UniProtKB - P36675 (ARFA_ECOLI)
Alternative ribosome-rescue factor A
arfA
Functioni
Rescues ribosomes stalled at the 3' end of non-stop mRNAs (PubMed:21062370, PubMed:21435036).
This activity is crucial when the stalled ribosome cannot be rescued by the SsrA(tmRNA)-SmpB quality control system (PubMed:21062370, PubMed:21435036).
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) (PubMed:25355516, PubMed:27906160, PubMed:27906161, PubMed:27934701, PubMed:28077875).
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 can hydrolyze the peptidyl-tRNA bond (PubMed:22857598, PubMed:22922063, PubMed:25355516, PubMed:27906160, PubMed:27906161, PubMed:27934701, PubMed:28077875).
Does not release ribosomes with a programmed pause caused by regulatory chains such as SecM-mediated pausing (PubMed:22857598).
Binds tRNA which may stimulate its ribosome rescue activity (PubMed:22857598).
9 PublicationsMiscellaneous
Caution
GO - Molecular functioni
- ribosomal large subunit binding Source: EcoCyc
- rRNA binding Source: UniProtKB-KW
- tRNA binding Source: EcoCyc
GO - Biological processi
- rescue of stalled ribosome Source: EcoCyc
Keywordsi
Molecular function | RNA-binding, rRNA-binding, tRNA-binding |
Biological process | Translation regulation |
Enzyme and pathway databases
BioCyci | EcoCyc:MONOMER0-2687 |
Names & Taxonomyi
Protein namesi | Recommended name: Alternative ribosome-rescue factor A1 Publication |
Gene namesi | Name:arfA1 Publication Synonyms:yhdL Ordered Locus Names:b4550, JW3253 |
Organismi | Escherichia coli (strain K12) |
Taxonomic identifieri | 83333 [NCBI] |
Taxonomic lineagei | Bacteria › Proteobacteria › Gammaproteobacteria › Enterobacterales › Enterobacteriaceae › Escherichia › |
Proteomesi |
|
Pathology & Biotechi
Disruption phenotypei
Mutagenesis
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Mutagenesisi | 1 – 18 | Missing : 90% decrease in kcat for peptidyl-transferase by RF2. 1 PublicationAdd BLAST | 18 | |
Mutagenesisi | 8 | K → A: 75% decrease in kcat for peptidyl-transferase by RF2. 1 Publication | 1 | |
Mutagenesisi | 9 | G → V: 75% decrease in kcat for peptidyl-transferase by RF2. 1 Publication | 1 | |
Mutagenesisi | 11 | I → N: 90% decrease in kcat for peptidyl-transferase by RF2. 1 Publication | 1 | |
Mutagenesisi | 18 | A → C: No change in ribosome rescue activity. 1 Publication | 1 | |
Mutagenesisi | 18 | A → T: Loss of ribosome rescue activity. Does not affect binding to the ribosome or to tRNA. Still recruits RF2 to the ribosome. 3 Publications | 1 | |
Mutagenesisi | 20 | L → C: About 50% ribosome rescue activity, initial rate. 1 Publication | 1 | |
Mutagenesisi | 23 | P → A: 50% decrease in kcat for peptidyl-transferase by RF2. 1 Publication | 1 | |
Mutagenesisi | 28 | R → A: No change in kcat for peptidyl-transferase by RF2. 1 Publication | 1 | |
Mutagenesisi | 28 | R → C: About 50% ribosome rescue activity, initial rate. 1 Publication | 1 | |
Mutagenesisi | 30 | E → A: No change in kcat for peptidyl-transferase by RF2. 1 Publication | 1 | |
Mutagenesisi | 34 | K → A: No change in kcat for peptidyl-transferase by RF2. 1 Publication | 1 | |
Mutagenesisi | 34 | K → C: About 75% ribosome rescue activity, after 10 minutes. About 50% ribosome rescue activity, initial rate. 2 Publications | 1 | |
Mutagenesisi | 35 | G → C: About 50% ribosome rescue activity, initial rate. 1 Publication | 1 | |
Mutagenesisi | 36 | K → A: No change in kcat for peptidyl-transferase by RF2. 1 Publication | 1 | |
Mutagenesisi | 39 | Y → C: About 25% ribosome rescue activity, initial rate. 1 Publication | 1 | |
Mutagenesisi | 41 | R → A: No change in kcat for peptidyl-transferase by RF2. 1 Publication | 1 | |
Mutagenesisi | 41 | R → C: About 20% ribosome rescue activity, initial rate. 1 Publication | 1 |
PTM / Processingi
Molecule processing
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
ChainiPRO_0000169494 | 1 – 72 | Alternative ribosome-rescue factor AAdd BLAST | 72 |
Proteomic databases
PaxDbi | P36675 |
PRIDEi | P36675 |
Interactioni
Subunit structurei
Interacts with the 50S ribosomal subunit (PubMed:21062370, PubMed:25355516, PubMed:27906160, PubMed:27906161, PubMed:27934701, PubMed:28077875).
Interacts with RF2/PrfB on the ribosome (PubMed:27906160, PubMed:27906161, PubMed:27934701, PubMed:28077875). Contacts ribosomal protein S12 (rpsL) (PubMed:27906160, PubMed:27906161).
