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Aliases for TRIM23 Gene

Aliases for TRIM23 Gene

  • Tripartite Motif Containing 23 2 3 5
  • ADP-Ribosylation Factor Domain-Containing Protein 1 3 4
  • ADP-Ribosylation Factor Domain Protein 1, 64kDa 2 3
  • RING-Type E3 Ubiquitin Transferase TRIM23 3 4
  • Tripartite Motif-Containing Protein 23 3 4
  • GTP-Binding Protein ARD-1 3 4
  • RING Finger Protein 46 3 4
  • ARFD1 3 4
  • RNF46 3 4
  • ARD1 3 4
  • E3 Ubiquitin-Protein Ligase TRIM23 3
  • Tripartite Motif Protein TRIM23 3
  • Tripartite Motif-Containing 23 2
  • ARF Domain Protein 1 3
  • EC 2.3.2.27 4

External Ids for TRIM23 Gene

Previous HGNC Symbols for TRIM23 Gene

  • ARFD1

Previous GeneCards Identifiers for TRIM23 Gene

  • GC05M064902
  • GC05M064921
  • GC05M064885
  • GC05M061841

Summaries for TRIM23 Gene

Entrez Gene Summary for TRIM23 Gene

  • The protein encoded by this gene is a member of the tripartite motif (TRIM) family. The TRIM motif includes three zinc-binding domains, a RING, a B-box type 1 and a B-box type 2, and a coiled-coil region. This protein is also a member of the ADP ribosylation factor family of guanine nucleotide-binding family of proteins. Its carboxy terminus contains an ADP-ribosylation factor domain and a guanine nucleotide binding site, while the amino terminus contains a GTPase activating protein domain which acts on the guanine nucleotide binding site. The protein localizes to lysosomes and the Golgi apparatus. It plays a role in the formation of intracellular transport vesicles, their movement from one compartment to another, and phopholipase D activation. Three alternatively spliced transcript variants for this gene have been described. [provided by RefSeq, Jul 2008]

GeneCards Summary for TRIM23 Gene

TRIM23 (Tripartite Motif Containing 23) is a Protein Coding gene. Diseases associated with TRIM23 include Cholera. GO annotations related to this gene include identical protein binding and ligase activity. An important paralog of this gene is ARF3.

UniProtKB/Swiss-Prot for TRIM23 Gene

  • Acts as an E3 ubiquitin-protein ligase. In the presence of the human cytomegalovirus (HCMV) protein UL144, participates in Lys-63-linked auto-ubiquitination of TRAF6 resulting in the virally controlled activation of NF-kappa-B at early time of infection. The C-terminus can act as an allosteric activator of the cholera toxin catalytic subunit.

Gene Wiki entry for TRIM23 Gene

No data available for CIViC summary , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for TRIM23 Gene

Genomics for TRIM23 Gene

Regulatory Elements for TRIM23 Gene

Enhancers for TRIM23 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
GH05G065651 0.4 FANTOM5 11.7 -25.8 -25830 0.2 TRIM28 TRAPPC13 TRIM23 ENSG00000253251 SGTB NLN
GH05G065830 1 FANTOM5 ENCODE dbSUPER 1.5 -205.0 -205043 0.3 ZNF335 ZNF664 ZNF585B EGR2 ERBIN TRIM23 GC05P065768 ENSG00000269961
GH05G065623 1.1 ENCODE 0.7 +1.2 1162 3.2 HDGF PKNOX1 FOXA2 CREB3L1 ARNT WRNIP1 ARID4B SIN3A DMAP1 YY1 PPWD1 CENPK RNU6-540P NLN SGTB TRAPPC13 ENSG00000253251 TRIM23
GH05G065719 0.5 FANTOM5 1.4 -93.8 -93782 0.2 IRF1 EZH2 ERBIN ENSG00000252904 PPWD1 SGTB SREK1 TRAPPC13 CENPK TRIM23 NLN
GH05G065720 1 ENCODE 0.1 -96.2 -96172 2.9 PKNOX1 CREB3L1 ZNF133 ARID4B SIN3A DMAP1 GLI4 ZNF2 ZNF48 YY1 NLN CENPK PPWD1 ENSG00000250081 TRIM23
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around TRIM23 on UCSC Golden Path with GeneCards custom track

