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    IFIT5 interferon induced protein with tetratricopeptide repeats 5 [ Homo sapiens (human) ]

    Gene ID: 24138, updated on 3-Nov-2024

    Summary

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    Official Symbol
    IFIT5provided by HGNC
    Official Full Name
    interferon induced protein with tetratricopeptide repeats 5provided by HGNC
    Primary source
    HGNC:HGNC:13328
    See related
    Ensembl:ENSG00000152778 MIM:616135; AllianceGenome:HGNC:13328
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Homo sapiens
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
    Also known as
    P58; RI58; ISG58
    Summary
    Enables nucleic acid binding activity. Involved in defense response to virus; negative regulation of viral genome replication; and positive regulation of canonical NF-kappaB signal transduction. Located in several cellular components, including IkappaB kinase complex; actin cytoskeleton; and ruffle membrane. [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Ubiquitous expression in spleen (RPKM 7.8), lung (RPKM 7.7) and 25 other tissues See more
    Orthologs
    all
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    Genomic context

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    See IFIT5 in Genome Data Viewer
    Location:
    10q23.31
    Exon count:
    2
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 10 NC_000010.11 (89414568..89420997)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 10 NC_060934.1 (90298411..90304831)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 10 NC_000010.10 (91174325..91180754)

    Chromosome 10 - NC_000010.11Genomic Context describing neighboring genes Neighboring gene ReSE screen-validated silencer GRCh37_chr10:91151215-91151376 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 3747 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 3748 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 3749 Neighboring gene interferon induced protein with tetratricopeptide repeats 1B Neighboring gene uncharacterized LOC107984251 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 3750 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 3752 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 3751 Neighboring gene interferon induced protein with tetratricopeptide repeats 1 Neighboring gene BRD4-independent group 4 enhancer GRCh37_chr10:91181772-91182971 Neighboring gene solute carrier family 16 member 12 Neighboring gene SLC16A12 antisense RNA 1 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr10:91236124-91236624 Neighboring gene NANOG hESC enhancer GRCh37_chr10:91250383-91250884 Neighboring gene OCT4-NANOG-H3K4me1 hESC enhancer GRCh37_chr10:91293618-91294517 Neighboring gene OCT4 hESC enhancer GRCh37_chr10:91318626-91319150 Neighboring gene pantothenate kinase 1 Neighboring gene microRNA 107

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: HPA RNA-seq normal tissues HPA RNA-seq normal tissues
    • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
    • BioProject: PRJEB4337
    • Publication: PMID 24309898
    • Analysis date: Wed Apr 4 07:08:55 2018

    Bibliography

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    Related articles in PubMed

    1. A novel interferon-inducible gene expressed during myeloid differentiation. Niikura T, et al. Blood Cells Mol Dis, 1997 Dec. PMID 9398535
    2. tRNA binding, structure, and localization of the human interferon-induced protein IFIT5. Katibah GE, et al. Mol Cell, 2013 Feb 21. PMID 23317505, Free PMC Article
    3. Crystal structure and nucleotide selectivity of human IFIT5/ISG58. Feng F, et al. Cell Res, 2013 Aug. PMID 23774268, Free PMC Article
    4. Broad and adaptable RNA structure recognition by the human interferon-induced tetratricopeptide repeat protein IFIT5. Katibah GE, et al. Proc Natl Acad Sci U S A, 2014 Aug 19. PMID 25092312, Free PMC Article
    5. The roles and mechanism of IFIT5 in bladder cancer epithelial-mesenchymal transition and progression. Huang J, et al. Cell Death Dis, 2019 Jun 4. PMID 31164632, Free PMC Article

