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Aliases for TRAIP Gene

Aliases for TRAIP Gene

  • TRAF Interacting Protein 2 3 5
  • Ring Finger Protein 206 2 3 4
  • TRAF-Interacting Protein 3 4
  • RNF206 3 4
  • TRIP 3 4
  • E3 Ubiquitin-Protein Ligase TRAIP 3
  • EC 6.3.2.- 4
  • SCKL9 3

External Ids for TRAIP Gene

Previous GeneCards Identifiers for TRAIP Gene

  • GC03M049843
  • GC03M049866

Summaries for TRAIP Gene

Entrez Gene Summary for TRAIP Gene

  • This gene encodes a protein that contains an N-terminal RING finger motif and a putative coiled-coil domain. A similar murine protein interacts with TNFR-associated factor 1 (TRAF1), TNFR-associated factor 2 (TRAF2), and cylindromatosis. The interaction with TRAF2 inhibits TRAF2-mediated nuclear factor kappa-B, subunit 1 activation that is required for cell activation and protection against apoptosis. [provided by RefSeq, Jul 2008]

GeneCards Summary for TRAIP Gene

TRAIP (TRAF Interacting Protein) is a Protein Coding gene. Diseases associated with TRAIP include Seckel Syndrome 9 and Seckel Syndrome. Among its related pathways are TNF-alpha/NF-kB Signaling Pathway and Immune System. GO annotations related to this gene include ligase activity and receptor signaling protein activity.

UniProtKB/Swiss-Prot for TRAIP Gene

  • E3 ubiquitin ligase acting as a negative regulator of innate immune signaling. Inhibits activation of NF-kappa-B mediated by TNF. Negatively regulates TLR3/4- and RIG-I-mediated IRF3 activation and subsequent IFNB1 production and cellular antiviral response by promoting Lys-48-linked polyubiquitination of TNK1 leading to its proteasomal degradation (By similarity) (PubMed:22945920). Involved in response to genotoxic lesions during genome replication. Promotes H2AX and RPA2 phosphorylation after replication-associated DNA damage and assists fork progression at UV-induced replication-blocking lesions during S phase (PubMed:26595769). Has also been proposed to play a role in promoting translesion synthesis by mediating the assembly of Lys-63-linked poly-ubiquitin chains on the Y-family polymerase POLN in order to facilitate bypass of DNA lesions and preserve genomic integrity (PubMed:24553286). The function in translesion synthesis is controversial (PubMed:26595769).

Gene Wiki entry for TRAIP Gene

No data available for Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for TRAIP Gene

Genomics for TRAIP Gene

Regulatory Elements for TRAIP Gene

Enhancers for TRAIP Gene
GeneHancer Identifier Enhancer Score Enhancer Sources Gene-Enhancer Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor Binding Sites within enhancer Gene Targets for Enhancer
- Elite enhancer/Elite enhancer-gene association

Enhancers around TRAIP on UCSC Golden Path with GeneCards custom track

Promoters for TRAIP Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters

ENSRs around TRAIP on UCSC Golden Path with GeneCards custom track

Genomic Location for TRAIP Gene

Chromosome:
3
Start:
49,828,595 bp from pter
End:
49,856,574 bp from pter
Size:
27,980 bases
Orientation:
Minus strand

Genomic View for TRAIP Gene

Genes around TRAIP on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
TRAIP Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for TRAIP Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for TRAIP Gene

Proteins for TRAIP Gene

  • Protein details for TRAIP Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q9BWF2-TRAIP_HUMAN
    Recommended name:
    E3 ubiquitin-protein ligase TRAIP
    Protein Accession:
    Q9BWF2
    Secondary Accessions:
    • B5BU84
    • B5BUL3
    • O00467

    Protein attributes for TRAIP Gene

    Size:
    469 amino acids
    Molecular mass:
    53294 Da
    Quaternary structure:
    • Binds TRAF1, TRAF2, TRAF3, TRAF5 and TRAF6 is part of the receptor-TRAF signaling complex (By similarity). The C-terminus interacts with CYLD (PubMed:14676304), however the interaction was not detected with the full-length protein. Interacts with POLK and POLN.

