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    TRIM50 tripartite motif containing 50 [ Homo sapiens (human) ]

    Gene ID: 135892, updated on 3-Dec-2024

    Summary

    Official Symbol
    TRIM50provided by HGNC
    Official Full Name
    tripartite motif containing 50provided by HGNC
    Primary source
    HGNC:HGNC:19017
    See related
    Ensembl:ENSG00000146755 MIM:612548; AllianceGenome:HGNC:19017
    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
    TRIM50A
    Summary
    Enables identical protein binding activity. Predicted to be involved in protein ubiquitination. Predicted to act upstream of or within regulation of establishment of protein localization. Located in cytosol. [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Biased expression in stomach (RPKM 3.4), testis (RPKM 2.8) and 8 other tissues See more
    Orthologs
    NEW
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    Try the new Transcript table

    Genomic context

    See TRIM50 in Genome Data Viewer
    Location:
    7q11.23
    Exon count:
    8
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 7 NC_000007.14 (73312536..73328082, complement)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 7 NC_060931.1 (74512695..74528253, complement)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 7 NC_000007.13 (72726532..72742085, complement)

    Chromosome 7 - NC_000007.14Genomic Context describing neighboring genes Neighboring gene Williams-Beuren syndrome centromeric block B recombination region Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:72661597-72662585 Neighboring gene GTF2I repeat domain containing 2 pseudogene 1 Neighboring gene H3K27ac hESC enhancer GRCh37_chr7:72698447-72699037 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr7:72711681-72712181 Neighboring gene POM121 transmembrane nucleoporin B (pseudogene) Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:72732543-72733436 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:72733437-72734329 Neighboring gene NOP2/Sun RNA methyltransferase 5 Neighboring gene ribosomal protein L7a pseudogene 77 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr7:72756115-72757059 Neighboring gene RNA, U6 small nuclear 1080, pseudogene Neighboring gene FKBP prolyl isomerase family member 6 (inactive) Neighboring gene ATAC-STARR-seq lymphoblastoid active region 26121 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr7:72809718-72810218 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr7:72810219-72810719 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 26122 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 18246 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:72842892-72843613 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:72847927-72848800 Neighboring gene Sharpr-MPRA regulatory region 10074 Neighboring gene frizzled class receptor 9

    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
    Genome-wide analysis of polymorphisms associated with cytokine responses in smallpox vaccine recipients.
    EBI GWAS Catalog

    Pathways from PubChem

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Clone Names

    • FLJ32804, MGC138357, MGC138359

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables identical protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    enables 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 zinc ion binding IEA
    Inferred from Electronic Annotation
    more info
     
    Process Evidence Code Pubs
    involved_in innate immune response 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 cytosol IDA
    Inferred from Direct Assay
    more info
     

    General protein information

    Preferred Names
    E3 ubiquitin-protein ligase TRIM50
    Names
    RING-type E3 ubiquitin transferase TRIM50
    tripartite motif-containing 50A
    tripartite motif-containing protein 50
    NP_001268379.1
    NP_001268380.1
    NP_835226.2
    XP_011514089.1
    XP_011514090.1
    XP_011514091.2
    XP_047275836.1
    XP_054213203.1
    XP_054213204.1
    XP_054213205.1
    XP_054213206.1

    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_001281450.1NP_001268379.1  E3 ubiquitin-protein ligase TRIM50 isoform b

      See identical proteins and their annotated locations for NP_001268379.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (3) uses an alternate in-frame splice site, compared to variant 1. The encoded isoform (b) is shorter than isoform a.
      Source sequence(s)
      AI208986, AK057366, AY081948, BC143787, HY014417
      UniProtKB/TrEMBL
      B7ZLG2
      Conserved Domains (3) summary
      cd00021
      Location:90125
      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.
      cd13743
      Location:282468
      SPRY_PRY_TRIM50; PRY/SPRY domain in tripartite motif-binding protein 50 (TRIM50)
      cl17238
      Location:1656
      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 ...
    2. NM_001281451.1NP_001268380.1  E3 ubiquitin-protein ligase TRIM50 isoform a

