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TRAF4 (TNF receptor-associated factor 4)

Written2000-08Catherine H Régnier, Catherine Tomasetto, Marie.Christine Rio
I.G.B.M.C, 1, rue Laurent FRIES, BP 163 67404 ILLKIRH, France

(Note : for Links provided by Atlas : click)

Identity

Other namesMLN62
CART1
HGNC (Hugo) TRAF4
LocusID (NCBI) 9618
Atlas_Id 204
Location 17q11.2  [Link to chromosome band 17q11]
Location_base_pair Starts at 27071023 and ends at 27077976 bp from pter ( according to hg19-Feb_2009)  [Mapping TRAF4.png]
Local_order TRAF4, Lasp1(alias MLN50), c-erbB2, MLN64, MLN51
 
  TRAF4 (17q11-q12) - Courtesy Mariano Rocchi, Resources for Molecular Cytogenetics.
Fusion genes
(updated 2016)
EML2 (19q13.32) / TRAF4 (17q11.2)NDRG2 (14q11.2) / TRAF4 (17q11.2)TRAF4 (17q11.2) / TRAF4 (17q11.2)
TRAF4 (17q11.2) / WSB1 (17q11.1)

DNA/RNA

Description 5,5 kb gene; 7 exons
Transcription 2 kb cDNA; coding sequence: 1410 bp

Protein

Description 470 amino acids; 53 kDa; contains an amino-terminal RING finger domain, a central stretch of six putative Zinc-binding domains (3 CART domains) and a carboxyl-terminal TRAF domain
Expression epithelial cells; weak ubiquitous expression in adult tissues; stronger expression level in kidney and thymus
Localisation cytoplasmic; nuclear when overexpressed
Function putative signal transducer
Homology to TRAF proteins (Tumor Necrosis Factor Receptor Associated Factor)

Implicated in

Note
Entity 17q11-q12 gene amplification; found in about 25% of primary breast carcinomas
Prognosis poor clinical outcome; increase risk of relapse
  

Bibliography

Identification of four novel human genes amplified and overexpressed in breast carcinoma and localized to the q11-q21.3 region of chromosome 17.
Tomasetto C, Régnier C, Moog-Lutz C, Mattei MG, Chenard MP, Lidereau R, Basset P, Rio MC
Genomics. 1995 ; 28 (3) : 367-376.
PMID 7490069
 
Presence of a new conserved domain in CART1, a novel member of the tumor necrosis factor receptor-associated protein family, which is expressed in breast carcinoma.
Régnier CH, Tomasetto C, Moog-Lutz C, Chenard MP, Wendling C, Basset P, Rio MC
The Journal of biological chemistry. 1995 ; 270 (43) : 25715-25721.
PMID 7592751
 
Two distinct amplified regions at 17q11-q21 involved in human primary breast cancer.
Bièche I, Tomasetto C, Régnier CH, Moog-Lutz C, Rio MC, Lidereau R
Cancer research. 1996 ; 56 (17) : 3886-3890.
PMID 8752152
 
Tumor necrosis factor receptor-associated factors (TRAFs)--a family of adapter proteins that regulates life and death.
Arch RH, Gedrich RW, Thompson CB
Genes & development. 1998 ; 12 (18) : 2821-2830.
PMID 9744859
 

Citation

This paper should be referenced as such :
Régnier, CH ; Tomasetto, C ; Rio, MC
TRAF4 (TNF receptor-associated factor 4)
Atlas Genet Cytogenet Oncol Haematol. 2000;4(4):186-187.
Free journal version : [ pdf ]   [ DOI ]
On line version : http://AtlasGeneticsOncology.org/Genes/TRAF4ID204.html


