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

    Gene ID: 947129, updated on 11-Apr-2024

    Summary

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    Gene symbol
    raiA
    Gene description
    ribosome-associated inhibitor A
    Primary source
    ASAP:ABE-0008540
    Locus tag
    b2597
    See related
    ECOCYC:EG11151
    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. A computational-experimental approach to designing a polyfunctional genosensor derived from the Escherichia coli gene yfiA promoter. Tikunova NV, et al. Dokl Biochem Biophys, 2007 Nov-Dec. PMID 18274460
    2. 15N magnetic relaxation study of backbone dynamics of the ribosome-associated cold shock response protein Yfia of Escherichia coli. Zhukov I, et al. Acta Biochim Pol, 2007. PMID 17968439
    3. The how and Y of cold shock. Wilson DN, et al. Nat Struct Mol Biol, 2004 Nov. PMID 15523473
    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 ribosome-associated inhibitor A reduces translation errors. Agafonov DE, et al. Biochem Biophys Res Commun, 2004 Jul 23. PMID 15219834

    See all (33) 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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    Gene Ontology Provided by EcoCyc

    Function Evidence Code Pubs
    enables RNA binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    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
    Heading Accession and Version

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