U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

Links from GEO Profiles

    • Showing Current items.

    TRIM6 tripartite motif containing 6 [ Homo sapiens (human) ]

    Gene ID: 117854, updated on 7-Apr-2024

    Summary

    Go to the top of the page Help
    Official Symbol
    TRIM6provided by HGNC
    Official Full Name
    tripartite motif containing 6provided by HGNC
    Primary source
    HGNC:HGNC:16277
    See related
    Ensembl:ENSG00000121236 MIM:607564; AllianceGenome:HGNC:16277
    Gene type
    protein coding
    RefSeq status
    REVIEWED
    Organism
    Homo sapiens
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
    Also known as
    RNF89
    Summary
    The protein encoded by this gene is a member of the tripartite motif (TRIM) family. The TRIM motif includes three zinc-binding domains, a RING, B-box type 1 and B-box type 2 domain, and a coiled-coil region. The protein localizes to the nucleus, but its specific function has not been identified. This gene is mapped to chromosome 11p15, where it resides within a TRIM gene cluster. Alternative splicing results in multiple transcript variants. A read-through transcript from this gene into the downstream TRIM34 gene has also been observed, which results in a fusion product from these neighboring family members. [provided by RefSeq, Oct 2010]
    Expression
    Broad expression in kidney (RPKM 10.6), testis (RPKM 6.4) and 15 other tissues See more
    Orthologs
    mouse all
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    Go to the top of the page Help
    See TRIM6 in Genome Data Viewer
    Location:
    11p15.4
    Exon count:
    9
    Annotation release Status Assembly Chr Location
    RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 11 NC_000011.10 (5596111..5612952)
    RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 11 NC_060935.1 (5655518..5672393)
    105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 11 NC_000011.9 (5617341..5634182)

    Chromosome 11 - NC_000011.10Genomic Context describing neighboring genes Neighboring gene heterogeneous nuclear ribonucleoprotein A1 pseudogene 53 Neighboring gene Sharpr-MPRA regulatory region 4920 Neighboring gene olfactory receptor family 52 subfamily B member 6 Neighboring gene Sharpr-MPRA regulatory region 11830 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:5617638-5618555 Neighboring gene TRIM6-TRIM34 readthrough Neighboring gene tripartite motif containing 5 Neighboring gene Sharpr-MPRA regulatory region 4679 Neighboring gene NANOG hESC enhancer GRCh37_chr11:5642663-5643271 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 4327 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 4328 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 4329 Neighboring gene tripartite motif containing 34 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 4330 Neighboring gene uncharacterized LOC107984302

    Genomic regions, transcripts, and products

    Go to the top of the page Help

    Go to nucleotide: Graphics FASTA GenBank

    Expression

    Go to the top of the page Help
    • 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

    Go to the top of the pageHelp

    Related articles in PubMed

    1. Tripartite motif-containing protein 6 facilitates growth and migration of breast cancer through degradation of STUB1. Wei C, et al. Eur J Histochem, 2021 Mar 10. PMID 33728863, Free PMC Article
    2. VAMP8 Contributes to the TRIM6-Mediated Type I Interferon Antiviral Response during West Nile Virus Infection. van Tol S, et al. J Virol, 2020 Jan 6. PMID 31694946, Free PMC Article
    3. The Host E3-Ubiquitin Ligase TRIM6 Ubiquitinates the Ebola Virus VP35 Protein and Promotes Virus Replication. Bharaj P, et al. J Virol, 2017 Sep 15. PMID 28679761, Free PMC Article
    4. Molecular cloning of ring finger protein 21 (RNF21)/interferon-responsive finger protein (ifp1), which possesses two RING-B box-coiled coil domains in tandem. Orimo A, et al. Genomics, 2000 Oct 1. PMID 11013086
    5. TRIM6 Reduces Ferroptosis and Chemosensitivity by Targeting SLC1A5 in Lung Cancer. Zhang Y, et al. Oxid Med Cell Longev, 2023. PMID 36654781, Free PMC Article

