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TRAF3 TNF receptor associated factor 3 [ Homo sapiens (human) ]

Gene ID: 7187, updated on 5-Jul-2020

Summary

Official Symbol
TRAF3provided by HGNC
Official Full Name
TNF receptor associated factor 3provided by HGNC
Primary source
HGNC:HGNC:12033
See related
Ensembl:ENSG00000131323 MIM:601896
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
CAP1; LAP1; CAP-1; CRAF1; IIAE5; CD40bp; RNF118
Summary
The protein encoded by this gene is a member of the TNF receptor associated factor (TRAF) protein family. TRAF proteins associate with, and mediate the signal transduction from, members of the TNF receptor (TNFR) superfamily. This protein participates in the signal transduction of CD40, a TNFR family member important for the activation of the immune response. This protein is found to be a critical component of the lymphotoxin-beta receptor (LTbetaR) signaling complex, which induces NF-kappaB activation and cell death initiated by LTbeta ligation. Epstein-Barr virus encoded latent infection membrane protein-1 (LMP1) can interact with this and several other members of the TRAF family, which may be essential for the oncogenic effects of LMP1. Several alternatively spliced transcript variants encoding three distinct isoforms have been reported. [provided by RefSeq, Dec 2010]
Expression
Ubiquitous expression in lymph node (RPKM 5.0), appendix (RPKM 4.8) and 25 other tissues See more
Orthologs

Genomic context

See TRAF3 in Genome Data Viewer
Location:
14q32.32
Exon count:
15
Annotation release Status Assembly Chr Location
109.20200522 current GRCh38.p13 (GCF_000001405.39) 14 NC_000014.9 (102777449..102911500)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 14 NC_000014.8 (103243816..103377837)

Chromosome 14 - NC_000014.9Genomic Context describing neighboring genes Neighboring gene RNA, 7SL, cytoplasmic 546, pseudogene Neighboring gene REST corepressor 1 Neighboring gene ribosomal protein L23a pseudogene 11 Neighboring gene RNA, U6 small nuclear 1316, pseudogene Neighboring gene CDC42 binding protein kinase beta Neighboring gene amnion associated transmembrane protein Neighboring gene ribosomal protein L13 pseudogene 6

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?

Phenotypes

Associated conditions

Description Tests
Herpes simplex encephalitis, susceptibility to, 3
MedGen: C3553868 OMIM: 614849 GeneReviews: Not available
Compare labs

NHGRI GWAS Catalog

Description
A genome-wide association study of schizophrenia using brain activation as a quantitative phenotype.
NHGRI GWA Catalog

HIV-1 interactions

Protein interactions

Protein Gene Interaction Pubs
Tat tat HIV-1 Tat-mediated downregulation of TRAF3 increases levels of phosphorylation of IRF3 and IRF7 in human microglial cells PubMed
tat HIV-1 Tat-induced upregulation of microRNA 32 results in downregulation of TRAF3 in human microglial cells 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

Homology

Gene Ontology Provided by GOA

Function Evidence Code Pubs
protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
protein kinase binding IEA
Inferred from Electronic Annotation
more info
 
protein phosphatase binding IPI
Inferred from Physical Interaction
more info
PubMed 
thioesterase binding IPI
Inferred from Physical Interaction
more info
PubMed 
tumor necrosis factor receptor binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
tumor necrosis factor receptor binding IPI
Inferred from Physical Interaction
more info
PubMed 
ubiquitin protein ligase binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
ubiquitin protein ligase binding IPI
Inferred from Physical Interaction
more info
PubMed 
ubiquitin-protein transferase activity IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
ubiquitin-protein transferase activity TAS
Traceable Author Statement
more info
 
zinc ion binding IEA
Inferred from Electronic Annotation
more info
 
Process Evidence Code Pubs
TRIF-dependent toll-like receptor signaling pathway TAS
Traceable Author Statement
more info
 