    Three dimensional structures from OCA and Proteopedia for TRAIP Gene

neXtProt entry for TRAIP Gene

Post-translational modifications for TRAIP Gene

Other Protein References for TRAIP Gene

No data available for DME Specific Peptides for TRAIP Gene

Domains & Families for TRAIP Gene

Gene Families for TRAIP Gene

Protein Domains for TRAIP Gene

Suggested Antigen Peptide Sequences for TRAIP Gene

Graphical View of Domain Structure for InterPro Entry

Q9BWF2

UniProtKB/Swiss-Prot:

TRAIP_HUMAN :
  • Contains 1 RING-type zinc finger.
Similarity:
  • Contains 1 RING-type zinc finger.
genes like me logo Genes that share domains with TRAIP: view

Function for TRAIP Gene

Molecular function for TRAIP Gene

UniProtKB/Swiss-Prot Function:
E3 ubiquitin ligase acting as a negative regulator of innate immune signaling. Inhibits activation of NF-kappa-B mediated by TNF. Negatively regulates TLR3/4- and RIG-I-mediated IRF3 activation and subsequent IFNB1 production and cellular antiviral response by promoting Lys-48-linked polyubiquitination of TNK1 leading to its proteasomal degradation (By similarity) (PubMed:22945920). Involved in response to genotoxic lesions during genome replication. Promotes H2AX and RPA2 phosphorylation after replication-associated DNA damage and assists fork progression at UV-induced replication-blocking lesions during S phase (PubMed:26595769). Has also been proposed to play a role in promoting translesion synthesis by mediating the assembly of Lys-63-linked poly-ubiquitin chains on the Y-family polymerase POLN in order to facilitate bypass of DNA lesions and preserve genomic integrity (PubMed:24553286). The function in translesion synthesis is controversial (PubMed:26595769).

Enzyme Numbers (IUBMB) for TRAIP Gene

Gene Ontology (GO) - Molecular Function for TRAIP Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005057 receptor signaling protein activity IEA --
GO:0005515 protein binding IEA,IPI 17474147
GO:0008270 zinc ion binding IEA --
GO:0016874 ligase activity IEA --
GO:0061630 ubiquitin protein ligase activity IEA --
genes like me logo Genes that share ontologies with TRAIP: view
genes like me logo Genes that share phenotypes with TRAIP: view

Animal Models for TRAIP Gene

MGI Knock Outs for TRAIP:

Animal Model Products

CRISPR Products

miRNA for TRAIP Gene

Inhibitory RNA Products

Clone Products

Flow Cytometry Products

No data available for Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for TRAIP Gene

Localization for TRAIP Gene

Subcellular locations from UniProtKB/Swiss-Prot for TRAIP Gene

Cytoplasm. Cytoplasm, perinuclear region. Nucleus. Nucleus, nucleolus. Note=In the nucleus, found in close proximity to PCNA, suggesting localization at replication foci. After UV irradiation, rapidly localizes to sites of DNA damage, where it colocalizes with phosphorylated histone H2AX (gamma-H2AX) and RPA2. {ECO:0000269 PubMed:26595769}.

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for TRAIP Gene COMPARTMENTS Subcellular localization image for TRAIP gene
Compartment Confidence
nucleus 5
cytosol 2
extracellular 1

Gene Ontology (GO) - Cellular Components for TRAIP Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005730 nucleolus IEA --
GO:0048471 perinuclear region of cytoplasm IEA --
genes like me logo Genes that share ontologies with TRAIP: view

Pathways & Interactions for TRAIP Gene

genes like me logo Genes that share pathways with TRAIP: view

UniProtKB/Swiss-Prot Q9BWF2-TRAIP_HUMAN

  • Pathway: Protein modification; protein ubiquitination.