      See identical proteins and their annotated locations for NP_001268380.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) differs in the 5' UTR, compared to variant 1. Variants 1 and 2 encode the same isoform (a).
      Source sequence(s)
      AI208986, AK292074, AY081948, DA045168, DA632418
      Consensus CDS
      CCDS34654.1
      UniProtKB/Swiss-Prot
      Q2M204, Q86XT3, Q86XT4
      Related
      ENSP00000413875.1, ENST00000453152.1
      Conserved Domains (3) summary
      cd00021
      Location:90125
      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.
      cd13743
      Location:283469
      SPRY_PRY_TRIM50; PRY/SPRY domain in tripartite motif-binding protein 50 (TRIM50)
      cd16605
      Location:1458
      RING-HC_TRIM50_like_C-IV; RING finger, HC subclass, found in tripartite motif-containing protein TRIM50, TRIM73, TRIM74 and similar proteins
    3. NM_178125.3NP_835226.2  E3 ubiquitin-protein ligase TRIM50 isoform a

      See identical proteins and their annotated locations for NP_835226.2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longest transcript and encodes the longer isoform (a). Variants 1 and 2 encode the same isoform (a).
      Source sequence(s)
      AI208986, AK057366, AY081948, BC112154, HY014417
      Consensus CDS
      CCDS34654.1
      UniProtKB/Swiss-Prot
      Q2M204, Q86XT3, Q86XT4
      Related
      ENSP00000327994.2, ENST00000333149.7
      Conserved Domains (3) summary
      cd00021
      Location:90125
      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.
      cd13743
      Location:283469
      SPRY_PRY_TRIM50; PRY/SPRY domain in tripartite motif-binding protein 50 (TRIM50)
      cd16605
      Location:1458
      RING-HC_TRIM50_like_C-IV; RING finger, HC subclass, found in tripartite motif-containing protein TRIM50, TRIM73, TRIM74 and similar proteins

    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_000007.14 Reference GRCh38.p14 Primary Assembly

      Range
      73312536..73328082 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_047419880.1XP_047275836.1  E3 ubiquitin-protein ligase TRIM50 isoform X3

    2. XM_011515788.3XP_011514090.1  E3 ubiquitin-protein ligase TRIM50 isoform X3

      Conserved Domains (1) summary
      cl02614
      Location:74260
      SPRY; SPRY domain
    3. XM_011515789.2XP_011514091.2  E3 ubiquitin-protein ligase TRIM50 isoform X1

      UniProtKB/TrEMBL
      B7ZLG2
      Conserved Domains (3) summary
      cd00021
      Location:90125
      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.
      cd13743
      Location:282468
      SPRY_PRY_TRIM50; PRY/SPRY domain in tripartite motif-binding protein 50 (TRIM50)
      cl17238
      Location:1656
      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 ...
    4. XM_011515787.2XP_011514089.1  E3 ubiquitin-protein ligase TRIM50 isoform X2

      UniProtKB/TrEMBL
      I3L0H3
      Conserved Domains (2) summary
      cd00021
      Location:90125
      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.
      cl17238
      Location:1656
      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 ...

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060931.1 Alternate T2T-CHM13v2.0

      Range
      74512695..74528253 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_054357231.1XP_054213206.1  E3 ubiquitin-protein ligase TRIM50 isoform X3

    2. XM_054357230.1XP_054213205.1  E3 ubiquitin-protein ligase TRIM50 isoform X3

    3. XM_054357228.1XP_054213203.1  E3 ubiquitin-protein ligase TRIM50 isoform X1

      UniProtKB/TrEMBL
      B7ZLG2
    4. XM_054357229.1XP_054213204.1  E3 ubiquitin-protein ligase TRIM50 isoform X2

      UniProtKB/TrEMBL
      I3L0H3