node1 | node2 | node1 accession | node2 accession | node1 annotation | node2 annotation | score |
arfA | arfB | b4550 | b0191 | Alternate ribosome-rescue factor A; Rescues ribosomes stalled at the 3' end of non-stop mRNAs. This activity is crucial when the stalled ribosome cannot be rescued by the SsrA(tmRNA)-SmpB quality control system. Binds the 30S subunit, contacting 16S rRNA with the N-terminus near the decoding center and its C-terminus in the mRNA entry channel; contacts change in the presence of release factor 2 (RF2, also named PrfB). Requires RF2/PrfB to hydrolyze stalled peptidyl-tRNA on the ribosome; recruits and probably helps position RF2/PrfB correctly in the ribosomal A site so RF2's GGQ motif c [...] | Alternative stalled-ribosome rescue factor B; Rescues stalled ribosomes. Can hydrolyze peptidyl-tRNA on ribosomes stalled by both non-stop mRNAs and mRNAs that contain rare codon clusters or ribosomes stalled in the middle of mRNA. First identified as a complementary ribosome rescue system when the stalled ribosome cannot be rescued by the SsrA(tmRNA)- SmpB quality control system or the alternative ribosome-rescue factor A (arfA). | 0.964 |
arfA | prfA | b4550 | b1211 | Alternate ribosome-rescue factor A; Rescues ribosomes stalled at the 3' end of non-stop mRNAs. This activity is crucial when the stalled ribosome cannot be rescued by the SsrA(tmRNA)-SmpB quality control system. Binds the 30S subunit, contacting 16S rRNA with the N-terminus near the decoding center and its C-terminus in the mRNA entry channel; contacts change in the presence of release factor 2 (RF2, also named PrfB). Requires RF2/PrfB to hydrolyze stalled peptidyl-tRNA on the ribosome; recruits and probably helps position RF2/PrfB correctly in the ribosomal A site so RF2's GGQ motif c [...] | Peptide chain release factor RF-1; Peptide chain release factor 1 directs the termination of translation in response to the peptide chain termination codons UAG and UAA. | 0.815 |
arfA | prfB | b4550 | b2891 | Alternate ribosome-rescue factor A; Rescues ribosomes stalled at the 3' end of non-stop mRNAs. This activity is crucial when the stalled ribosome cannot be rescued by the SsrA(tmRNA)-SmpB quality control system. Binds the 30S subunit, contacting 16S rRNA with the N-terminus near the decoding center and its C-terminus in the mRNA entry channel; contacts change in the presence of release factor 2 (RF2, also named PrfB). Requires RF2/PrfB to hydrolyze stalled peptidyl-tRNA on the ribosome; recruits and probably helps position RF2/PrfB correctly in the ribosomal A site so RF2's GGQ motif c [...] | Peptide chain release factor RF-2; Peptide chain release factor 2 directs the termination of translation in response to the peptide chain termination codons UGA and UAA. Acts as a peptidyl-tRNA hydrolase. In the presence of truncated mRNA in the 70S ribosome, ArfA and RF2 interact such that the GGQ peptide hydrolysis motif of RF2 rises into the peptidyl-transferase center and releases the ribosome. Recruited by ArfA to rescue stalled ribosomes in the absence of a normal stop codon. | 0.999 |
arfA | rplS | b4550 | b2606 | Alternate ribosome-rescue factor A; Rescues ribosomes stalled at the 3' end of non-stop mRNAs. This activity is crucial when the stalled ribosome cannot be rescued by the SsrA(tmRNA)-SmpB quality control system. Binds the 30S subunit, contacting 16S rRNA with the N-terminus near the decoding center and its C-terminus in the mRNA entry channel; contacts change in the presence of release factor 2 (RF2, also named PrfB). Requires RF2/PrfB to hydrolyze stalled peptidyl-tRNA on the ribosome; recruits and probably helps position RF2/PrfB correctly in the ribosomal A site so RF2's GGQ motif c [...] | 50S ribosomal subunit protein L19; This protein is located at the 30S-50S ribosomal subunit interface. In the 70S ribosome it has been modeled to make two contacts with the 16S rRNA of the 30S subunit forming part of bridges B6 and B8. In the 3.5 A resolved structures L14 and L19 interact and together make contact with the 16S rRNA. The protein conformation is quite different between the 50S and 70S structures, which may be necessary for translocation. | 0.999 |