Gene Ontology (GO) - Biological Process for TRAIP Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006915 apoptotic process TAS 9104814
GO:0007165 signal transduction IEA,TAS 9104814
GO:0008283 cell proliferation TAS 9104814
GO:0010804 negative regulation of tumor necrosis factor-mediated signaling pathway IDA 19151749
GO:0016567 protein ubiquitination IEA --
genes like me logo Genes that share ontologies with TRAIP: view

No data available for SIGNOR curated interactions for TRAIP Gene

Drugs & Compounds for TRAIP Gene

No Compound Related Data Available

Transcripts for TRAIP Gene

Unigene Clusters for TRAIP Gene

TRAF interacting protein:
Representative Sequences:

CRISPR Products

Inhibitory RNA Products

Clone Products

Flow Cytometry Products

Alternative Splicing Database (ASD) splice patterns (SP) for TRAIP Gene

ExUns: 1a · 1b · 1c ^ 2 ^ 3a · 3b ^ 4 ^ 5a · 5b · 5c · 5d ^ 6a · 6b ^ 7 ^ 8 ^ 9a · 9b ^ 10a · 10b ^ 11 ^ 12 ^ 13 ^ 14 ^ 15
SP1: - - - -
SP2: - - - - - - - - - -
SP3: - -
SP4:
SP5: - -
SP6: -
SP7: -

Relevant External Links for TRAIP Gene

GeneLoc Exon Structure for
TRAIP
ECgene alternative splicing isoforms for
TRAIP

Expression for TRAIP Gene

mRNA expression in normal human tissues for TRAIP Gene

mRNA differential expression in normal tissues according to GTEx for TRAIP Gene

This gene is overexpressed in Testis (x4.3).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, and MOPED for TRAIP Gene



Protein tissue co-expression partners for TRAIP Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of TRAIP Gene:

TRAIP

SOURCE GeneReport for Unigene cluster for TRAIP Gene:

Hs.517972
genes like me logo Genes that share expression patterns with TRAIP: view

Primer Products

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , Protein differential expression in normal tissues and mRNA Expression by UniProt/SwissProt for TRAIP Gene

Orthologs for TRAIP Gene

This gene was present in the common ancestor of animals.

Orthologs for TRAIP Gene

Organism Taxonomy Gene Similarity Type Details
dog
(Canis familiaris)
Mammalia TRAIP 34
  • 86.25 (n)
  • 84.83 (a)
TRAIP 35
  • 83 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Traip 34
  • 84.58 (n)
  • 79.87 (a)
Traip 16
Traip 35
  • 79 (a)
OneToOne
chimpanzee
(Pan troglodytes)
Mammalia TRAIP 34
  • 99.43 (n)
  • 99.15 (a)
TRAIP 35
  • 99 (a)
OneToOne
rat
(Rattus norvegicus)
Mammalia Traip 34
  • 84.41 (n)
  • 81.76 (a)
cow
(Bos Taurus)
Mammalia TRAIP 35
  • 81 (a)
OneToOne
oppossum
(Monodelphis domestica)
Mammalia TRAIP 35
  • 70 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia TRAIP 35
  • 70 (a)
OneToOne
chicken
(Gallus gallus)
Aves TRAIP 34
  • 66.15 (n)
  • 61.89 (a)
TRAIP 35
  • 53 (a)
OneToOne
lizard
(Anolis carolinensis)
Reptilia TRAIP 35
  • 57 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia Str.2517 34
traip 34
  • 59.39 (n)
  • 55.24 (a)
African clawed frog
(Xenopus laevis)
Amphibia Xl.21313 34
zebrafish
(Danio rerio)
Actinopterygii Dr.13637 34
traip 34
  • 58.43 (n)
  • 53.32 (a)
traip 35
  • 49 (a)
OneToOne
fruit fly
(Drosophila melanogaster)
Insecta nopo 35
  • 22 (a)
OneToOne
worm
(Caenorhabditis elegans)
Secernentea B0432.13 35
  • 20 (a)
OneToOne
sea squirt
(Ciona savignyi)
Ascidiacea -- 35
  • 34 (a)
OneToMany
-- 35
  • 34 (a)
OneToMany
Species where no ortholog for TRAIP was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • baker's yeast (Saccharomyces cerevisiae)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rainbow trout (Oncorhynchus mykiss)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)

