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raiA ribosome-associated inhibitor A [ Escherichia coli str. K-12 substr. MG1655 ]

Gene ID: 947129, updated on 3-Dec-2024

Summary

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Official Symbol
raiA
Official Full Name
ribosome-associated inhibitor A
Primary source
ECOCYC:EG11151
Locus tag
b2597
See related
ASAP:ABE-0008540
Gene type
protein coding
RefSeq status
PROVISIONAL
Organism
Escherichia coli str. K-12 substr. MG1655 (strain: K-12, substrain: MG1655)
Lineage
Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales; Enterobacteriaceae; Escherichia
Also known as
ECK2594; pY; urf1; yfiA
Summary
RaiA is a ribosome-associated factor that is induced in stationary phase. hpf paralog has opposite effect on 70S dimers. [More information is available at EcoGene: EG11151]. YfiA interferes with translation elongation, specifically by occluding the access of aminoacyl-tRNA to the ribosomal A site . [More information is available at EcoCyc: EG11151].
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Genomic context

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Sequence:
NC_000913.3 (2737154..2737495)

NC_000913.3Genomic Context describing neighboring genes Neighboring gene purine nucleoside phosphorylase YfiH Neighboring gene 23S rRNA pseudouridine(1911/1915/1917) synthase Neighboring gene outer membrane protein assembly factor BamD Neighboring gene ncRNA Neighboring gene phe operon leader peptide Neighboring gene fused chorismate mutase/prephenate dehydratase

Genomic regions, transcripts, and products

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Genomic Sequence:
NC_000913.3

Go to nucleotide: Graphics FASTA GenBank

Bibliography

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Related articles in PubMed

  1. Solution structure of HI0257, a bacterial ribosome binding protein. Parsons L, et al. Biochemistry, 2001 Sep 18. PMID 11551193
  2. The ribosome-associated inhibitor A reduces translation errors. Agafonov DE, et al. Biochem Biophys Res Commun, 2004 Jul 23. PMID 15219834
  3. A novel stress-response protein that binds at the ribosomal subunit interface and arrests translation. Agafonov DE, et al. Cold Spring Harb Symp Quant Biol, 2001. PMID 12762053
  4. Structural basis for the control of translation initiation during stress. Vila-Sanjurjo A, et al. Nat Struct Mol Biol, 2004 Nov. PMID 15502846
  5. The how and Y of cold shock. Wilson DN, et al. Nat Struct Mol Biol, 2004 Nov. PMID 15523473

See all (32) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. crystal structure of Thermus thermophilus 70S ribosome in complex with stationary-phase factors RMF, HPF and YfiA; the nearly identical binding sites of HPF and YfiA overlap with those of the mRNA, transfer RNA and initiation factors which prevents translation initiation
    Title: How hibernation factors RMF, HPF, and YfiA turn off protein synthesis.
  2. N-terminus verified by Edman degradation on mature peptide
    Title: Two proteins, YfiA and YhbH, associated with resting ribosomes in stationary phase Escherichia coli.
  3. summary of research into yfiA pathway [news]
    Title: The how and Y of cold shock.
  4. structural and biochemical data show that protein Y fills the tRNA- and mRNA-binding channel of the small ribosomal subunit to stabilize intact ribosomes
    Title: Structural basis for the control of translation initiation during stress.
  5. The yhbH deletion mutant expressed YfiA and RMF and produced no 70S dimers, suggesting that YfiA prevents 70S dimer formation
    Title: Ribosome binding proteins YhbH and YfiA have opposite functions during 100S formation in the stationary phase of Escherichia coli.
Submit: New GeneRIF Correction

Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Homology

Gene Ontology Provided by EcoCyc

Function Evidence Code Pubs
enables protein binding IPI
Inferred from Physical Interaction
more info
 PubMed 
enables rRNA binding IEA
Inferred from Electronic Annotation
more info
  
enables ribosomal small subunit binding IBA
Inferred from Biological aspect of Ancestor
more info
  
enables ribosomal small subunit binding IDA
Inferred from Direct Assay
more info
 PubMed 
Process Evidence Code Pubs
involved_in dormancy process IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in negative regulation of translational elongation IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in negative regulation of translational elongation IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in negative regulation of translational initiation IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in regulation of translation IEA
Inferred from Electronic Annotation
more info
  
acts_upstream_of_or_within response to cold IEP
Inferred from Expression Pattern
more info
 PubMed 
Component Evidence Code Pubs
located_in cytosol IDA
Inferred from Direct Assay
more info
 PubMed 
part_of cytosolic small ribosomal subunit IBA
Inferred from Biological aspect of Ancestor
more info
  
part_of cytosolic small ribosomal subunit IDA
Inferred from Direct Assay
more info
 PubMed 

General protein information

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Preferred Names
ribosome-associated inhibitor A

NCBI Reference Sequences (RefSeq)

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Genome Annotation

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference assembly

Genomic

  1. NC_000913.3 Reference assembly

    Range
    2737154..2737495
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NP_417088.1 ribosome-associated inhibitor A [Escherichia coli str. K-12 substr. MG1655]

    See identical proteins and their annotated locations for NP_417088.1

    Status: PROVISIONAL

    UniProtKB/TrEMBL
    A0A765XAA4
    Conserved Domains (1) summary
    PRK10324
    Location:1 → 113
    PRK10324; ribosome-associated translation inhibitor RaiA
Nucleotide Protein
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