    See all (30) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. TRIM6 facilitates SARS-CoV-2 proliferation by catalyzing the K29-typed ubiquitination of NP to enhance the ability to bind viral genomes.
      Title: TRIM6 facilitates SARS-CoV-2 proliferation by catalyzing the K29-typed ubiquitination of NP to enhance the ability to bind viral genomes.
    2. TRIM6 Promotes ROS-Mediated Inflammasome Activation and Pyroptosis in Renal Tubular Epithelial Cells via Ubiquitination and Degradation of GPX3 Protein.
      Title: TRIM6 Promotes ROS-Mediated Inflammasome Activation and Pyroptosis in Renal Tubular Epithelial Cells via Ubiquitination and Degradation of GPX3 Protein.
    3. TRIM6: An Upregulated Biomarker with Prognostic Significance and Immune Correlations in Gliomas.
      Title: TRIM6: An Upregulated Biomarker with Prognostic Significance and Immune Correlations in Gliomas.
    4. TRIM6 silencing for inhibiting growth and angiogenesis of gliomas by regulating VEGFA.
      Title: TRIM6 silencing for inhibiting growth and angiogenesis of gliomas by regulating VEGFA.
    5. TRIM6 Reduces Ferroptosis and Chemosensitivity by Targeting SLC1A5 in Lung Cancer.
      Title: TRIM6 Reduces Ferroptosis and Chemosensitivity by Targeting SLC1A5 in Lung Cancer.
    6. Tripartite motif-containing protein 6 facilitates growth and migration of breast cancer through degradation of STUB1.
      Title: Tripartite motif-containing protein 6 facilitates growth and migration of breast cancer through degradation of STUB1.
    7. TRIM6 promotes colorectal cancer cells proliferation and response to thiostrepton by TIS21/FoxM1.
      Title: TRIM6 promotes colorectal cancer cells proliferation and response to thiostrepton by TIS21/FoxM1.
    8. these results provide evidence that TRIM6 contributes to the antiviral response against WNV and identify VAMP8 as a novel regulator of the IFN-I system.
      Title: VAMP8 Contributes to the TRIM6-Mediated Type I Interferon Antiviral Response during West Nile Virus Infection.
    9. Intriguingly, the authors also found that TRIM6 enhances ebola virus polymerase activity in a minigenome assay and TRIM6 knockout cells have reduced replication of infectious ebola virus, suggesting that VP35 hijacks TRIM6 to promote ebola virus replication through ubiquitination.
      Title: The Host E3-Ubiquitin Ligase TRIM6 Ubiquitinates the Ebola Virus VP35 Protein and Promotes Virus Replication.
    10. Live NiV infection, but not a recombinant NiV lacking the M protein, reduced the levels of endogenous TRIM6 protein expression. To our knowledge, matrix proteins of paramyxoviruses have never been reported to be involved in innate immune antagonism. We report here a novel mechanism of viral innate immune evasion by targeting TRIM6, IKKepsilon and unanchored polyubiquitin chains.
      Title: The Matrix Protein of Nipah Virus Targets the E3-Ubiquitin Ligase TRIM6 to Inhibit the IKKε Kinase-Mediated Type-I IFN Antiviral Response.
    Submit: New GeneRIF Correction See all GeneRIFs (12)

    Phenotypes

    Go to the top of the page Help

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

    Review eQTL and phenotype association data in this region using PheGenI

    EBI GWAS Catalog

    Description
    Loci associated with N-glycosylation of human immunoglobulin G show pleiotropy with autoimmune diseases and haematological cancers.
    EBI GWAS Catalog

    Variation

    Go to the top of the page Help

    See variants in ClinVar

    See studies and variants in dbVar

    See Variation Viewer (GRCh37.p13)

    See Variation Viewer (GRCh38)

