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

Gene ID: 83616, updated on 2-May-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
Ensembl: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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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
  • 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 transferase activity IEA
Inferred from Electronic Annotation
more info
  
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 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
    ENSRNOP00000024850.3, ENSRNOT00000024850.6
    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
    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/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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