. (72 aa)
rpsQ30S ribosomal protein S17; One of the primary rRNA binding proteins, it binds specifically to the 5'-end of 16S ribosomal RNA. (89 aa)
rplB50S ribosomal protein L2; One of the primary rRNA binding proteins. Required for association of the 30S and 50S subunits to form the 70S ribosome, for tRNA binding and peptide bond formation. It has been suggested to have peptidyltransferase activity; this is somewhat controversial. Makes several contacts with the 16S rRNA in the 70S ribosome. Belongs to the universal ribosomal protein uL2 family. (274 aa)
rpsL30S ribosomal protein S12; With S4 and S5 plays an important role in translational accuracy. (133 aa)
pnpPolyribonucleotide nucleotidyltransferase; Involved in mRNA degradation. Catalyzes the phosphorolysis of single-stranded polyribonucleotides processively in the 3'- to 5'- direction. (708 aa)
metGmethionyl-tRNA synthetase; Is required not only for elongation of protein synthesis but also for the initiation of all mRNA translation through initiator tRNA(fMet) aminoacylation. (654 aa)
Your Current Organism:
Bacteroides fragilis
NCBI taxonomy Id: 295405
Other names: B. fragilis YCH46, Bacteroides fragilis YCH46, Bacteroides fragilis str. YCH46, Bacteroides fragilis strain YCH46
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