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    TRIM4 tripartite motif containing 4 [ Homo sapiens (human) ]

    Gene ID: 89122, updated on 5-May-2024

    Summary

    Official Symbol
    TRIM4provided by HGNC
    Official Full Name
    tripartite motif containing 4provided by HGNC
    Primary source
    HGNC:HGNC:16275
    See related
    Ensembl:ENSG00000146833 AllianceGenome:HGNC:16275
    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
    RNF87
    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, a B-box type 1 and a B-box type 2, and a coiled-coil region. The protein localizes to cytoplasmic bodies. Its function has not been identified. Alternatively spliced transcript variants that encode different isoforms have been described.[provided by RefSeq, Jul 2010]
    Expression
    Ubiquitous expression in ovary (RPKM 16.5), thyroid (RPKM 12.9) and 25 other tissues See more
    Orthologs
    NEW
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    Genomic context

    See TRIM4 in Genome Data Viewer
    Location:
    7q22.1
    Exon count:
    7
    Annotation release Status Assembly Chr Location
    RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 7 NC_000007.14 (99890403..99919530, complement)
    RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 7 NC_060931.1 (101129904..101159031, complement)
    105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 7 NC_000007.13 (99488026..99517153, complement)

    Chromosome 7 - NC_000007.14Genomic Context describing neighboring genes Neighboring gene cytochrome P450 family 3 subfamily A member 52, pseudogene Neighboring gene olfactory receptor family 2 subfamily AE member 1 Neighboring gene NANOG-H3K27ac hESC enhancer GRCh37_chr7:99484893-99485660 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 18411 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 26328 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 26329 Neighboring gene uncharacterized LOC101927610 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 26330 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr7:99526456-99527041 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr7:99527042-99527626 Neighboring gene gap junction protein gamma 3 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:99541581-99542436 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:99543294-99544149 Neighboring gene small nucleolar RNA SNORA40

    Genomic regions, transcripts, and products

    Expression

    • 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

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?

    Phenotypes

    EBI GWAS Catalog

    Description
    Eight common genetic variants associated with serum DHEAS levels suggest a key role in ageing mechanisms.
    EBI GWAS Catalog
    Human metabolic individuality in biomedical and pharmaceutical research.
    EBI GWAS Catalog

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables identical protein binding 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 transferase activity EXP
    Inferred from Experiment
    more info
    PubMed 
    enables zinc ion binding IEA
    Inferred from Electronic Annotation
    more info
     
    Process Evidence Code Pubs
    involved_in innate immune response TAS
    Traceable Author Statement
    more info
     
    involved_in protein ubiquitination IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in protein ubiquitination IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in regulation of gene expression IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    Component Evidence Code Pubs
    is_active_in cytoplasm IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    located_in cytoplasm IDA
    Inferred from Direct Assay
    more info
    PubMed 
    is_active_in cytosol IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    located_in cytosol IDA
    Inferred from Direct Assay
    more info
     
    located_in cytosol TAS
    Traceable Author Statement
    more info
     
    located_in plasma membrane IDA
    Inferred from Direct Assay
    more info
     

    General protein information

    Preferred Names
    E3 ubiquitin-protein ligase TRIM4
    Names
    RING finger protein 87
    RING-type E3 ubiquitin transferase TRIM4
    tripartite motif protein 4
    NP_148977.2
    NP_149082.1

    NCBI Reference Sequences (RefSeq)

    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_033017.4NP_148977.2  E3 ubiquitin-protein ligase TRIM4 isoform alpha

      See identical proteins and their annotated locations for NP_148977.2

      Status: REVIEWED

      Description
      Transcript Variant: This variant (alpha) represents the longer transcript and encodes the longer isoform (alpha).
      Source sequence(s)
      AC011904
      Consensus CDS
      CCDS5679.1
      UniProtKB/Swiss-Prot
      A4D298, Q75MK1, Q96F06, Q9C036, Q9C037
      UniProtKB/TrEMBL
      B3KS62
      Related
      ENSP00000348216.2, ENST00000355947.6
      Conserved Domains (3) summary
      cd00021
      Location:86123
      BBOX; B-Box-type zinc finger; zinc binding domain (CHC3H2); often present in combination with other motifs, like RING zinc finger, NHL motif, coiled-coil or RFP domain in functionally unrelated proteins, most likely mediating protein-protein interaction.
      pfam15227
      Location:1252
      zf-C3HC4_4; zinc finger of C3HC4-type, RING
      cd15809
      Location:305494
      SPRY_PRY_TRIM4; PRY/SPRY domain in tripartite motif-binding protein 4 (TRIM4), also known as RING finger protein 87 (RNF87)
    2. NM_033091.3NP_149082.1  E3 ubiquitin-protein ligase TRIM4 isoform beta

      See identical proteins and their annotated locations for NP_149082.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (beta) lacks an in-frame exon in the 5' coding region compared to variant alpha. The resulting protein (isoform beta) is shorter but has the same N- and C-termini compared to isoform alpha.
      Source sequence(s)
      AC011904
      Consensus CDS
      CCDS5678.1
      UniProtKB/TrEMBL
      B3KS62
      Related
      ENSP00000275736.4, ENST00000349062.7
      Conserved Domains (3) summary
      cd00021
      Location:86123
      BBOX; B-Box-type zinc finger; zinc binding domain (CHC3H2); often present in combination with other motifs, like RING zinc finger, NHL motif, coiled-coil or RFP domain in functionally unrelated proteins, most likely mediating protein-protein interaction.
      pfam15227
      Location:1252
      zf-C3HC4_4; zinc finger of C3HC4-type, RING
      cd15809
      Location:279468
      SPRY_PRY_TRIM4; PRY/SPRY domain in tripartite motif-binding protein 4 (TRIM4), also known as RING finger protein 87 (RNF87)

    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_000007.14 Reference GRCh38.p14 Primary Assembly

      Range
      99890403..99919530 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060931.1 Alternate T2T-CHM13v2.0

      Range
      101129904..101159031 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)