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    TRAF5 TNF receptor associated factor 5 [ Homo sapiens (human) ]

    Gene ID: 7188, updated on 9-Dec-2024

    Summary

    Official Symbol
    TRAF5provided by HGNC
    Official Full Name
    TNF receptor associated factor 5provided by HGNC
    Primary source
    HGNC:HGNC:12035
    See related
    Ensembl:ENSG00000082512 MIM:602356; AllianceGenome:HGNC:12035
    Gene type
    protein coding
    RefSeq status
    REVIEWED
    Organism
    Homo sapiens
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
    Also known as
    RNF84; MGC:39780
    Summary
    The scaffold protein encoded by this gene is a member of the tumor necrosis factor receptor-associated factor (TRAF) protein family and contains a meprin and TRAF homology (MATH) domain, a RING-type zinc finger, and two TRAF-type zinc fingers. TRAF proteins are associated with, and mediate signal transduction from members of the TNF receptor superfamily. This protein is one of the components of a multiple protein complex which binds to tumor necrosis factor (TNF) receptor cytoplasmic domains and mediates TNF-induced activation. Multiple transcript variants encoding different isoforms have been found for this gene. [provided by RefSeq, Jan 2016]
    Expression
    Broad expression in lymph node (RPKM 13.9), appendix (RPKM 8.7) and 24 other tissues See more
    Orthologs
    NEW
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    Try the new Transcript table

    Genomic context

    See TRAF5 in Genome Data Viewer
    Location:
    1q32.3
    Exon count:
    13
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 1 NC_000001.11 (211326635..211374946)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 1 NC_060925.1 (210572246..210620555)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 1 NC_000001.10 (211499977..211548288)

    Chromosome 1 - NC_000001.11Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC105372902 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 2482 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:211431921-211432422 Neighboring gene H3K27ac hESC enhancer GRCh37_chr1:211432925-211433424 Neighboring gene REST corepressor 3 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:211498879-211499380 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 2483 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 1784 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 2484 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 1785 Neighboring gene uncharacterized LOC124904504 Neighboring gene NANOG-H3K4me1 hESC enhancer GRCh37_chr1:211550792-211551568 Neighboring gene uncharacterized LOC107985259 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 2485 Neighboring gene long intergenic non-protein coding RNA 467

    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?

    HIV-1 interactions

    Protein interactions

    Protein Gene Interaction Pubs
    Envelope surface glycoprotein gp120 env Up-regulation of apoptosis genes such as caspase 1, NALP1, and TNF receptor-associated factor 5 are induced by HIV-gp120/ethanol in human neurons PubMed
    Nef nef The interaction of HIV-1 Nef with TRAF2, TRAF5, and TRAF6 proteins activates NF-kappaB, leading to the degradation of IkappaB-alpha and the increased phosphorylation of IKK-alpha and IKK-beta in monocyte-derived macrophages PubMed
    nef HIV-1 Nef interacts with TRAF2, TRAF5, and TRAF6 proteins via its C-terminal region (residues 55-206) in monocyte-derived macrophages PubMed

    Go to the HIV-1, Human Interaction Database

    Pathways from PubChem

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables identical protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    enables signaling adaptor activity IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    enables thioesterase binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    enables tumor necrosis factor receptor binding IEA
    Inferred from Electronic Annotation
    more info
     
    enables ubiquitin protein ligase activity IDA
    Inferred from Direct Assay
    more info
    PubMed 
    enables ubiquitin protein ligase binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    enables zinc ion binding IEA
    Inferred from Electronic Annotation
    more info
     
    Component Evidence Code Pubs
    part_of CD40 receptor complex ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    located_in centrosome IDA
    Inferred from Direct Assay
    more info
    PubMed 
    is_active_in cytoplasm IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    is_active_in cytoplasm IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in cytoplasmic side of plasma membrane ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    located_in cytosol IDA
    Inferred from Direct Assay
    more info
    PubMed 
    part_of plasma membrane signaling receptor complex IBA
    Inferred from Biological aspect of Ancestor
    more info
     

    General protein information

    Preferred Names
    TNF receptor-associated factor 5
    Names
    RING finger protein 84

    NCBI Reference Sequences (RefSeq)

    NEW Try the new Transcript table

    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_001033910.3NP_001029082.1  TNF receptor-associated factor 5 isoform b

