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traf6.S TNF receptor associated factor 6 S homeolog [ Xenopus laevis (African clawed frog) ]

Gene ID: 734929, updated on 4-Nov-2024

Summary

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Official Symbol
traf6.S
Official Full Name
TNF receptor associated factor 6 S homeolog
Primary source
Xenbase:XB-GENE-6254727
Locus tag
XELAEV_18024513mg
See related
EnsemblRapid:ENSXLAG00005023024 AllianceGenome:Xenbase:XB-GENE-6254727
Gene type
protein coding
RefSeq status
PROVISIONAL
Organism
Xenopus laevis
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Amphibia; Batrachia; Anura; Pipoidea; Pipidae; Xenopodinae; Xenopus; Xenopus
Also known as
rnf85; xtraf6; traf6-a; traf6-b
Summary
Predicted to enable ubiquitin-protein transferase activity. Acts upstream of or within activation of NF-kappaB-inducing kinase activity. Predicted to be located in cell cortex; lipid droplet; and nucleus. Is expressed in nervous system; pharyngeal arch; and visual system. Orthologous to human TRAF6 (TNF receptor associated factor 6). [provided by Alliance of Genome Resources, Nov 2024]
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Genomic context

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See traf6.S in Genome Data Viewer
Location:
chromosome: 4S
Exon count:
7
Annotation release Status Assembly Chr Location
101 current Xenopus_laevis_v10.1 (GCF_017654675.1) 4S NC_054378.1 (16017007..16033539, complement)
100 previous assembly Xenopus_laevis_v2 (GCF_001663975.1) 4S NC_030731.1 (15425337..15441863, complement)

Chromosome 4S - NC_054378.1Genomic Context describing neighboring genes Neighboring gene low density lipoprotein receptor class A domain containing 3 S homeolog Neighboring gene proline rich 5 like S homeolog Neighboring gene recombination activating gene 1 S homeolog Neighboring gene uncharacterized LOC121393436 Neighboring gene recombination activating gene 2 S homeolog Neighboring gene ribosomal protein S6 kinase beta-2

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Bibliography

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Related articles in PubMed

  1. Identification and characterization of Xenopus laevis homologs of mammalian TRAF6 and its binding protein TIFA. Inoue J, et al. Gene, 2005 Sep 26. PMID 16023795
  2. Genetic and genomic tools for Xenopus research: The NIH Xenopus initiative. Klein SL, et al. Dev Dyn, 2002 Dec. PMID 12454917
  3. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, et al. Proc Natl Acad Sci U S A, 2002 Dec 24. PMID 12477932, Free PMC Article

GeneRIFs: Gene References Into Functions

General gene information

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Homology

Clone Names

  • MGC131035

Gene Ontology Provided by Xenbase

Function Evidence Code Pubs
enables metal ion binding IEA
Inferred from Electronic Annotation
more info
  
enables protein binding IPI
Inferred from Physical Interaction
more info
 PubMed 
enables transferase activity IEA
Inferred from Electronic Annotation
more info
  
enables tumor necrosis factor receptor binding IEA
Inferred from Electronic Annotation
more info
  
enables tumor necrosis factor receptor superfamily binding IEA
Inferred from Electronic Annotation
more info
  
enables ubiquitin protein ligase activity IEA
Inferred from Electronic Annotation
more info
  
enables ubiquitin-protein transferase activity IEA
Inferred from Electronic Annotation
more info
  
enables ubiquitin-protein transferase activity ISS
Inferred from Sequence or Structural Similarity
more info
  
enables zinc ion binding IEA
Inferred from Electronic Annotation
more info
  
Process Evidence Code Pubs
acts_upstream_of_or_within activation of NF-kappaB-inducing kinase activity IDA
Inferred from Direct Assay
more info
 PubMed 
acts_upstream_of_or_within innate immune response IEA
Inferred from Electronic Annotation
more info
  
acts_upstream_of_or_within intracellular signaling cassette IEA
Inferred from Electronic Annotation
more info
  
acts_upstream_of_or_within lipopolysaccharide-mediated signaling pathway IEA
Inferred from Electronic Annotation
more info
  
acts_upstream_of_or_within positive regulation of NF-kappaB transcription factor activity IEA
Inferred from Electronic Annotation
more info
  
acts_upstream_of_or_within protein K63-linked ubiquitination IEA
Inferred from Electronic Annotation
more info
  
acts_upstream_of_or_within protein K63-linked ubiquitination ISS
Inferred from Sequence or Structural Similarity
more info
  
acts_upstream_of_or_within protein ubiquitination IEA
Inferred from Electronic Annotation
more info
  
acts_upstream_of_or_within regulation of apoptotic process IEA
Inferred from Electronic Annotation
more info
  
acts_upstream_of_or_within regulation of canonical NF-kappaB signal transduction IEA
Inferred from Electronic Annotation
more info
  
acts_upstream_of_or_within regulation of metabolic process IEA
Inferred from Electronic Annotation
more info
  
acts_upstream_of_or_within signal transduction IEA
Inferred from Electronic Annotation
more info
  
acts_upstream_of_or_within tumor necrosis factor-mediated signaling pathway IEA
Inferred from Electronic Annotation
more info
  
Component Evidence Code Pubs
located_in cell cortex IEA
Inferred from Electronic Annotation
more info
  
located_in cytoplasm IEA
Inferred from Electronic Annotation
more info
  
located_in lipid droplet IEA
Inferred from Electronic Annotation
more info
  
located_in nucleus IEA
Inferred from Electronic Annotation
more info
  

General protein information

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Preferred Names
TNF receptor-associated factor 6-A
Names
E3 ubiquitin-protein ligase TRAF6
RING-type E3 ubiquitin transferase TRAF6-A
TNF receptor-associated factor 6, E3 ubiquitin protein ligase
NP_001089863.1

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_001096394.1 → NP_001089863.1  TNF receptor-associated factor 6-A

    See identical proteins and their annotated locations for NP_001089863.1

    Status: PROVISIONAL

    Source sequence(s)
    BC108562
    UniProtKB/Swiss-Prot
    Q32NM4, Q3MV19
    UniProtKB/TrEMBL
    A0A974D0K1
    Related
    ENSXLAP00005067865.1, ENSXLAT00005069399.1
    Conserved Domains (3) summary
    cd00162
    Location:71 → 109
    RING; RING-finger (Really Interesting New Gene) domain, a specialized type of Zn-finger of 40 to 60 residues that binds two atoms of zinc; defined by the 'cross-brace' motif C-X2-C-X(9-39)-C-X(1-3)- H-X(2-3)-(N/C/H)-X2-C-X(4-48)C-X2-C; probably involved in ...
    cd03776
    Location:385 → 534
    MATH_TRAF6; Tumor Necrosis Factor Receptor (TNFR)-Associated Factor (TRAF) family, TRAF6 subfamily, TRAF domain, C-terminal MATH subdomain; composed of proteins with similarity to human TRAF6, including the Drosophila protein DTRAF2. TRAF molecules serve as adapter ...
    pfam02176
    Location:206 → 263
    zf-TRAF; TRAF-type zinc finger

RefSeqs of Annotated Genomes: Xenopus laevis Annotation Release 101 details...Open this link in a new tab

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

Reference Xenopus_laevis_v10.1 Primary Assembly

Genomic

  1. NC_054378.1 Reference Xenopus_laevis_v10.1 Primary Assembly

    Range
    16017007..16033539 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q3MV19.1 GenPept UniProtKB/Swiss-Prot:Q3MV19

Gene LinkOut

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Molecular Biology Databases
Research Materials