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    Trim3 tripartite motif-containing 3 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 83616, updated on 18-Sep-2024

    Summary

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    Official Symbol
    Trim3provided by RGD
    Official Full Name
    tripartite motif-containing 3provided by RGD
    Primary source
    RGD:70074
    See related
    EnsemblRapid:ENSRNOG00000018356 AllianceGenome:RGD:70074
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Also known as
    Berp; Rnf22
    Summary
    Predicted to enable identical protein binding activity and ubiquitin protein ligase activity. Predicted to be involved in proteasome-mediated ubiquitin-dependent protein catabolic process and protein polyubiquitination. Located in cytoplasm. Is active in glutamatergic synapse and postsynapse. Orthologous to human TRIM3 (tripartite motif containing 3). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Biased expression in Lung (RPKM 183.1), Brain (RPKM 146.0) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Trim3 in Genome Data Viewer
    Location:
    1q32
    Exon count:
    12
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 1 NC_086019.1 (169362751..169385430, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 1 NC_051336.1 (159950921..159973600, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 1 NC_005100.4 (170441662..170464341, complement)

    Chromosome 1 - NC_086019.1Genomic Context describing neighboring genes Neighboring gene amyloid beta precursor protein binding family B member 1 Neighboring gene uncharacterized LOC134483766 Neighboring gene hemopexin Neighboring gene ADP-ribosylation factor interacting protein 2 Neighboring gene translocase of inner mitochondrial membrane 10B

    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 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. Degradation of postsynaptic scaffold GKAP and regulation of dendritic spine morphology by the TRIM3 ubiquitin ligase in rat hippocampal neurons. Hung AY, et al. PLoS One, 2010 Mar 24. PMID 20352094, Free PMC Article
    2. Cloning and characterization of a novel RING finger protein that interacts with class V myosins. El-Husseini AE, et al. J Biol Chem, 1999 Jul 9. PMID 10391919
    3. Involvement of myosin Vb in glutamate receptor trafficking. Lisé MF, et al. J Biol Chem, 2006 Feb 10. PMID 16338934
    4. BERP, a novel ring finger protein, binds to alpha-actinin-4. El-Husseini AE, et al. Biochem Biophys Res Commun, 2000 Jan 27. PMID 10673389
    5. The ability of TRIM3 to induce growth arrest depends on RING-dependent E3 ligase activity. Raheja R, et al. Biochem J, 2014 Mar 15. PMID 24393003, Free PMC Article

    See all (10) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. postsynaptic scaffold GKAP is degraded and dendritic spine morphology is regulated by the TRIM3 ubiquitin ligase in rat hippocampal neurons
      Title: Degradation of postsynaptic scaffold GKAP and regulation of dendritic spine morphology by the TRIM3 ubiquitin ligase in rat hippocampal neurons.
    Submit: New GeneRIF Correction

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables identical protein binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables identical protein binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    enables translation repressor activity 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 IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables ubiquitin protein ligase activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables ubiquitin-protein transferase 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 negative regulation of translation IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in neural precursor cell proliferation IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in neural precursor cell proliferation ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in positive regulation of toll-like receptor 3 signaling pathway IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in positive regulation of toll-like receptor 3 signaling pathway ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in proteasome-mediated ubiquitin-dependent protein catabolic process IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in protein K63-linked ubiquitination IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in protein K63-linked ubiquitination ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in protein polyubiquitination IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in protein transport IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in protein ubiquitination ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in regulation protein catabolic process at postsynapse IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in regulation protein catabolic process at postsynapse IEP
    Inferred from Expression Pattern
    more info
    		 PubMed 
    involved_in regulation protein catabolic process at postsynapse IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in Golgi apparatus IEA
    Inferred from Electronic Annotation
    more info
    		  
    is_active_in Golgi apparatus ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in cytoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in dendrite IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in early endosome IEA
    Inferred from Electronic Annotation
    more info
    		  
    is_active_in glutamatergic synapse IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    is_active_in glutamatergic synapse IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    is_active_in postsynapse IDA
    Inferred from Direct Assay
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    tripartite motif-containing protein 3
    Names
    brain-expressed RING finger protein
    ring finger protein 22
    tripartite motif protein 3
    NP_113974.2
    XP_038948510.1
    XP_038948512.1
    XP_038948513.1
    XP_038948514.1
    XP_063131651.1

    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_031786.2 → NP_113974.2  tripartite motif-containing protein 3