arfA | rplU | b4550 | b3186 | Alternate ribosome-rescue factor A; Rescues ribosomes stalled at the 3' end of non-stop mRNAs. This activity is crucial when the stalled ribosome cannot be rescued by the SsrA(tmRNA)-SmpB quality control system. Binds the 30S subunit, contacting 16S rRNA with the N-terminus near the decoding center and its C-terminus in the mRNA entry channel; contacts change in the presence of release factor 2 (RF2, also named PrfB). Requires RF2/PrfB to hydrolyze stalled peptidyl-tRNA on the ribosome; recruits and probably helps position RF2/PrfB correctly in the ribosomal A site so RF2's GGQ motif c [...] | 50S ribosomal subunit protein L21; This protein binds to 23S rRNA in the presence of protein L20. | 0.999 |
arfA | rpmA | b4550 | b3185 | Alternate ribosome-rescue factor A; Rescues ribosomes stalled at the 3' end of non-stop mRNAs. This activity is crucial when the stalled ribosome cannot be rescued by the SsrA(tmRNA)-SmpB quality control system. Binds the 30S subunit, contacting 16S rRNA with the N-terminus near the decoding center and its C-terminus in the mRNA entry channel; contacts change in the presence of release factor 2 (RF2, also named PrfB). Requires RF2/PrfB to hydrolyze stalled peptidyl-tRNA on the ribosome; recruits and probably helps position RF2/PrfB correctly in the ribosomal A site so RF2's GGQ motif c [...] | 50S ribosomal subunit protein L27; Protein involved in structural constituent of ribosome and translation. | 0.999 |
arfA | rpmG | b4550 | b3636 | Alternate ribosome-rescue factor A; Rescues ribosomes stalled at the 3' end of non-stop mRNAs. This activity is crucial when the stalled ribosome cannot be rescued by the SsrA(tmRNA)-SmpB quality control system. Binds the 30S subunit, contacting 16S rRNA with the N-terminus near the decoding center and its C-terminus in the mRNA entry channel; contacts change in the presence of release factor 2 (RF2, also named PrfB). Requires RF2/PrfB to hydrolyze stalled peptidyl-tRNA on the ribosome; recruits and probably helps position RF2/PrfB correctly in the ribosomal A site so RF2's GGQ motif c [...] | 50S ribosomal subunit protein L33; Protein involved in structural constituent of ribosome and translation. | 0.999 |
arfA | rpsL | b4550 | b3342 | Alternate ribosome-rescue factor A; Rescues ribosomes stalled at the 3' end of non-stop mRNAs. This activity is crucial when the stalled ribosome cannot be rescued by the SsrA(tmRNA)-SmpB quality control system. Binds the 30S subunit, contacting 16S rRNA with the N-terminus near the decoding center and its C-terminus in the mRNA entry channel; contacts change in the presence of release factor 2 (RF2, also named PrfB). Requires RF2/PrfB to hydrolyze stalled peptidyl-tRNA on the ribosome; recruits and probably helps position RF2/PrfB correctly in the ribosomal A site so RF2's GGQ motif c [...] | 30S ribosomal subunit protein S12; With S4 and S5 plays an important role in translational accuracy. Cryo-EM studies suggest that S12 contacts the EF-Tu bound tRNA in the A-site during codon-recognition. This contact is most likely broken as the aminoacyl-tRNA moves into the peptidyl transferase center in the 50S subunit; Belongs to the universal ribosomal protein uS12 family. | 0.999 |
arfA | rpsP | b4550 | b2609 | Alternate ribosome-rescue factor A; Rescues ribosomes stalled at the 3' end of non-stop mRNAs. This activity is crucial when the stalled ribosome cannot be rescued by the SsrA(tmRNA)-SmpB quality control system. Binds the 30S subunit, contacting 16S rRNA with the N-terminus near the decoding center and its C-terminus in the mRNA entry channel; contacts change in the presence of release factor 2 (RF2, also named PrfB). Requires RF2/PrfB to hydrolyze stalled peptidyl-tRNA on the ribosome; recruits and probably helps position RF2/PrfB correctly in the ribosomal A site so RF2's GGQ motif c [...] | 30S ribosomal subunit protein S16; In addition to being a ribosomal protein, S16 also has a cation-dependent endonuclease activity. | 0.999 |