    Genotypes

    HIV-1 interactions

    Go to the top of the page Help

    Protein interactions

    Protein Gene Interaction Pubs
    capsid gag Human TRIM6 binds in vitro assembled HIV-1 CA-NC complexes PubMed
    gag The RING, B-box 2, and coiled-coil domains of TRIM6 can functionally replace the corresponding domains of rhesus monkey TRIM5alpha with respect to inhibition of HIV-1 infection through the binding of the chimeras to HIV-1 capsid complexes PubMed
    nucleocapsid gag Human TRIM6 binds in vitro assembled HIV-1 CA-NC complexes PubMed

    Go to the HIV-1, Human Interaction Database

    Interactions

    Go to the top of the page Help
    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Go to the top of the page Help

    Markers

    Readthrough TRIM6-TRIM34

    Readthrough gene: TRIM6-TRIM34, Included gene: TRIM34

    Homology

    Clone Names

    • MGC176399

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables DNA-binding transcription factor binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables identical protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    enables protein homodimerization activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables protein kinase binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables protein kinase binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    enables protein tyrosine kinase binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    enables protein-macromolecule adaptor activity IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    enables ubiquitin protein ligase activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables ubiquitin protein ligase activity IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables ubiquitin protein ligase activity IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    enables zinc ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    involved_in antiviral innate immune response IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in cellular response to interferon-beta IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in cellular response to virus IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in free ubiquitin chain polymerization IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in free ubiquitin chain polymerization IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in innate immune response IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in negative regulation of DNA-templated transcription IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in negative regulation of gene expression IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in negative regulation of stem cell differentiation IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in negative regulation of viral genome replication IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in positive regulation of NF-kappaB transcription factor activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in positive regulation of autophagy IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in positive regulation of canonical NF-kappaB signal transduction IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in positive regulation of cytokine production involved in immune response IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in positive regulation of defense response to virus by host IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in positive regulation of peptidyl-serine phosphorylation IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in positive regulation of peptidyl-threonine phosphorylation IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in positive regulation of transcription regulatory region DNA binding IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in positive regulation of type I interferon-mediated signaling pathway IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in positive regulation of type I interferon-mediated signaling pathway IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in protein K48-linked ubiquitination IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in protein polyubiquitination IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    NOT involved_in regulation of non-canonical NF-kappaB signal transduction IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in regulation of protein localization IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in regulation of viral entry into host cell IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in response to lipopolysaccharide IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    Component Evidence Code Pubs
    is_active_in cytoplasm IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    is_active_in cytoplasm IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in cytoplasm IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    is_active_in cytosol IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    is_active_in nucleoplasm IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  

    General protein information

    Go to the top of the page Help
    Preferred Names
    tripartite motif-containing protein 6
    Names
    RING finger protein 89
    RING-type E3 ubiquitin transferase TRIM6
    NP_001003818.1
    NP_001185573.1
    NP_001185574.1
    NP_477514.1

    NCBI Reference Sequences (RefSeq)

    Go to the top of the page Help

    NEW Try the new Transcript table

    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_001003818.3 → NP_001003818.1  tripartite motif-containing protein 6 isoform 1

      See identical proteins and their annotated locations for NP_001003818.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (1) represents the longest transcript and encodes the longest isoform (1).
      Source sequence(s)
      AF220030, AK290172, AK316178, BC047564
      Consensus CDS
      CCDS31389.1
      UniProtKB/TrEMBL
      E9PFM0
      Related
      ENSP00000369440.3, ENST00000380097.8
      Conserved Domains (4) summary
      smart00336
      Location:121 → 161
      BBOX; B-Box-type zinc finger
      cd15823
      Location:327 → 514
      SPRY_PRY_TRIM6; PRY/SPRY domain in tripartite motif-binding protein 6 (TRIM6), also known as RING finger protein 89 (RNF89)
      cl17238
      Location:43 → 87
      RING; RING-finger (Really Interesting New Gene) domain, a specialized type of Zn-finger of 40 to 60 residues that binds two atoms of zinc; defined by the 'cross-brace' motif C-X2-C-X(9-39)-C-X(1-3)- H-X(2-3)-(N/C/H)-X2-C-X(4-48)C-X2-C; probably involved in ...
      cl23765
      Location:170 → 287
      iSH2_PI3K_IA_R; Inter-Src homology 2 (iSH2) helical domain of Class IA Phosphoinositide 3-kinase Regulatory subunits

