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    Trim58 tripartite motif-containing 58 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 303167, updated on 13-Apr-2024

    Summary

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    Official Symbol
    Trim58provided by RGD
    Official Full Name
    tripartite motif-containing 58provided by RGD
    Primary source
    RGD:1566174
    See related
    Ensembl:ENSRNOG00000026430 AllianceGenome:RGD:1566174
    Gene type
    protein coding
    RefSeq status
    PROVISIONAL
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Also known as
    RGD1566174
    Summary
    Predicted to enable dynein heavy chain binding activity; dynein intermediate chain binding activity; and ubiquitin protein ligase activity. Predicted to be involved in several processes, including positive regulation of erythrocyte enucleation; protein ubiquitination; and regulation of nuclear migration along microtubule. Predicted to be active in cytoplasm. Orthologous to human TRIM58 (tripartite motif containing 58). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Restricted expression toward (RPKM 137.0) See more
    Orthologs
    human mouse all
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    Genomic context

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    See Trim58 in Genome Data Viewer
    Location:
    10q22
    Exon count:
    9
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 10 NC_086028.1 (43523341..43536435)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 10 NC_051345.1 (43022933..43038984)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 10 NC_005109.4 (44271587..44282726)

    Chromosome 10 - NC_086028.1Genomic Context describing neighboring genes Neighboring gene LY6/PLAUR domain containing 8 like 2 Neighboring gene olfactory receptor family 11 subfamily L member 3 Neighboring gene olfactory receptor 1433 Neighboring gene olfactory receptor family 2 subfamily AK member 6E

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
    • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
    • BioProject: PRJNA238328
    • Publication: PMID 24510058
    • Analysis date: Mon Jun 6 17:44:12 2016

    Bibliography

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    Related articles in PubMed

    1. Trim58 degrades Dynein and regulates terminal erythropoiesis. Thom CS, et al. Dev Cell, 2014 Sep 29. PMID 25241935, Free PMC Article
    2. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article

    GeneRIFs: Gene References Into Functions

    General gene information

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    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables dynein heavy chain binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables dynein intermediate chain binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    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 ubiquitin protein ligase activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables ubiquitin protein ligase activity ISO
    Inferred from Sequence Orthology
    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
    		  
    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 erythrocyte enucleation ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in protein autoubiquitination ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in protein polyubiquitination IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in protein polyubiquitination ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in regulation of nuclear migration along microtubule ISO
    Inferred from Sequence Orthology
    more info
    		  
    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 ubiquitin-dependent protein catabolic process ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    is_active_in cytoplasm IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    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

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    Preferred Names
    E3 ubiquitin-protein ligase TRIM58
    Names
    tripartite motif-containing protein 58
    NP_001178570.1
    XP_038941874.1
    XP_038941875.1
    XP_038941876.1

    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_001191641.1 → NP_001178570.1  E3 ubiquitin-protein ligase TRIM58

      Status: PROVISIONAL

      Source sequence(s)
      JAXUCZ010000010
      UniProtKB/TrEMBL
      D3ZYF5
      Related
      ENSRNOP00000049077.2, ENSRNOT00000047700.3
      Conserved Domains (3) summary
      smart00336
      Location:90 → 131
      BBOX; B-Box-type zinc finger
      pfam15227
      Location:15 → 58
      zf-C3HC4_4; zinc finger of C3HC4-type, RING
      cd15816
      Location:291 → 458
      SPRY_PRY_TRIM58; PRY/SPRY domain in tripartite motif-binding protein 58 (TRIM58), also known as BIA2

    RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

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

    Reference GRCr8

    Genomic

    1. NC_086028.1 Reference GRCr8

      Range
      43523341..43536435
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_039085946.1 → XP_038941874.1  E3 ubiquitin-protein ligase TRIM58 isoform X1

      Conserved Domains (4) summary
      cd00162
      Location:15 → 58
      RING_Ubox; RING-HC finger (C3HC4-type) [structural motif]
      pfam17380
      Location:132 → 224
      DUF5401; Family of unknown function (DUF5401)
      cd19780
      Location:91 → 134
      Bbox2_TRIM39-like; B-box-type 2 zinc finger found in tripartite motif-containing proteins TRIM39, TRIM58 and similar proteins
      cl17238
      Location:12 → 61
      RING_Ubox; The superfamily of RING finger (Really Interesting New Gene) domain and U-box domain

    2. XM_039085947.2 → XP_038941875.1  E3 ubiquitin-protein ligase TRIM58 isoform X2

      Conserved Domains (4) summary
      cd00162
      Location:15 → 58
      RING_Ubox; RING-HC finger (C3HC4-type) [structural motif]
      pfam17380
      Location:132 → 224
      DUF5401; Family of unknown function (DUF5401)
      cd19780
      Location:91 → 134
      Bbox2_TRIM39-like; B-box-type 2 zinc finger found in tripartite motif-containing proteins TRIM39, TRIM58 and similar proteins
      cl17238
      Location:12 → 61
      RING_Ubox; The superfamily of RING finger (Really Interesting New Gene) domain and U-box domain

    3. XM_039085948.2 → XP_038941876.1  E3 ubiquitin-protein ligase TRIM58 isoform X3

      Conserved Domains (4) summary
      cd00162
      Location:15 → 58
      RING_Ubox; RING-HC finger (C3HC4-type) [structural motif]
      pfam17380
      Location:132 → 224
      DUF5401; Family of unknown function (DUF5401)
      cd19780
      Location:91 → 134
      Bbox2_TRIM39-like; B-box-type 2 zinc finger found in tripartite motif-containing proteins TRIM39, TRIM58 and similar proteins
      cl17238
      Location:12 → 61
      RING_Ubox; The superfamily of RING finger (Really Interesting New Gene) domain and U-box domain

    RNA

    1. XR_005489809.2 RNA Sequence

    2. XR_005489810.2 RNA Sequence

    3. XR_005489808.2 RNA Sequence

    Nucleotide Protein Strain
    Heading Accession and Version

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