Toll signaling pathway IEA
Inferred from Electronic Annotation
more info
 
apoptotic process IEA
Inferred from Electronic Annotation
more info
 
innate immune response IEA
Inferred from Electronic Annotation
more info
 
negative regulation of NF-kappaB transcription factor activity IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
negative regulation of NF-kappaB transcription factor activity IMP
Inferred from Mutant Phenotype
more info
PubMed 
positive regulation of JNK cascade IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
protein K63-linked ubiquitination IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
protein deubiquitination TAS
Traceable Author Statement
more info
 
regulation of I-kappaB kinase/NF-kappaB signaling IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
regulation of apoptotic process IEA
Inferred from Electronic Annotation
more info
 
regulation of cytokine production ISS
Inferred from Sequence or Structural Similarity
more info
 
regulation of defense response to virus ISS
Inferred from Sequence or Structural Similarity
more info
 
regulation of interferon-beta production ISS
Inferred from Sequence or Structural Similarity
more info
 
regulation of proteolysis IMP
Inferred from Mutant Phenotype
more info
PubMed 
signal transduction TAS
Traceable Author Statement
more info
PubMed 
toll-like receptor signaling pathway ISS
Inferred from Sequence or Structural Similarity
more info
 
tumor necrosis factor-mediated signaling pathway IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
tumor necrosis factor-mediated signaling pathway IMP
Inferred from Mutant Phenotype
more info
PubMed 
tumor necrosis factor-mediated signaling pathway TAS
Traceable Author Statement
more info
 
Component Evidence Code Pubs
CD40 receptor complex ISS
Inferred from Sequence or Structural Similarity
more info
 
cytoplasmic side of plasma membrane IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
cytoplasmic side of plasma membrane ISS
Inferred from Sequence or Structural Similarity
more info
 
cytosol TAS
Traceable Author Statement
more info
 
endosome IEA
Inferred from Electronic Annotation
more info
 
mitochondrion IEA
Inferred from Electronic Annotation
more info
 
plasma membrane receptor complex IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 

General protein information

Preferred Names
TNF receptor-associated factor 3
Names
CD40 associated protein 1
CD40 binding protein
CD40 receptor associated factor 1
LMP1-associated protein 1
RING-type E3 ubiquitin transferase TRAF3
NP_001186356.1
NP_003291.2
NP_663777.1
NP_663778.1
XP_011535418.1
XP_011535419.1
XP_011535420.1
XP_016877106.1
XP_016877107.1
XP_016877108.1
XP_016877109.1

NCBI Reference Sequences (RefSeq)

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.

Genomic

  1. NG_027973.1 RefSeqGene

    Range
    5001..139022
    Download
    GenBank, FASTA, Sequence Viewer (Graphics), LRG_229

mRNA and Protein(s)

  1. NM_001199427.2NP_001186356.1  TNF receptor-associated factor 3 isoform 3

    See identical proteins and their annotated locations for NP_001186356.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (4) differs in the 5' UTR and lacks an in-frame coding segment compared to variant 1. The resulting isoform (2) lacks an internal region as compared to isoform 1.
    Source sequence(s)
    AK303172, AL117209, AL132801, BQ000015, U21092
    Consensus CDS
    CCDS55946.1
    UniProtKB/Swiss-Prot
    Q13114
    Related
    ENSP00000445998.1, ENST00000539721.5
    Conserved Domains (4) summary
    smart00184
    Location:5388
    RING; Ring finger
    cd03777
    Location:295480
    MATH_TRAF3; Tumor Necrosis Factor Receptor (TNFR)-Associated Factor (TRAF) family, TRAF3 subfamily, TRAF domain; TRAF molecules serve as adapter proteins that link TNFRs and downstream kinase cascades resulting in the activation of transcription factors and the ...
    pfam02176
    Location:136190
    zf-TRAF; TRAF-type zinc finger
    pfam17082
    Location:224283
    Spc29; Spindle Pole Component 29
  2. NM_003300.4NP_003291.2  TNF receptor-associated factor 3 isoform 1