      See identical proteins and their annotated locations for NP_001029082.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (3) uses an alternate in-frame splice junction compared to variant 4. The resulting isoform (b) has the same N- and C-termini but is shorter compared to isoform a. Variants 1, 2, and 3 all encode the same isoform (b).
      Source sequence(s)
      AB000509, BU676629, DB290838, U69108
      Consensus CDS
      CCDS1497.1
      UniProtKB/Swiss-Prot
      B4DIS9, B4E0A2, O00463, Q6FHY1
      Related
      ENSP00000261464.5, ENST00000261464.10
      Conserved Domains (3) summary
      smart00184
      Location:4581
      RING; Ring finger
      pfam02176
      Location:183241
      zf-TRAF; TRAF-type zinc finger
      cl02446
      Location:404550
      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 ...
    2. NM_001319207.2NP_001306136.1  TNF receptor-associated factor 5 isoform a

      Status: REVIEWED

      Description
      Transcript Variant: This variant (4) represents the longest transcript and encodes the longer isoform (a).
      Source sequence(s)
      AB000509, AK303286, AL590101, GD146999
      Conserved Domains (3) summary
      smart00184
      Location:4581
      RING; Ring finger
      pfam02176
      Location:194252
      zf-TRAF; TRAF-type zinc finger
      cl02446
      Location:415561
      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 ...
    3. NM_004619.4NP_004610.1  TNF receptor-associated factor 5 isoform b

      See identical proteins and their annotated locations for NP_004610.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (1) differs in the 5' UTR and uses an alternate in-frame splice junction compared to variant 4. The resulting isoform (b) has the same N- and C-termini but is shorter compared to isoform a. Variants 1, 2, and 3 all encode the same isoform (b).
      Source sequence(s)
      AB000509, BU676629, DB218840, U69108
      Consensus CDS
      CCDS1497.1
      UniProtKB/Swiss-Prot
      B4DIS9, B4E0A2, O00463, Q6FHY1
      Related
      ENSP00000336825.2, ENST00000336184.6
      Conserved Domains (3) summary
      smart00184
      Location:4581
      RING; Ring finger
      pfam02176
      Location:183241
      zf-TRAF; TRAF-type zinc finger
      cl02446
      Location:404550
      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 ...
    4. NM_145759.3NP_665702.1  TNF receptor-associated factor 5 isoform b

      See identical proteins and their annotated locations for NP_665702.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (2) differs in the 5' UTR and uses an alternate in-frame splice junction compared to variant 4. The resulting isoform (b) has the same N- and C-termini but is shorter compared to isoform a. Variants 1, 2, and 3 all encode the same isoform (b).
      Source sequence(s)
      AB000509, BC029600, BU676629, U69108
      Consensus CDS
      CCDS1497.1
      UniProtKB/Swiss-Prot
      B4DIS9, B4E0A2, O00463, Q6FHY1
      Related
      ENSP00000355971.3, ENST00000367004.3
      Conserved Domains (3) summary
      smart00184
      Location:4581
      RING; Ring finger
      pfam02176
      Location:183241
      zf-TRAF; TRAF-type zinc finger
      cl02446
      Location:404550
      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 ...

    RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2024_08

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

    Reference GRCh38.p14 Primary Assembly

    Genomic

    1. NC_000001.11 Reference GRCh38.p14 Primary Assembly

      Range
      211326635..211374946
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_011509960.4XP_011508262.1  TNF receptor-associated factor 5 isoform X2

      See identical proteins and their annotated locations for XP_011508262.1

      Conserved Domains (3) summary
      smart00184
      Location:4581
      RING; Ring finger
      pfam02176
      Location:194252
      zf-TRAF; TRAF-type zinc finger
      cl02446
      Location:415561
      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 ...
    2. XM_011509957.4XP_011508259.2  TNF receptor-associated factor 5 isoform X1

    3. XM_047429574.1XP_047285530.1  TNF receptor-associated factor 5 isoform X3

    4. XM_047429572.1XP_047285528.1  TNF receptor-associated factor 5 isoform X3

    5. XM_011509959.4XP_011508261.1  TNF receptor-associated factor 5 isoform X2

      See identical proteins and their annotated locations for XP_011508261.1

      Conserved Domains (3) summary
      smart00184
      Location:4581
      RING; Ring finger
      pfam02176
      Location:194252
      zf-TRAF; TRAF-type zinc finger
      cl02446
      Location:415561
      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 ...

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060925.1 Alternate T2T-CHM13v2.0

      Range
      210572246..210620555
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)