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    Traf5 TNF receptor-associated factor 5 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 684173, updated on 3-Apr-2024

    Summary

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    Official Symbol
    Traf5provided by RGD
    Official Full Name
    TNF receptor-associated factor 5provided by RGD
    Primary source
    RGD:1593883
    See related
    Ensembl:ENSRNOG00000047957 AllianceGenome:RGD:1593883
    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
    Summary
    Predicted to enable identical protein binding activity; thioesterase binding activity; and ubiquitin protein ligase binding activity. Predicted to be involved in interleukin-17-mediated signaling pathway; positive regulation of I-kappaB kinase/NF-kappaB signaling; and regulation of gene expression. Predicted to act upstream of or within positive regulation of cell population proliferation and signal transduction. Predicted to be located in centrosome; cytoplasmic side of plasma membrane; and cytosol. Predicted to be part of CD40 receptor complex. Orthologous to human TRAF5 (TNF receptor associated factor 5). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Biased expression in Spleen (RPKM 89.0), Lung (RPKM 65.9) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Traf5 in Genome Data Viewer
    Location:
    13q27
    Exon count:
    13
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 13 NC_086031.1 (106100921..106149724, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 13 NC_051348.1 (103569944..103618747, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 13 NC_005112.4 (110758556..110801871, complement)

    Chromosome 13 - NC_086031.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC120096357 Neighboring gene RD3 regulator of GUCY2D Neighboring gene REST corepressor 3 Neighboring gene uncharacterized LOC102546453

    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. Spatiotemporal patterns and essential role of TNF receptor-associated factor 5 expression after rat spinal cord Injury. Huan W, et al. J Mol Histol, 2012 Oct. PMID 22484641
    2. Targeted disruption of Traf5 gene causes defects in CD40- and CD27-mediated lymphocyte activation. Nakano H, et al. Proc Natl Acad Sci U S A, 1999 Aug 17. PMID 10449775, Free PMC Article
    3. TRAF family proteins link PKR with NF-kappa B activation. Gil J, et al. Mol Cell Biol, 2004 May. PMID 15121867, Free PMC Article
    4. TAK1-dependent activation of AP-1 and c-Jun N-terminal kinase by receptor activator of NF-kappaB. Lee SW, et al. J Biochem Mol Biol, 2002 Jul 31. PMID 12296995
    5. A diverse family of proteins containing tumor necrosis factor receptor-associated factor domains. Zapata JM, et al. J Biol Chem, 2001 Jun 29. PMID 11279055

    See all (11) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Our data suggested that TRAF5 might play important roles in CNS pathophysiology after spinal cord injury .
      Title: Spatiotemporal patterns and essential role of TNF receptor-associated factor 5 expression after rat spinal cord Injury.
    Submit: New GeneRIF Correction

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables identical protein binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables thioesterase binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables tumor necrosis factor receptor binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables ubiquitin protein ligase binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables zinc ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    involved_in interleukin-17-mediated signaling pathway ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in mRNA stabilization ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in positive regulation of canonical NF-kappaB signal transduction ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within positive regulation of cell population proliferation ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in regulation of apoptotic process IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within signal transduction ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in signal transduction involved in regulation of gene expression ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    part_of CD40 receptor complex ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in centrosome ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in cytoplasmic side of plasma membrane ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in cytosol ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    TNF receptor-associated factor 5

    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_001398701.1 → NP_001385630.1  TNF receptor-associated factor 5

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000013
      UniProtKB/TrEMBL
      A0A8I6AR28
      Conserved Domains (5) summary
      COG1196
      Location:230 → 420
      Smc; Chromosome segregation ATPase [Cell cycle control, cell division, chromosome partitioning]
      pfam02176
      Location:128 → 183
      zf-TRAF; TRAF-type zinc finger
      cd16642
      Location:43 → 85
      mRING-HC-C3HC3D_TRAF5; Modified RING finger, HC subclass (C3HC3D-type), found in tumor necrosis factor (TNF) receptor-associated factor 5 (TRAF5) and similar proteins
      cl02446
      Location:404 → 551
      MATH; MATH (meprin and TRAF-C homology) domain; an independent folding unit with an eight-stranded beta-sandwich structure found in meprins, TRAFs and other proteins. Meprins comprise a class of extracellular metalloproteases which are anchored to the membrane ...
      cl40617
      Location:185 → 241
      zf-TRAF; TRAF-type zinc finger