Promoters for TRIM23 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00000181598 1375 2801 HDGF PKNOX1 FOXA2 CREB3L1 ARNT WRNIP1 ARID4B SIN3A DMAP1 YY1

Genomic Location for TRIM23 Gene

Chromosome:
5
Start:
65,589,680 bp from pter
End:
65,625,975 bp from pter
Size:
36,296 bases
Orientation:
Minus strand

Genomic View for TRIM23 Gene

Genes around TRIM23 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
TRIM23 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for TRIM23 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for TRIM23 Gene

Proteins for TRIM23 Gene

  • Protein details for TRIM23 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    P36406-TRI23_HUMAN
    Recommended name:
    E3 ubiquitin-protein ligase TRIM23
    Protein Accession:
    P36406
    Secondary Accessions:
    • Q9BZY4
    • Q9BZY5

    Protein attributes for TRIM23 Gene

    Size:
    574 amino acids
    Molecular mass:
    64067 Da
    Quaternary structure:
    • Interacts with PSCD1. Interacts with human cytomegalovirus protein UL144; this interaction might causes auto-ubiquitination of TRAF6, leading to NF-kappaB activation.

    Alternative splice isoforms for TRIM23 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for TRIM23 Gene

Post-translational modifications for TRIM23 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

No data available for DME Specific Peptides for TRIM23 Gene

Domains & Families for TRIM23 Gene

Suggested Antigen Peptide Sequences for TRIM23 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

P36406

UniProtKB/Swiss-Prot:

TRI23_HUMAN :
  • The RING-type zinc finger domain is responsible for E3 ubiquitin ligase activity.
  • In the C-terminal section; belongs to the small GTPase superfamily. Arf family.
Domain:
  • The RING-type zinc finger domain is responsible for E3 ubiquitin ligase activity.
Family:
  • In the C-terminal section; belongs to the small GTPase superfamily. Arf family.
genes like me logo Genes that share domains with TRIM23: view

Function for TRIM23 Gene

Molecular function for TRIM23 Gene

UniProtKB/Swiss-Prot CatalyticActivity:
S-ubiquitinyl-[E2 ubiquitin-conjugating enzyme]-L-cysteine + [acceptor protein]-L-lysine = [E2 ubiquitin-conjugating enzyme]-L-cysteine + N(6)-ubiquitinyl-[acceptor protein]-L-lysine.
UniProtKB/Swiss-Prot Function:
Acts as an E3 ubiquitin-protein ligase. In the presence of the human cytomegalovirus (HCMV) protein UL144, participates in Lys-63-linked auto-ubiquitination of TRAF6 resulting in the virally controlled activation of NF-kappa-B at early time of infection. The C-terminus can act as an allosteric activator of the cholera toxin catalytic subunit.

Enzyme Numbers (IUBMB) for TRIM23 Gene

Gene Ontology (GO) - Molecular Function for TRIM23 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000166 nucleotide binding IEA --
GO:0003676 nucleic acid binding IEA --
GO:0003924 GTPase activity IDA 8700863
GO:0004842 ubiquitin-protein transferase activity IDA 15684077
GO:0005515 protein binding IPI 16189514
genes like me logo Genes that share ontologies with TRIM23: view
genes like me logo Genes that share phenotypes with TRIM23: view

Animal Model Products

CRISPR Products

Inhibitory RNA Products

No data available for Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for TRIM23 Gene

Localization for TRIM23 Gene

Subcellular locations from UniProtKB/Swiss-Prot for TRIM23 Gene

Endomembrane system. Golgi apparatus membrane. Lysosome membrane. Note=Membrane-associated with the Golgi complex and lysosomal structures.