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000001
      UniProtKB/Swiss-Prot
      O70277
      UniProtKB/TrEMBL
      A6I7K0, G3V8D6
      Related
      ENSRNOP00000084221.1, ENSRNOT00000114170.2
      Conserved Domains (5) summary
      smart00502
      Location:158 → 284
      BBC; B-Box C-terminal domain
      smart00557
      Location:322 → 419
      IG_FLMN; Filamin-type immunoglobulin domains
      cd14960
      Location:471 → 744
      NHL_TRIM2_like; NHL repeat domain of the tripartite motif-containing protein 2 (TRIM2) and related proteins
      cd16768
      Location:19 → 63
      RING-HC_TRIM3; RING finger, HC subclass, found in tripartite motif-containing protein 3 (TRIM3)
      cd19825
      Location:107 → 153
      Bbox2_TRIM3_C-VII; B-box-type 2 zinc finger found in tripartite motif-containing protein 3 (TRIM3)

    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_086019.1 Reference GRCr8

      Range
      169362751..169385430 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_039092582.2 → XP_038948510.1  tripartite motif-containing protein 3 isoform X1

      UniProtKB/Swiss-Prot
      O70277
      Related
      ENSRNOP00000024850.4, ENSRNOT00000024850.7
      Conserved Domains (5) summary
      smart00502
      Location:164 → 290
      BBC; B-Box C-terminal domain
      smart00557
      Location:328 → 425
      IG_FLMN; Filamin-type immunoglobulin domains
      cd14960
      Location:477 → 750
      NHL_TRIM2_like; NHL repeat domain of the tripartite motif-containing protein 2 (TRIM2) and related proteins
      cd16768
      Location:19 → 63
      RING-HC_TRIM3; RING finger, HC subclass, found in tripartite motif-containing protein 3 (TRIM3)
      cl00034
      Location:107 → 159
      Bbox_SF; B-box-type zinc finger superfamily

    2. XM_039092584.2 → XP_038948512.1  tripartite motif-containing protein 3 isoform X1

      UniProtKB/Swiss-Prot
      O70277
      Conserved Domains (5) summary
      smart00502
      Location:164 → 290
      BBC; B-Box C-terminal domain
      smart00557
      Location:328 → 425
      IG_FLMN; Filamin-type immunoglobulin domains
      cd14960
      Location:477 → 750
      NHL_TRIM2_like; NHL repeat domain of the tripartite motif-containing protein 2 (TRIM2) and related proteins
      cd16768
      Location:19 → 63
      RING-HC_TRIM3; RING finger, HC subclass, found in tripartite motif-containing protein 3 (TRIM3)
      cl00034
      Location:107 → 159
      Bbox_SF; B-box-type zinc finger superfamily

    3. XM_063275581.1 → XP_063131651.1  tripartite motif-containing protein 3 isoform X2

      UniProtKB/Swiss-Prot
      O70277
      UniProtKB/TrEMBL
      A6I7K0, G3V8D6

    4. XM_039092585.2 → XP_038948513.1  tripartite motif-containing protein 3 isoform X1

      UniProtKB/Swiss-Prot
      O70277
      Conserved Domains (5) summary
      smart00502
      Location:164 → 290
      BBC; B-Box C-terminal domain
      smart00557
      Location:328 → 425
      IG_FLMN; Filamin-type immunoglobulin domains
      cd14960
      Location:477 → 750
      NHL_TRIM2_like; NHL repeat domain of the tripartite motif-containing protein 2 (TRIM2) and related proteins
      cd16768
      Location:19 → 63
      RING-HC_TRIM3; RING finger, HC subclass, found in tripartite motif-containing protein 3 (TRIM3)
      cl00034
      Location:107 → 159
      Bbox_SF; B-box-type zinc finger superfamily

    5. XM_039092586.2 → XP_038948514.1  tripartite motif-containing protein 3 isoform X3

      UniProtKB/Swiss-Prot
      O70277
      Conserved Domains (4) summary
      smart00502
      Location:63 → 189
      BBC; B-Box C-terminal domain
      smart00557
      Location:227 → 324
      IG_FLMN; Filamin-type immunoglobulin domains
      cd14960
      Location:376 → 649
      NHL_TRIM2_like; NHL repeat domain of the tripartite motif-containing protein 2 (TRIM2) and related proteins
      cl00034
      Location:26 → 58
      Bbox_SF; B-box-type zinc finger superfamily
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    O70277.1 GenPept UniProtKB/Swiss-Prot:O70277

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