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

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

Summary

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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, Apr 2022]
Expression
Biased expression in stomach (RPKM 3.4), testis (RPKM 2.8) and 8 other tissues See more
Orthologs
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Genomic context

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Location:
7q11.23
Exon count:
8
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 7 NC_000007.14 (73312536..73328082, complement)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 7 NC_060931.1 (74512695..74528253, complement)
105.20220307 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

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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. TRIM50 Suppresses Pancreatic Cancer Progression and Reverses the Epithelial-Mesenchymal Transition via Facilitating the Ubiquitous Degradation of Snail1. Li R, et al. Front Oncol, 2021. PMID 34568024, Free PMC Article
  2. TRIM50 suppressed hepatocarcinoma progression through directly targeting SNAIL for ubiquitous degradation. Ma X, et al. Cell Death Dis, 2018 May 22. PMID 29789583, Free PMC Article
  3. TRIM50 acts as a novel Src suppressor and inhibits ovarian cancer progression. Qiu Y, et al. Biochim Biophys Acta Mol Cell Res, 2019 Sep. PMID 31176697
  4. Gene structure variation in segmental duplication block C of human chromosome 7q 11.23 during primate evolution. Kim YJ, et al. Gene, 2015 Dec 1. PMID 26196062
  5. HDAC6 mediates the acetylation of TRIM50. Fusco C, et al. Cell Signal, 2014 Feb. PMID 24308962

See all (21) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. TRIM50 Inhibits Gastric Cancer Progression by Regulating the Ubiquitination and Nuclear Translocation of JUP.
    Title: TRIM50 Inhibits Gastric Cancer Progression by Regulating the Ubiquitination and Nuclear Translocation of JUP.
  2. TRIM50 acted as a tumor suppressor in hepatocarcinoma cells by directly targeting SNAIL and reversing epithelial-to-mesenchymal transition.
    Title: TRIM50 suppressed hepatocarcinoma progression through directly targeting SNAIL for ubiquitous degradation.
  3. TRIM50, via the RING domain, ubiquitinates Beclin 1 in a K63-dependent manner enhancing its binding with ULK1 and autophagy activity.
    Title: TRIM50 regulates Beclin 1 proautophagic activity.
  4. TRIM50 K372 residue competes for post-translational protein modifications such as acetylation and ubiquitination.
    Title: HDAC6 mediates the acetylation of TRIM50.
  5. When the proteasome activity is impaired, TRIM50 fails to drive its substrates to the proteasome-mediated degradation.
    Title: The E3-ubiquitin ligase TRIM50 interacts with HDAC6 and p62, and promotes the sequestration and clearance of ubiquitinated proteins into the aggresome.
  6. Encodes an E3 ubiquitin ligase; putatively involved in phenotype determination of Williams-Beuren syndrome.
    Title: Williams-Beuren syndrome TRIM50 encodes an E3 ubiquitin ligase.
Submit: New GeneRIF Correction

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

EBI GWAS Catalog

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

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

  • 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 protein ubiquitination 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

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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)

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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_001281450.1 → NP_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:90 → 125
    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:282 → 468
    SPRY_PRY_TRIM50; PRY/SPRY domain in tripartite motif-binding protein 50 (TRIM50)
    cl17238
    Location:16 → 56
    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_001281451.1 → NP_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:90 → 125
    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:283 → 469
    SPRY_PRY_TRIM50; PRY/SPRY domain in tripartite motif-binding protein 50 (TRIM50)
    cd16605
    Location:14 → 58
    RING-HC_TRIM50_like_C-IV; RING finger, HC subclass, found in tripartite motif-containing protein TRIM50, TRIM73, TRIM74 and similar proteins

  3. NM_178125.3 → NP_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:90 → 125
    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:283 → 469
    SPRY_PRY_TRIM50; PRY/SPRY domain in tripartite motif-binding protein 50 (TRIM50)
    cd16605
    Location:14 → 58
    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_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
    73312536..73328082 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

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

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

    Conserved Domains (1) summary
    cl02614
    Location:74 → 260
    SPRY; SPRY domain

  3. XM_011515789.2 → XP_011514091.2  E3 ubiquitin-protein ligase TRIM50 isoform X1

    UniProtKB/TrEMBL
    B7ZLG2
    Conserved Domains (3) summary
    cd00021
    Location:90 → 125
    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:282 → 468
    SPRY_PRY_TRIM50; PRY/SPRY domain in tripartite motif-binding protein 50 (TRIM50)
    cl17238
    Location:16 → 56
    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_011515787.2 → XP_011514089.1  E3 ubiquitin-protein ligase TRIM50 isoform X2

    UniProtKB/TrEMBL
    I3L0H3
    Conserved Domains (2) summary
    cd00021
    Location:90 → 125
    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:16 → 56
    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_054357231.1 → XP_054213206.1  E3 ubiquitin-protein ligase TRIM50 isoform X3

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

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

    UniProtKB/TrEMBL
    B7ZLG2

  4. XM_054357229.1 → XP_054213204.1  E3 ubiquitin-protein ligase TRIM50 isoform X2

Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q86XT4.2 GenPept UniProtKB/Swiss-Prot:Q86XT4

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