arfA | smpB | b4550 | b2620 | Alternate ribosome-rescue factor A; Rescues ribosomes stalled at the 3' end of non-stop mRNAs. This activity is crucial when the stalled ribosome cannot be rescued by the SsrA(tmRNA)-SmpB quality control system. Binds the 30S subunit, contacting 16S rRNA with the N-terminus near the decoding center and its C-terminus in the mRNA entry channel; contacts change in the presence of release factor 2 (RF2, also named PrfB). Requires RF2/PrfB to hydrolyze stalled peptidyl-tRNA on the ribosome; recruits and probably helps position RF2/PrfB correctly in the ribosomal A site so RF2's GGQ motif c [...] | tmRNA-binding trans-translation protein; Required for rescue of stalled ribosomes mediated by trans- translation. Binds to tmRNA RNA (also known as SsrA or 10Sa RNA, 363 nucleotides in this organism), required for stable binding of tmRNA to ribosomes. tmRNA and SmpB together mimic tRNA shape, replacing the anticodon stem-loop with SmpB (Probable). tmRNA is encoded by the ssrA gene; the 2 termini fold to resemble tRNA(Ala) and it encodes a 'tag peptide', a short internal open reading frame. Able to recruit charged tmRNA to ribosomes. Does not play a role in transcription, processing or [...] | 0.903 |
arfB | arfA | b0191 | b4550 | Alternative stalled-ribosome rescue factor B; Rescues stalled ribosomes. Can hydrolyze peptidyl-tRNA on ribosomes stalled by both non-stop mRNAs and mRNAs that contain rare codon clusters or ribosomes stalled in the middle of mRNA. First identified as a complementary ribosome rescue system when the stalled ribosome cannot be rescued by the SsrA(tmRNA)- SmpB quality control system or the alternative ribosome-rescue factor A (arfA). | Alternate ribosome-rescue factor A; Rescues ribosomes stalled at the 3' end of non-stop mRNAs. This activity is crucial when the stalled ribosome cannot be rescued by the SsrA(tmRNA)-SmpB quality control system. Binds the 30S subunit, contacting 16S rRNA with the N-terminus near the decoding center and its C-terminus in the mRNA entry channel; contacts change in the presence of release factor 2 (RF2, also named PrfB). Requires RF2/PrfB to hydrolyze stalled peptidyl-tRNA on the ribosome; recruits and probably helps position RF2/PrfB correctly in the ribosomal A site so RF2's GGQ motif c [...] | 0.964 |
arfB | prfA | b0191 | b1211 | Alternative stalled-ribosome rescue factor B; Rescues stalled ribosomes. Can hydrolyze peptidyl-tRNA on ribosomes stalled by both non-stop mRNAs and mRNAs that contain rare codon clusters or ribosomes stalled in the middle of mRNA. First identified as a complementary ribosome rescue system when the stalled ribosome cannot be rescued by the SsrA(tmRNA)- SmpB quality control system or the alternative ribosome-rescue factor A (arfA). | Peptide chain release factor RF-1; Peptide chain release factor 1 directs the termination of translation in response to the peptide chain termination codons UAG and UAA. | 0.927 |
arfB | prfB | b0191 | b2891 | Alternative stalled-ribosome rescue factor B; Rescues stalled ribosomes. Can hydrolyze peptidyl-tRNA on ribosomes stalled by both non-stop mRNAs and mRNAs that contain rare codon clusters or ribosomes stalled in the middle of mRNA. First identified as a complementary ribosome rescue system when the stalled ribosome cannot be rescued by the SsrA(tmRNA)- SmpB quality control system or the alternative ribosome-rescue factor A (arfA). | Peptide chain release factor RF-2; Peptide chain release factor 2 directs the termination of translation in response to the peptide chain termination codons UGA and UAA. Acts as a peptidyl-tRNA hydrolase. In the presence of truncated mRNA in the 70S ribosome, ArfA and RF2 interact such that the GGQ peptide hydrolysis motif of RF2 rises into the peptidyl-transferase center and releases the ribosome. Recruited by ArfA to rescue stalled ribosomes in the absence of a normal stop codon. | 0.911 |
arfB | rplS | b0191 | b2606 | Alternative stalled-ribosome rescue factor B; Rescues stalled ribosomes. Can hydrolyze peptidyl-tRNA on ribosomes stalled by both non-stop mRNAs and mRNAs that contain rare codon clusters or ribosomes stalled in the middle of mRNA. First identified as a complementary ribosome rescue system when the stalled ribosome cannot be rescued by the SsrA(tmRNA)- SmpB quality control system or the alternative ribosome-rescue factor A (arfA). | 50S ribosomal subunit protein L19; This protein is located at the 30S-50S ribosomal subunit interface. In the 70S ribosome it has been modeled to make two contacts with the 16S rRNA of the 30S subunit forming part of bridges B6 and B8. In the 3.5 A resolved structures L14 and L19 interact and together make contact with the 16S rRNA. The protein conformation is quite different between the 50S and 70S structures, which may be necessary for translocation. | 0.949 |
