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

Gene ID: 24138, updated on 5-Mar-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 I-kappaB kinase/NF-kappaB signaling. Located in actin cytoskeleton; apical part of cell; and ruffle membrane. Colocalizes with IkappaB kinase complex. [provided by Alliance of Genome Resources, Apr 2022]
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_2023_10 current GRCh38.p14 (GCF_000001405.40) 10 NC_000010.11 (89414568..89420997)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 10 NC_060934.1 (90298411..90304831)
105.20220307 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
  • 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. 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
  2. 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
  3. Crystal structure and nucleotide selectivity of human IFIT5/ISG58. Feng F, et al. Cell Res, 2013 Aug. PMID 23774268, Free PMC Article
  4. 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
  5. A novel interferon-inducible gene expressed during myeloid differentiation. Niikura T, et al. Blood Cells Mol Dis, 1997 Dec. PMID 9398535

See all (44) 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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Find tests for this gene in the NIH Genetic Testing Registry (GTR)

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_2023_10

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

The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

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