External links

Nomenclature
HGNC (Hugo)TRAF4   12034
Cards
AtlasTRAF4ID204
Entrez_Gene (NCBI)TRAF4  9618  TNF receptor associated factor 4
AliasesCART1; MLN62; RNF83
GeneCards (Weizmann)TRAF4
Ensembl hg19 (Hinxton)ENSG00000076604 [Gene_View]  chr17:27071023-27077976 [Contig_View]  TRAF4 [Vega]
Ensembl hg38 (Hinxton)ENSG00000076604 [Gene_View]  chr17:27071023-27077976 [Contig_View]  TRAF4 [Vega]
ICGC DataPortalENSG00000076604
TCGA cBioPortalTRAF4
AceView (NCBI)TRAF4
Genatlas (Paris)TRAF4
WikiGenes9618
SOURCE (Princeton)TRAF4
Genomic and cartography
GoldenPath hg19 (UCSC)TRAF4  -     chr17:27071023-27077976 +  17q11-q21.3   [Description]    (hg19-Feb_2009)
GoldenPath hg38 (UCSC)TRAF4  -     17q11-q21.3   [Description]    (hg38-Dec_2013)
EnsemblTRAF4 - 17q11-q21.3 [CytoView hg19]  TRAF4 - 17q11-q21.3 [CytoView hg38]
Mapping of homologs : NCBITRAF4 [Mapview hg19]  TRAF4 [Mapview hg38]
OMIM602464   
Gene and transcription
Genbank (Entrez)AF082185 AK300804 AY937222 AY937223 AY937224
RefSeq transcript (Entrez)NM_004295 NM_145751
RefSeq genomic (Entrez)NC_000017 NC_018928 NT_010783 NW_004929407
Consensus coding sequences : CCDS (NCBI)TRAF4
Cluster EST : UnigeneHs.8375 [ NCBI ]
CGAP (NCI)Hs.8375
Alternative Splicing GalleryENSG00000076604
Gene ExpressionTRAF4 [ NCBI-GEO ]   TRAF4 [ EBI - ARRAY_EXPRESS ]   TRAF4 [ SEEK ]   TRAF4 [ MEM ]
Gene Expression Viewer (FireBrowse)TRAF4 [ Firebrowse - Broad ]
SOURCE (Princeton)Expression in : [Datasets]   [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
GenevisibleExpression in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)9618
GTEX Portal (Tissue expression)TRAF4
Protein : pattern, domain, 3D structure
UniProt/SwissProtQ9BUZ4 (Uniprot)
NextProtQ9BUZ4  [Sequence]  [Exons]  [Medical]  [Publications]
With graphics : InterProQ9BUZ4
Splice isoforms : SwissVarQ9BUZ4 (Swissvar)
PhosPhoSitePlusQ9BUZ4
Domaine pattern : Prosite (Expaxy)MATH (PS50144)    ZF_RING_1 (PS00518)    ZF_RING_2 (PS50089)    ZF_TRAF (PS50145)   
Domains : Interpro (EBI)MATH/TRAF_dom    SIAH-type    TNF_rcpt--assoc_TRAF    TRAF-like    TRAF4    Znf_C3HC4_RING-type    Znf_RING    Znf_RING/FYVE/PHD    Znf_RING_CS    Znf_TRAF   
Domain families : Pfam (Sanger)zf-C3HC4 (PF00097)    zf-TRAF (PF02176)   
Domain families : Pfam (NCBI)pfam00097    pfam02176   
Domain families : Smart (EMBL)MATH (SM00061)  RING (SM00184)  
DMDM Disease mutations9618
Blocks (Seattle)TRAF4
PDB (SRS)2EOD    2YUC    3ZJB    4K8U    4M4E   
PDB (PDBSum)2EOD    2YUC    3ZJB    4K8U    4M4E   
PDB (IMB)2EOD    2YUC    3ZJB    4K8U    4M4E   
PDB (RSDB)2EOD    2YUC    3ZJB    4K8U    4M4E   
Structural Biology KnowledgeBase2EOD    2YUC    3ZJB    4K8U    4M4E   
SCOP (Structural Classification of Proteins)2EOD    2YUC    3ZJB    4K8U    4M4E   
CATH (Classification of proteins structures)2EOD    2YUC    3ZJB    4K8U    4M4E   
SuperfamilyQ9BUZ4
Human Protein AtlasENSG00000076604
Peptide AtlasQ9BUZ4
HPRD03915
IPIIPI00162088   IPI00017037   IPI00791505   IPI00740195   IPI00940702   IPI00740636   IPI00793813   
Protein Interaction databases
DIP (DOE-UCLA)Q9BUZ4
IntAct (EBI)Q9BUZ4
FunCoupENSG00000076604
BioGRIDTRAF4
STRING (EMBL)TRAF4
ZODIACTRAF4
Ontologies - Pathways
QuickGOQ9BUZ4