Evolution for TRAIP Gene

ENSEMBL:
Gene Tree for TRAIP (if available)
TreeFam:
Gene Tree for TRAIP (if available)

Paralogs for TRAIP Gene

(2) SIMAP similar genes for TRAIP Gene using alignment to 7 proteins:

genes like me logo Genes that share paralogs with TRAIP: view

No data available for Paralogs for TRAIP Gene

Variants for TRAIP Gene

Sequence variations from dbSNP and Humsavar for TRAIP Gene

SNP ID Clin Chr 03 pos Sequence Context AA Info Type
rs939376 -- 49,841,769(+) TGACA(C/T)GGCTG intron-variant
rs1110295 -- 49,843,510(+) CCCAG(C/T)CTCAC intron-variant
rs1128535 -- 49,828,959(-) GTGTG(A/G/T)CACCC utr-variant-3-prime
rs2352967 -- 49,834,208(+) TGGGG(C/T)CCATG intron-variant
rs2352974 -- 49,853,180(+) TATAC(C/T)AAAAC intron-variant

Structural Variations from Database of Genomic Variants (DGV) for TRAIP Gene

Variant ID Type Subtype PubMed ID
nsv834688 CNV loss 17160897

Variation tolerance for TRAIP Gene

Residual Variation Intolerance Score: 44.3% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 1.21; 24.27% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for TRAIP Gene

Human Gene Mutation Database (HGMD)
TRAIP
SNPedia medical, phenotypic, and genealogical associations of SNPs for
TRAIP

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for TRAIP Gene

Disorders for TRAIP Gene

MalaCards: The human disease database

(2) MalaCards diseases for TRAIP Gene - From: ClinVar, Orphanet, Swiss-Prot, DISEASES, and GeneCards

Disorder Aliases PubMed IDs
seckel syndrome 9
  • sckl9
seckel syndrome
  • bird-headed dwarfism
- elite association - COSMIC cancer census association via MalaCards
Search TRAIP in MalaCards View complete list of genes associated with diseases

UniProtKB/Swiss-Prot

TRAIP_HUMAN
  • Seckel syndrome 9 (SCKL9) [MIM:616777]: A form of Seckel syndrome, a rare autosomal recessive disorder characterized by proportionate dwarfism of prenatal onset associated with low birth weight, growth retardation, severe microcephaly with a bird-headed like appearance, and mental retardation. {ECO:0000269 PubMed:26595769}. Note=The disease is caused by mutations affecting the gene represented in this entry.

Relevant External Links for TRAIP

Genetic Association Database (GAD)
TRAIP
Human Genome Epidemiology (HuGE) Navigator
TRAIP
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
TRAIP
genes like me logo Genes that share disorders with TRAIP: view

No data available for Genatlas for TRAIP Gene

Publications for TRAIP Gene

  1. TRAF-interacting protein (TRIP): a novel component of the tumor necrosis factor receptor (TNFR)- and CD30-TRAF signaling complexes that inhibits TRAF2-mediated NF-kappaB activation. (PMID: 9104814) Lee S.Y. … Choi Y. (J. Exp. Med. 1997) 2 3 4 22 65
  2. TRAIP promotes DNA damage response during genome replication and is mutated in primordial dwarfism. (PMID: 26595769) Harley M.E. … Jackson A.P. (Nat. Genet. 2016) 3 4 65
  3. TRIP/NOPO E3 ubiquitin ligase promotes ubiquitylation of DNA polymerase eta. (PMID: 24553286) Wallace H.A. … Lee L.A. (Development 2014) 3 4 65
  4. TRAF-interacting protein (TRIP) negatively regulates IFN-I^ production and antiviral response by promoting proteasomal degradation of TANK-binding kinase 1. (PMID: 22945920) Zhang M. … Gao C. (J. Exp. Med. 2012) 3 4 65
  5. Association analysis of 3p21 with Crohn's disease in a New Zealand population. (PMID: 20307617) Morgan A.R. … Ferguson L.R. (Hum. Immunol. 2010) 3 46 65

Products for TRAIP Gene

Sources for TRAIP Gene

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