Subcellular locations from

COMPARTMENTS
Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for TRIM23 gene
Compartment Confidence
extracellular 5
nucleus 4
lysosome 4
golgi apparatus 4
cytosol 3

Gene Ontology (GO) - Cellular Components for TRIM23 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000139 Golgi membrane IDA 9671726
GO:0005622 intracellular IEA --
GO:0005634 nucleus IEA --
GO:0005737 cytoplasm IEA --
GO:0005764 lysosome IEA --
genes like me logo Genes that share ontologies with TRIM23: view

Pathways & Interactions for TRIM23 Gene

SuperPathways for TRIM23 Gene

No Data Available

UniProtKB/Swiss-Prot P36406-TRI23_HUMAN

  • Pathway: Protein modification; protein ubiquitination.

Gene Ontology (GO) - Biological Process for TRIM23 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0007264 small GTPase mediated signal transduction IEA --
GO:0016032 viral process IEA --
GO:0016567 protein ubiquitination IEA,IDA --
GO:0043085 positive regulation of catalytic activity IEA --
genes like me logo Genes that share ontologies with TRIM23: view

No data available for Pathways by source and SIGNOR curated interactions for TRIM23 Gene

Drugs & Compounds for TRIM23 Gene

(1) Drugs for TRIM23 Gene - From: Novoseek

Name Status Disease Links Group Role Mechanism of Action Clinical Trials

(2) Additional Compounds for TRIM23 Gene - From: Novoseek

Name Synonyms Role CAS Number PubChem IDs PubMed IDs
genes like me logo Genes that share compounds with TRIM23: view

Transcripts for TRIM23 Gene

Unigene Clusters for TRIM23 Gene

Tripartite motif containing 23:
Representative Sequences:

CRISPR Products

Inhibitory RNA Products

Alternative Splicing Database (ASD) splice patterns (SP) for TRIM23 Gene

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

Relevant External Links for TRIM23 Gene

GeneLoc Exon Structure for
TRIM23
ECgene alternative splicing isoforms for
TRIM23

Expression for TRIM23 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for TRIM23 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

Protein differential expression in normal tissues from HIPED for TRIM23 Gene

This gene is overexpressed in Salivary gland (10.0).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MaxQB, and MOPED for TRIM23 Gene



NURSA nuclear receptor signaling pathways regulating expression of TRIM23 Gene:

TRIM23

SOURCE GeneReport for Unigene cluster for TRIM23 Gene:

Hs.792

Evidence on tissue expression from TISSUES for TRIM23 Gene

  • Nervous system(4.8)
genes like me logo Genes that share expression patterns with TRIM23: view

Primer Products

No data available for mRNA differential expression in normal tissues , Protein tissue co-expression partners , mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for TRIM23 Gene

Orthologs for TRIM23 Gene

This gene was present in the common ancestor of animals.

Orthologs for TRIM23 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia TRIM23 34 35
  • 99.65 (n)
platypus
(Ornithorhynchus anatinus)
Mammalia TRIM23 35
  • 96 (a)
OneToOne
dog
(Canis familiaris)
Mammalia TRIM23 34 35
  • 93.79 (n)
cow
(Bos Taurus)
Mammalia TRIM23 34 35
  • 91.81 (n)
mouse
(Mus musculus)
Mammalia Trim23 34 16 35
  • 91.5 (n)
rat
(Rattus norvegicus)
Mammalia Trim23 34
  • 90.42 (n)
oppossum
(Monodelphis domestica)
Mammalia TRIM23 35
  • 84 (a)
OneToOne
chicken
(Gallus gallus)
Aves TRIM23 34 35
  • 82.93 (n)
lizard
(Anolis carolinensis)
Reptilia TRIM23 35
  • 92 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia trim23 34
  • 78.05 (n)
zebrafish
(Danio rerio)
Actinopterygii trim23 34 35
  • 76.68 (n)
rainbow trout
(Oncorhynchus mykiss)
Actinopterygii Omy.5892 34
worm
(Caenorhabditis elegans)
Secernentea arc-1 34 35
  • 49.15 (n)
sea squirt
(Ciona savignyi)
Ascidiacea -- 35
  • 48 (a)
OneToOne
Species where no ortholog for TRIM23 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • 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)
  • fruit fly (Drosophila melanogaster)
  • 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)
  • 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 TRIM23 Gene