Ontology : AmiGODNA binding  ubiquitin-protein transferase activity  tumor necrosis factor receptor binding  protein binding  nucleus  cytoplasm  cytoskeleton  plasma membrane  bicellular tight junction  apoptotic process  signal transduction  activation of NF-kappaB-inducing kinase activity  respiratory gaseous exchange  zinc ion binding  protein ubiquitination  protein kinase binding  respiratory tube development  ubiquitin protein ligase binding  thioesterase binding  regulation of apoptotic process  positive regulation of protein kinase activity  positive regulation of JNK cascade  perinuclear region of cytoplasm  WW domain binding  positive regulation of protein homodimerization activity  
Ontology : EGO-EBIDNA binding  ubiquitin-protein transferase activity  tumor necrosis factor receptor binding  protein binding  nucleus  cytoplasm  cytoskeleton  plasma membrane  bicellular tight junction  apoptotic process  signal transduction  activation of NF-kappaB-inducing kinase activity  respiratory gaseous exchange  zinc ion binding  protein ubiquitination  protein kinase binding  respiratory tube development  ubiquitin protein ligase binding  thioesterase binding  regulation of apoptotic process  positive regulation of protein kinase activity  positive regulation of JNK cascade  perinuclear region of cytoplasm  WW domain binding  positive regulation of protein homodimerization activity  
Pathways : KEGGPathways in cancer    Small cell lung cancer   
NDEx Network
Atlas of Cancer Signalling NetworkTRAF4
Wikipedia pathwaysTRAF4
Orthology - Evolution
OrthoDB9618
GeneTree (enSembl)ENSG00000076604
Phylogenetic Trees/Animal Genes : TreeFamTRAF4
Homologs : HomoloGeneTRAF4
Homology/Alignments : Family Browser (UCSC)TRAF4
Gene fusions - Rearrangements
Polymorphisms : SNP, variants
NCBI Variation ViewerTRAF4 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)TRAF4
dbVarTRAF4
ClinVarTRAF4
1000_GenomesTRAF4 
Exome Variant ServerTRAF4
ExAC (Exome Aggregation Consortium)TRAF4 (select the gene name)
Genetic variants : HAPMAP9618
Genomic Variants (DGV)TRAF4 [DGVbeta]
Mutations
ICGC Data PortalTRAF4 
TCGA Data PortalTRAF4 
Broad Tumor PortalTRAF4
OASIS PortalTRAF4 [ Somatic mutations - Copy number]
Somatic Mutations in Cancer : COSMICTRAF4 
LOVD (Leiden Open Variation Database)Whole genome datasets
LOVD (Leiden Open Variation Database)LOVD 3.0 shared installation
BioMutasearch TRAF4
DgiDB (Drug Gene Interaction Database)TRAF4
DoCM (Curated mutations)TRAF4 (select the gene name)
CIViC (Clinical Interpretations of Variants in Cancer)TRAF4 (select a term)
intoGenTRAF4
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] 
Diseases
DECIPHER (Syndromes)17:27071023-27077976  ENSG00000076604
CONAN: Copy Number AnalysisTRAF4 
Mutations and Diseases : HGMDTRAF4
OMIM602464   
MedgenTRAF4
Genetic Testing Registry TRAF4
NextProtQ9BUZ4 [Medical]
TSGene9618
GENETestsTRAF4
Huge Navigator TRAF4 [HugePedia]
snp3D : Map Gene to Disease9618
BioCentury BCIQTRAF4
ClinGenTRAF4
Clinical trials, drugs, therapy
Chemical/Protein Interactions : CTD9618
Chemical/Pharm GKB GenePA36711
Clinical trialTRAF4
Miscellaneous
canSAR (ICR)TRAF4 (select the gene name)
Probes
ProbeCancer Cytogenetics (Bari)
Litterature
PubMed68 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
CoreMineTRAF4
EVEXTRAF4
GoPubMedTRAF4
iHOPTRAF4
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

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indexed on : Sat Jun 11 13:01:13 CEST 2016

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