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

Gene ID: 135892, updated on 4-May-2020

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
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
Expression
Biased expression in stomach (RPKM 3.4), testis (RPKM 2.8) and 8 other tissues See more
Orthologs

Genomic context

See TRIM50 in Genome Data Viewer
Location:
7q11.23
Exon count:
8
Annotation release Status Assembly Chr Location
109.20200228 current GRCh38.p13 (GCF_000001405.39) 7 NC_000007.14 (73312536..73328082, complement)
105 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 GTF2I repeat domain containing 2 pseudogene 1 Neighboring gene POM121 transmembrane nucleoporin B (pseudogene) Neighboring gene NOP2/Sun RNA methyltransferase 5 Neighboring gene RNA, U6 small nuclear 1080, pseudogene Neighboring gene FKBP prolyl isomerase 6 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

NHGRI GWAS Catalog

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

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Clone Names

  • FLJ32804, MGC138357, MGC138359

Gene Ontology Provided by GOA

Function Evidence Code Pubs
identical protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
transferase activity IEA
Inferred from Electronic Annotation
more info
 
ubiquitin protein ligase activity IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
zinc ion binding IEA
Inferred from Electronic Annotation
more info
 
Process Evidence Code Pubs
protein ubiquitination IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
regulation of establishment of protein localization IEA
Inferred from Electronic Annotation
more info
 
Component Evidence Code Pubs
aggresome IEA
Inferred from Electronic Annotation
more info
 
cytoplasm IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
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

NCBI Reference Sequences (RefSeq)

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/Swiss-Prot
    Q86XT4
    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
    Q86XT4
    UniProtKB/TrEMBL
    Q2M204
    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
    Q86XT4
    UniProtKB/TrEMBL
    Q2M204
    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: Homo sapiens Updated Annotation Release 109.

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000007.14 Reference GRCh38.p13 Primary Assembly

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

mRNA and Protein(s)

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

    Conserved Domains (1) summary
    cl02614
    Location:74260
    SPRY; SPRY domain
  2. 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 ...
  3. XM_011515787.1XP_011514089.1  E3 ubiquitin-protein ligase TRIM50 isoform X2

    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 ...
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