ENSEMBL:
Gene Tree for TRIM23 (if available)
TreeFam:
Gene Tree for TRIM23 (if available)

Paralogs for TRIM23 Gene

(19) SIMAP similar genes for TRIM23 Gene using alignment to 4 proteins:

genes like me logo Genes that share paralogs with TRIM23: view

Variants for TRIM23 Gene

Sequence variations from dbSNP and Humsavar for TRIM23 Gene

SNP ID Clin Chr 05 pos Sequence Context AA Info Type
rs1000080053 -- 65,594,929(+) TTTTA(C/T)ATAAC intron-variant
rs1000117029 -- 65,593,378(+) TGCAG(G/T)GAGCA intron-variant
rs1000123254 -- 65,593,071(+) TAGAA(C/T)TGCAG intron-variant
rs1000170190 -- 65,599,857(+) TGTAT(C/T)GTTCT intron-variant
rs1000328476 -- 65,621,104(+) TCTCA(C/G)CACTT intron-variant

Structural Variations from Database of Genomic Variants (DGV) for TRIM23 Gene

Variant ID Type Subtype PubMed ID
esv3894204 CNV loss 25118596

Variation tolerance for TRIM23 Gene

Residual Variation Intolerance Score: 7.46% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 1.99; 36.78% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for TRIM23 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
TRIM23

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for TRIM23 Gene

Disorders for TRIM23 Gene

MalaCards: The human disease database

(1) MalaCards diseases for TRIM23 Gene - From: Novoseek and GeneCards

Disorder Aliases PubMed IDs
cholera
  • cholera - vibrio cholerae
- elite association - COSMIC cancer census association via MalaCards

Relevant External Links for TRIM23

Atlas of Genetics and Cytogenetics in Oncology and Haematology:
TRIM23
genes like me logo Genes that share disorders with TRIM23: view

No data available for UniProtKB/Swiss-Prot and Genatlas for TRIM23 Gene

Publications for TRIM23 Gene

  1. E3 ubiquitin ligase activity of the trifunctional ARD1 (ADP- ribosylation factor domain protein 1). (PMID: 15684077) Vichi A. … Vaughan M. (Proc. Natl. Acad. Sci. U.S.A. 2005) 3 4 22 64
  2. Specific functional interaction of human cytohesin-1 and ADP- ribosylation factor domain protein (ARD1). (PMID: 10748148) Vitale N. … Vaughan M. (J. Biol. Chem. 2000) 3 4 22 64
  3. Localization of ADP-ribosylation factor domain protein 1 (ARD1) in lysosomes and Golgi apparatus. (PMID: 9671726) Vitale N. … Vaughan M. (Proc. Natl. Acad. Sci. U.S.A. 1998) 3 4 22 64
  4. ARD 1, a 64-kDa guanine nucleotide-binding protein with a carboxyl- terminal ADP-ribosylation factor domain. (PMID: 8473324) Mishima K. … Vaughan M. (J. Biol. Chem. 1993) 2 3 4 64
  5. Identification of TRIM23 as a cofactor involved in the regulation of NF-kappaB by human cytomegalovirus. (PMID: 19176615) Poole E. … Sinclair J. (J. Virol. 2009) 3 4 64

Products for TRIM23 Gene

Sources for TRIM23 Gene

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