    2. NM_001198644.2 → NP_001185573.1  tripartite motif-containing protein 6 isoform 3

      See identical proteins and their annotated locations for NP_001185573.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (3) lacks an alternate exon in the 5' coding region, and uses a downstream AUG start codon, compared to variant 1. The encoded isoform (3) has a shorter N-terminus, compared to isoform 1. Both variants 3 and 4 encode the same isoform.
      Source sequence(s)
      AF220030, AK290172, AK293295, AK298301, AK316178, BC047564, DA401634
      Consensus CDS
      CCDS55738.1
      UniProtKB/Swiss-Prot
      Q9C030
      Related
      ENSP00000421079.1, ENST00000506134.5
      Conserved Domains (1) summary
      cd15823
      Location:124 → 311
      SPRY_PRY_TRIM6; PRY/SPRY domain in tripartite motif-binding protein 6 (TRIM6), also known as RING finger protein 89 (RNF89)

    3. NM_001198645.2 → NP_001185574.1  tripartite motif-containing protein 6 isoform 3

      See identical proteins and their annotated locations for NP_001185574.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (4) lacks two alternate exons in the 5' coding region, and uses a downstream AUG start codon, compared to variant 1. The encoded isoform (3) has a shorter N-terminus, compared to isoform 1. Both variants 3 and 4 encode the same isoform.
      Source sequence(s)
      AF220030, AK290172, AK293295, BC047564, DA401634
      Consensus CDS
      CCDS55738.1
      UniProtKB/Swiss-Prot
      Q9C030
      Related
      ENSP00000421802.1, ENST00000515022.5
      Conserved Domains (1) summary
      cd15823
      Location:124 → 311
      SPRY_PRY_TRIM6; PRY/SPRY domain in tripartite motif-binding protein 6 (TRIM6), also known as RING finger protein 89 (RNF89)

    4. NM_058166.5 → NP_477514.1  tripartite motif-containing protein 6 isoform 2

      See identical proteins and their annotated locations for NP_477514.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (2) differs in the 5' UTR, lacks a portion of the 5' coding region, and uses a downstream AUG start codon, compared to variant 1. The encoded isoform (2) has a shorter N-terminus, compared to isoform 1.
      Source sequence(s)
      AF220030, AK027664, AK290172, DC354457
      Consensus CDS
      CCDS31390.1
      UniProtKB/Swiss-Prot
      A8K2A7, B4DDQ5, Q86WZ8, Q9C030
      UniProtKB/TrEMBL
      E9PFM0
      Related
      ENSP00000278302.5, ENST00000278302.9
      Conserved Domains (4) summary
      smart00336
      Location:93 → 133
      BBOX; B-Box-type zinc finger
      cd15823
      Location:299 → 486
      SPRY_PRY_TRIM6; PRY/SPRY domain in tripartite motif-binding protein 6 (TRIM6), also known as RING finger protein 89 (RNF89)
      cl17238
      Location:15 → 59
      RING; RING-finger (Really Interesting New Gene) domain, a specialized type of Zn-finger of 40 to 60 residues that binds two atoms of zinc; defined by the 'cross-brace' motif C-X2-C-X(9-39)-C-X(1-3)- H-X(2-3)-(N/C/H)-X2-C-X(4-48)C-X2-C; probably involved in ...
      cl23765
      Location:142 → 259
      iSH2_PI3K_IA_R; Inter-Src homology 2 (iSH2) helical domain of Class IA Phosphoinositide 3-kinase Regulatory subunits

    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_000011.10 Reference GRCh38.p14 Primary Assembly

      Range
      5596111..5612952
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060935.1 Alternate T2T-CHM13v2.0

      Range
      5655518..5672393
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q9C030.1 GenPept UniProtKB/Swiss-Prot:Q9C030

    Gene LinkOut

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

    Chemical Information
    Molecular Biology Databases
    Research Materials
    Tools
    Miscellaneous