    See identical proteins and their annotated locations for NP_003291.2

    Status: REVIEWED

    Description
    Transcript Variant: This variant (3) differs in the 5' UTR compared to variant 1. Variants 1 and 3 both encode the same isoform (1).
    Source sequence(s)
    AL117209, AL132801, BQ000015, BX247977, U21092
    Consensus CDS
    CCDS9975.1
    UniProtKB/Swiss-Prot
    Q13114
    Related
    ENSP00000454207.1, ENST00000560371.5
    Conserved Domains (5) summary
    cd03777
    Location:378563
    MATH_TRAF3; Tumor Necrosis Factor Receptor (TNFR)-Associated Factor (TRAF) family, TRAF3 subfamily, TRAF domain; TRAF molecules serve as adapter proteins that link TNFRs and downstream kinase cascades resulting in the activation of transcription factors and the ...
    pfam00097
    Location:5691
    zf-C3HC4; Zinc finger, C3HC4 type (RING finger)
    pfam02176
    Location:136192
    zf-TRAF; TRAF-type zinc finger
    pfam15272
    Location:263321
    BBP1_C; Spindle pole body component BBP1, C-terminal
    pfam17082
    Location:307366
    Spc29; Spindle Pole Component 29
  3. NM_145725.3NP_663777.1  TNF receptor-associated factor 3 isoform 1

    See identical proteins and their annotated locations for NP_663777.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) represents the longest transcript and encodes the longest isoform (1). Variants 1 and 3 both encode the same isoform (1).
    Source sequence(s)
    AL117209, AL132801, BQ000015, BX247977, U21092
    Consensus CDS
    CCDS9975.1
    UniProtKB/Swiss-Prot
    Q13114
    Related
    ENSP00000376500.2, ENST00000392745.7
    Conserved Domains (5) summary
    cd03777
    Location:378563
    MATH_TRAF3; Tumor Necrosis Factor Receptor (TNFR)-Associated Factor (TRAF) family, TRAF3 subfamily, TRAF domain; TRAF molecules serve as adapter proteins that link TNFRs and downstream kinase cascades resulting in the activation of transcription factors and the ...
    pfam00097
    Location:5691
    zf-C3HC4; Zinc finger, C3HC4 type (RING finger)
    pfam02176
    Location:136192
    zf-TRAF; TRAF-type zinc finger
    pfam15272
    Location:263321
    BBP1_C; Spindle pole body component BBP1, C-terminal
    pfam17082
    Location:307366
    Spc29; Spindle Pole Component 29
  4. NM_145726.2NP_663778.1  TNF receptor-associated factor 3 isoform 2

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) lacks an in-frame coding segment compared to variant 1. The resulting isoform (2) lacks an internal region compared to isoform 1.
    Source sequence(s)
    AL117209, AL132801, BQ000015, BX247977, U21092
    Consensus CDS
    CCDS9976.1
    UniProtKB/Swiss-Prot
    Q13114
    UniProtKB/TrEMBL
    A6NHG8
    Related
    ENSP00000328003.4, ENST00000347662.8
    Conserved Domains (4) summary
    cd03777
    Location:353538
    MATH_TRAF3; Tumor Necrosis Factor Receptor (TNFR)-Associated Factor (TRAF) family, TRAF3 subfamily, TRAF domain; TRAF molecules serve as adapter proteins that link TNFRs and downstream kinase cascades resulting in the activation of transcription factors and the ...
    TIGR04527
    Location:235361
    mycoplas_twoTM; two transmembrane protein
    pfam00097
    Location:5691
    zf-C3HC4; Zinc finger, C3HC4 type (RING finger)
    pfam02176
    Location:136192
    zf-TRAF; TRAF-type zinc finger

RefSeqs of Annotated Genomes: Homo sapiens Updated Annotation Release 109.

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

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000014.9 Reference GRCh38.p13 Primary Assembly

    Range
    102777449..102911500
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_011537117.3XP_011535419.1  TNF receptor-associated factor 3 isoform X4

    Conserved Domains (4) summary
    cd03777
    Location:322507
    MATH_TRAF3; Tumor Necrosis Factor Receptor (TNFR)-Associated Factor (TRAF) family, TRAF3 subfamily, TRAF domain; TRAF molecules serve as adapter proteins that link TNFRs and downstream kinase cascades resulting in the activation of transcription factors and the ...
    pfam00097
    Location:5691
    zf-C3HC4; Zinc finger, C3HC4 type (RING finger)
    pfam02176
    Location:136192
    zf-TRAF; TRAF-type zinc finger
    pfam17082
    Location:251310
    Spc29; Spindle Pole Component 29
  2. XM_011537116.3XP_011535418.1  TNF receptor-associated factor 3 isoform X3