6 PublicationsProtein-protein interaction databases
BioGRIDi | 4259344, 8 interactors |
IntActi | P36675, 53 interactors |
STRINGi | 511145.b4550 |
Family & Domainsi
Region
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Regioni | 30 – 53 | DisorderedSequence analysisAdd BLAST | 24 |
Sequence similaritiesi
Phylogenomic databases
eggNOGi | COG3036, Bacteria |
HOGENOMi | CLU_170842_3_0_6 |
InParanoidi | P36675 |
PhylomeDBi | P36675 |
Family and domain databases
InterProi | View protein in InterPro IPR005589, ArfA |
Pfami | View protein in Pfam PF03889, ArfA, 1 hit |
i Sequence
Sequence statusi: Complete.
10 20 30 40 50
MSRYQHTKGQ IKDNAIEALL HDPLFRQRVE KNKKGKGSYM RKGKHGNRGN
60 70
WEASGKKVNH FFTTGLLLSG AC
Sequence databases
Select the link destinations: EMBLi GenBanki DDBJi Links Updated | L29458 Genomic DNA Translation: AAA24772.1 U18997 Genomic DNA No translation available. U00096 Genomic DNA Translation: ABD18700.1 AP009048 Genomic DNA Translation: BAE78000.1 |
PIRi | I67891 |
RefSeqi | WP_000092696.1, NZ_SSZK01000040.1 YP_588467.1, NC_000913.3 |
Genome annotation databases
EnsemblBacteriai | ABD18700; ABD18700; b4550 BAE78000; BAE78000; BAE78000 |
GeneIDi | 1450289 66672815 |
KEGGi | ecj:JW3253 eco:b4550 |
PATRICi | fig|1411691.4.peg.3440 |
Similar proteinsi
Cross-referencesi
Sequence databases
Select the link destinations: EMBLi GenBanki DDBJi Links Updated | L29458 Genomic DNA Translation: AAA24772.1 U18997 Genomic DNA No translation available. U00096 Genomic DNA Translation: ABD18700.1 AP009048 Genomic DNA Translation: BAE78000.1 |
PIRi | I67891 |
RefSeqi | WP_000092696.1, NZ_SSZK01000040.1 YP_588467.1, NC_000913.3 |
3D structure databases
Select the link destinations: PDBei RCSB PDBi PDBji Links Updated | PDB entry | Method | Resolution (Å) | Chain | Positions | PDBsum |
5H5U | electron microscopy | 3.00 | 3 | 1-72 | [»] | |
5MDV | electron microscopy | 2.97 | 6 | 1-60 | [»] | |
5MDW | electron microscopy | 3.06 | 6 | 1-60 | [»] | |
5MDY | electron microscopy | 3.35 | 6 | 1-60 | [»] | |
5MGP | electron microscopy | 3.10 | w | 2-46 | [»] | |
5U4I | electron microscopy | 3.50 | w | 1-55 | [»] | |
5U4J | electron microscopy | 3.70 | w | 1-55 | [»] | |
5U9F | electron microscopy | 3.20 | Y | 1-72 | [»] | |
5U9G | electron microscopy | 3.20 | Y | 1-72 | [»] | |
6C4I | electron microscopy | 3.24 | w | 1-55 | [»] | |
SMRi | P36675 | |||||
ModBasei | Search... | |||||
PDBe-KBi | Search... |
Protein-protein interaction databases
BioGRIDi | 4259344, 8 interactors |
IntActi | P36675, 53 interactors |
STRINGi | 511145.b4550 |
Proteomic databases
PaxDbi | P36675 |
PRIDEi | P36675 |
Genome annotation databases
EnsemblBacteriai | ABD18700; ABD18700; b4550 BAE78000; BAE78000; BAE78000 |
GeneIDi | 1450289 66672815 |
KEGGi | ecj:JW3253 eco:b4550 |
PATRICi | fig|1411691.4.peg.3440 |
Organism-specific databases
EchoBASEi | EB1911 |
Phylogenomic databases
eggNOGi | COG3036, Bacteria |
HOGENOMi | CLU_170842_3_0_6 |
InParanoidi | P36675 |
PhylomeDBi | P36675 |
Enzyme and pathway databases
BioCyci | EcoCyc:MONOMER0-2687 |
Miscellaneous databases
PROi | PR:P36675 |
Family and domain databases
InterProi | View protein in InterPro IPR005589, ArfA |
Pfami | View protein in Pfam PF03889, ArfA, 1 hit |
MobiDBi | Search... |
Entry informationi
Entry namei | ARFA_ECOLI | |
Accessioni | P36675Primary (citable) accession number: P36675 Secondary accession number(s): Q2EET4, Q2M6V6 | |
Entry historyi | Integrated into UniProtKB/Swiss-Prot: | June 1, 1994 |
Last sequence update: | June 1, 1994 | |
Last modified: | February 23, 2022 | |
This is version 128 of the entry and version 1 of the sequence. See complete history. | ||
Entry statusi | Reviewed (UniProtKB/Swiss-Prot) | |
Annotation program | Prokaryotic Protein Annotation Program |
Miscellaneousi
Keywords - Technical termi
3D-structure, Reference proteomeDocuments
- PDB cross-references
Index of Protein Data Bank (PDB) cross-references - SIMILARITY comments
Index of protein domains and families