arfB | rplU | b0191 | b3186 | Alternative stalled-ribosome rescue factor B; Rescues stalled ribosomes. Can hydrolyze peptidyl-tRNA on ribosomes stalled by both non-stop mRNAs and mRNAs that contain rare codon clusters or ribosomes stalled in the middle of mRNA. First identified as a complementary ribosome rescue system when the stalled ribosome cannot be rescued by the SsrA(tmRNA)- SmpB quality control system or the alternative ribosome-rescue factor A (arfA). | 50S ribosomal subunit protein L21; This protein binds to 23S rRNA in the presence of protein L20. | 0.953 |
arfB | rpmA | b0191 | b3185 | Alternative stalled-ribosome rescue factor B; Rescues stalled ribosomes. Can hydrolyze peptidyl-tRNA on ribosomes stalled by both non-stop mRNAs and mRNAs that contain rare codon clusters or ribosomes stalled in the middle of mRNA. First identified as a complementary ribosome rescue system when the stalled ribosome cannot be rescued by the SsrA(tmRNA)- SmpB quality control system or the alternative ribosome-rescue factor A (arfA). | 50S ribosomal subunit protein L27; Protein involved in structural constituent of ribosome and translation. | 0.954 |
arfB | rpmG | b0191 | b3636 | Alternative stalled-ribosome rescue factor B; Rescues stalled ribosomes. Can hydrolyze peptidyl-tRNA on ribosomes stalled by both non-stop mRNAs and mRNAs that contain rare codon clusters or ribosomes stalled in the middle of mRNA. First identified as a complementary ribosome rescue system when the stalled ribosome cannot be rescued by the SsrA(tmRNA)- SmpB quality control system or the alternative ribosome-rescue factor A (arfA). | 50S ribosomal subunit protein L33; Protein involved in structural constituent of ribosome and translation. | 0.914 |
arfB | rpsL | b0191 | b3342 | Alternative stalled-ribosome rescue factor B; Rescues stalled ribosomes. Can hydrolyze peptidyl-tRNA on ribosomes stalled by both non-stop mRNAs and mRNAs that contain rare codon clusters or ribosomes stalled in the middle of mRNA. First identified as a complementary ribosome rescue system when the stalled ribosome cannot be rescued by the SsrA(tmRNA)- SmpB quality control system or the alternative ribosome-rescue factor A (arfA). | 30S ribosomal subunit protein S12; With S4 and S5 plays an important role in translational accuracy. Cryo-EM studies suggest that S12 contacts the EF-Tu bound tRNA in the A-site during codon-recognition. This contact is most likely broken as the aminoacyl-tRNA moves into the peptidyl transferase center in the 50S subunit; Belongs to the universal ribosomal protein uS12 family. | 0.901 |
arfB | rpsP | b0191 | b2609 | Alternative stalled-ribosome rescue factor B; Rescues stalled ribosomes. Can hydrolyze peptidyl-tRNA on ribosomes stalled by both non-stop mRNAs and mRNAs that contain rare codon clusters or ribosomes stalled in the middle of mRNA. First identified as a complementary ribosome rescue system when the stalled ribosome cannot be rescued by the SsrA(tmRNA)- SmpB quality control system or the alternative ribosome-rescue factor A (arfA). | 30S ribosomal subunit protein S16; In addition to being a ribosomal protein, S16 also has a cation-dependent endonuclease activity. | 0.910 |
arfB | smpB | b0191 | b2620 | Alternative stalled-ribosome rescue factor B; Rescues stalled ribosomes. Can hydrolyze peptidyl-tRNA on ribosomes stalled by both non-stop mRNAs and mRNAs that contain rare codon clusters or ribosomes stalled in the middle of mRNA. First identified as a complementary ribosome rescue system when the stalled ribosome cannot be rescued by the SsrA(tmRNA)- SmpB quality control system or the alternative ribosome-rescue factor A (arfA). | tmRNA-binding trans-translation protein; Required for rescue of stalled ribosomes mediated by trans- translation. Binds to tmRNA RNA (also known as SsrA or 10Sa RNA, 363 nucleotides in this organism), required for stable binding of tmRNA to ribosomes. tmRNA and SmpB together mimic tRNA shape, replacing the anticodon stem-loop with SmpB (Probable). tmRNA is encoded by the ssrA gene; the 2 termini fold to resemble tRNA(Ala) and it encodes a 'tag peptide', a short internal open reading frame. Able to recruit charged tmRNA to ribosomes. Does not play a role in transcription, processing or [...] | 0.923 |