    2. NM_001398702.1 → NP_001385631.1  TNF receptor-associated factor 5

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000013
      UniProtKB/TrEMBL
      A0A8I6AR28
      Related
      ENSRNOP00000096919.1, ENSRNOT00000110424.1
      Conserved Domains (5) summary
      COG1196
      Location:230 → 420
      Smc; Chromosome segregation ATPase [Cell cycle control, cell division, chromosome partitioning]
      pfam02176
      Location:128 → 183
      zf-TRAF; TRAF-type zinc finger
      cd16642
      Location:43 → 85
      mRING-HC-C3HC3D_TRAF5; Modified RING finger, HC subclass (C3HC3D-type), found in tumor necrosis factor (TNF) receptor-associated factor 5 (TRAF5) and similar proteins
      cl02446
      Location:404 → 551
      MATH; MATH (meprin and TRAF-C homology) domain; an independent folding unit with an eight-stranded beta-sandwich structure found in meprins, TRAFs and other proteins. Meprins comprise a class of extracellular metalloproteases which are anchored to the membrane ...
      cl40617
      Location:185 → 241
      zf-TRAF; TRAF-type zinc finger

    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_086031.1 Reference GRCr8

      Range
      106100921..106149724 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_039091512.2 → XP_038947440.1  TNF receptor-associated factor 5 isoform X1

      UniProtKB/TrEMBL
      A0A8I6AR28, M0R7W8
      Conserved Domains (5) summary
      COG1196
      Location:230 → 420
      Smc; Chromosome segregation ATPase [Cell cycle control, cell division, chromosome partitioning]
      pfam02176
      Location:128 → 183
      zf-TRAF; TRAF-type zinc finger
      cd16642
      Location:43 → 85
      mRING-HC-C3HC3D_TRAF5; Modified RING finger, HC subclass (C3HC3D-type), found in tumor necrosis factor (TNF) receptor-associated factor 5 (TRAF5) and similar proteins
      cl02446
      Location:404 → 551
      MATH; MATH (meprin and TRAF-C homology) domain; an independent folding unit with an eight-stranded beta-sandwich structure found in meprins, TRAFs and other proteins. Meprins comprise a class of extracellular metalloproteases which are anchored to the membrane ...
      cl40617
      Location:185 → 241
      zf-TRAF; TRAF-type zinc finger

    2. XM_039091513.2 → XP_038947441.1  TNF receptor-associated factor 5 isoform X1

      UniProtKB/TrEMBL
      A0A8I6AR28, M0R7W8
      Conserved Domains (5) summary
      COG1196
      Location:230 → 420
      Smc; Chromosome segregation ATPase [Cell cycle control, cell division, chromosome partitioning]
      pfam02176
      Location:128 → 183
      zf-TRAF; TRAF-type zinc finger
      cd16642
      Location:43 → 85
      mRING-HC-C3HC3D_TRAF5; Modified RING finger, HC subclass (C3HC3D-type), found in tumor necrosis factor (TNF) receptor-associated factor 5 (TRAF5) and similar proteins
      cl02446
      Location:404 → 551
      MATH; MATH (meprin and TRAF-C homology) domain; an independent folding unit with an eight-stranded beta-sandwich structure found in meprins, TRAFs and other proteins. Meprins comprise a class of extracellular metalloproteases which are anchored to the membrane ...
      cl40617
      Location:185 → 241
      zf-TRAF; TRAF-type zinc finger
    Nucleotide Protein Strain
    Heading Accession and Version

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