    See all (53) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Comprehensive analysis of the prognosis and biological significance for IFIT family in skin cutaneous melanoma.
      Title: Comprehensive analysis of the prognosis and biological significance for IFIT family in skin cutaneous melanoma.
    2. IFIT5 Negatively Regulates the Type I IFN Pathway by Disrupting TBK1-IKKepsilon-IRF3 Signalosome and Degrading IRF3 and IKKepsilon.
      Title: IFIT5 Negatively Regulates the Type I IFN Pathway by Disrupting TBK1-IKKε-IRF3 Signalosome and Degrading IRF3 and IKKε.
    3. Development of bis-ANS-based modified fluorescence titration assay for IFIT/RNA studies.
      Title: Development of bis-ANS-based modified fluorescence titration assay for IFIT/RNA studies.
    4. Expression of interferon induced protein with tetratricopeptide repeats 5 (IFIT5) is positively correlated with pathological characteristics, and predicts a poor prognosis of bladder cancer patients.
      Title: The roles and mechanism of IFIT5 in bladder cancer epithelial-mesenchymal transition and progression.
    5. IFIT5 promotes SeV-induced IKK phosphorylation and NF-kappaB activation by regulating the recruitment of IKK to TAK1.
      Title: IFIT5 positively regulates NF-κB signaling through synergizing the recruitment of IκB kinase (IKK) to TGF-β-activated kinase 1 (TAK1).
    6. show that IFIT5 binds precursor and processed tRNAs, as well as other RNA polymerase III transcripts. Our findings establish the RNA recognition specificity of the human innate immune response protein IFIT5
      Title: Broad and adaptable RNA structure recognition by the human interferon-induced tetratricopeptide repeat protein IFIT5.
    7. TRIF-N-terminal helical domain shares structural similarity with IFIT5.
      Title: The TLR signalling adaptor TRIF/TICAM-1 has an N-terminal helical domain with structural similarity to IFIT proteins.
    8. IFIT5 consists of 24 alpha-helices that pack into a special "V"-like structure.
      Title: Crystal structure and nucleotide selectivity of human IFIT5/ISG58.
    9. IFIT5 recognizes cellular RNA instead of protein partners.
      Title: tRNA binding, structure, and localization of the human interferon-induced protein IFIT5.
    10. crystal structures of human IFIT5, its complex with PPP-RNAs, and an amino-terminal fragment of IFIT1
      Title: Structural basis for viral 5'-PPP-RNA recognition by human IFIT proteins.
    Submit: New GeneRIF Correction See all GeneRIFs (11)

    Phenotypes

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    Review eQTL and phenotype association data in this region using PheGenI

    Variation

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    See variants in ClinVar

    See studies and variants in dbVar

    See Variation Viewer (GRCh37.p13)

    See Variation Viewer (GRCh38)

    Genotypes

    Pathways from PubChem

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    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    Homology

    Clone Names

    • FLJ53857, FLJ92678

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables RNA binding HDA PubMed 
    enables RNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables RNA binding IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables RNA cap binding IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables double-stranded DNA binding IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables poly(U) RNA binding IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    enables single-stranded RNA binding IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables tRNA binding IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in defense response to virus IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in defense response to virus IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in innate immune response IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in negative regulation of viral genome replication IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in positive regulation of canonical NF-kappaB signal transduction IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    Component Evidence Code Pubs
    part_of IkappaB kinase complex IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    located_in actin cytoskeleton IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in apical part of cell IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    is_active_in cytosol IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in cytosol TAS
    Traceable Author Statement
    more info
    		  
    located_in plasma membrane IDA
    Inferred from Direct Assay
    more info
    		  
    located_in ruffle membrane IDA
    Inferred from Direct Assay
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    interferon-induced protein with tetratricopeptide repeats 5
    Names
    IFIT-5
    interferon-induced 58 kDa protein
    retinoic acid- and interferon-inducible 58 kDa protein
    retinoic acid- and interferon-inducible protein (58kD)

    NCBI Reference Sequences (RefSeq)

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    RefSeqs maintained independently of Annotated Genomes

    These reference sequences exist independently of genome builds. Explain

    These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

    mRNA and Protein(s)

    1. NM_012420.3 → NP_036552.1  interferon-induced protein with tetratricopeptide repeats 5

      See identical proteins and their annotated locations for NP_036552.1

      Status: VALIDATED

      Source sequence(s)
      AL353146, DC392439
      Consensus CDS
      CCDS7403.1
      UniProtKB/Swiss-Prot
      B2R5X9, B4DDV1, Q13325, Q5T7I9, Q6IAX3
      Related
      ENSP00000360860.4, ENST00000371795.5
      Conserved Domains (3) summary
      TIGR02917
      Location:157 → 470
      PEP_TPR_lipo; putative PEP-CTERM system TPR-repeat lipoprotein
      sd00006
      Location:249 → 277
      TPR; TPR repeat [structural motif]
      pfam13424
      Location:49 → 116
      TPR_12; Tetratricopeptide repeat

    RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2024_08

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

    Reference GRCh38.p14 Primary Assembly

    Genomic

    1. NC_000010.11 Reference GRCh38.p14 Primary Assembly

      Range
      89414568..89420997
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060934.1 Alternate T2T-CHM13v2.0

      Range
      90298411..90304831
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q13325.1 GenPept UniProtKB/Swiss-Prot:Q13325

    Gene LinkOut

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