    Conserved Domains (4) summary
    smart00184
    Location:5388
    RING; Ring finger
    cd03777
    Location:326511
    MATH_TRAF3; Tumor Necrosis Factor Receptor (TNFR)-Associated Factor (TRAF) family, TRAF3 subfamily, TRAF domain; TRAF molecules serve as adapter proteins that link TNFRs and downstream kinase cascades resulting in the activation of transcription factors and the ...
    TIGR04527
    Location:208334
    mycoplas_twoTM; two transmembrane protein
    pfam02176
    Location:136190
    zf-TRAF; TRAF-type zinc finger
  3. XM_011537118.3XP_011535420.1  TNF receptor-associated factor 3 isoform X5

    See identical proteins and their annotated locations for XP_011535420.1

    UniProtKB/Swiss-Prot
    Q13114
    Conserved Domains (4) summary
    smart00184
    Location:5388
    RING; Ring finger
    cd03777
    Location:295480
    MATH_TRAF3; Tumor Necrosis Factor Receptor (TNFR)-Associated Factor (TRAF) family, TRAF3 subfamily, TRAF domain; TRAF molecules serve as adapter proteins that link TNFRs and downstream kinase cascades resulting in the activation of transcription factors and the ...
    pfam02176
    Location:136190
    zf-TRAF; TRAF-type zinc finger
    pfam17082
    Location:224283
    Spc29; Spindle Pole Component 29
  4. XM_017021620.2XP_016877109.1  TNF receptor-associated factor 3 isoform X6

  5. XM_017021617.1XP_016877106.1  TNF receptor-associated factor 3 isoform X1

    UniProtKB/Swiss-Prot
    Q13114
    Conserved Domains (5) summary
    cd03777
    Location:378563
    MATH_TRAF3; Tumor Necrosis Factor Receptor (TNFR)-Associated Factor (TRAF) family, TRAF3 subfamily, TRAF domain; TRAF molecules serve as adapter proteins that link TNFRs and downstream kinase cascades resulting in the activation of transcription factors and the ...
    pfam00097
    Location:5691
    zf-C3HC4; Zinc finger, C3HC4 type (RING finger)
    pfam02176
    Location:136192
    zf-TRAF; TRAF-type zinc finger
    pfam15272
    Location:263321
    BBP1_C; Spindle pole body component BBP1, C-terminal
    pfam17082
    Location:307366
    Spc29; Spindle Pole Component 29
  6. XM_017021619.1XP_016877108.1  TNF receptor-associated factor 3 isoform X2

    UniProtKB/TrEMBL
    A6NHG8
    Conserved Domains (4) summary
    cd03777
    Location:353538
    MATH_TRAF3; Tumor Necrosis Factor Receptor (TNFR)-Associated Factor (TRAF) family, TRAF3 subfamily, TRAF domain; TRAF molecules serve as adapter proteins that link TNFRs and downstream kinase cascades resulting in the activation of transcription factors and the ...
    TIGR04527
    Location:235361
    mycoplas_twoTM; two transmembrane protein
    pfam00097
    Location:5691
    zf-C3HC4; Zinc finger, C3HC4 type (RING finger)
    pfam02176
    Location:136192
    zf-TRAF; TRAF-type zinc finger
  7. XM_017021618.1XP_016877107.1  TNF receptor-associated factor 3 isoform X1

    UniProtKB/Swiss-Prot
    Q13114
    Conserved Domains (5) summary
    cd03777
    Location:378563
    MATH_TRAF3; Tumor Necrosis Factor Receptor (TNFR)-Associated Factor (TRAF) family, TRAF3 subfamily, TRAF domain; TRAF molecules serve as adapter proteins that link TNFRs and downstream kinase cascades resulting in the activation of transcription factors and the ...
    pfam00097
    Location:5691
    zf-C3HC4; Zinc finger, C3HC4 type (RING finger)
    pfam02176
    Location:136192
    zf-TRAF; TRAF-type zinc finger
    pfam15272
    Location:263321
    BBP1_C; Spindle pole body component BBP1, C-terminal
    pfam17082
    Location:307366
    Spc29; Spindle Pole Component 29
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