Free for academic non-profit institutions. Other users need a Commercial license

Aliases for TRIM56 Gene

Aliases for TRIM56 Gene

  • Tripartite Motif Containing 56 2 3 5
  • Tripartite Motif-Containing Protein 56 3 4
  • RING Finger Protein 109 3 4
  • RNF109 3 4
  • E3 Ubiquitin-Protein Ligase TRIM56 3
  • Tripartite Motif-Containing 56 2
  • EC 6.3.2.- 4

External Ids for TRIM56 Gene

Previous GeneCards Identifiers for TRIM56 Gene

  • GC07P099213
  • GC07P100275
  • GC07P100288
  • GC07P100322
  • GC07P100515
  • GC07P100728
  • GC07P095322

Summaries for TRIM56 Gene

GeneCards Summary for TRIM56 Gene

TRIM56 (Tripartite Motif Containing 56) is a Protein Coding gene. Among its related pathways are Cytosolic sensors of pathogen-associated DNA and Immune System. GO annotations related to this gene include poly(A) RNA binding and ubiquitin-protein transferase activity. An important paralog of this gene is TRIM3.

UniProtKB/Swiss-Prot for TRIM56 Gene

  • E3 ubiquitin-protein ligase that mediates Lys-63-linked polyubiquitination of TMEM173/STING, thereby playing a key role in innate immunity. TMEM173/STING Lys-63-linked ubiquitination activates the production of type I interferon IFN-beta following detection of pathogen- and host-derived double-stranded DNA (By similarity).

No data available for Entrez Gene Summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for TRIM56 Gene

Genomics for TRIM56 Gene

Regulatory Elements for TRIM56 Gene

Enhancers for TRIM56 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 TRIM56 on UCSC Golden Path with GeneCards custom track

Promoters for TRIM56 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters

Genomic Location for TRIM56 Gene

Chromosome:
7
Start:
101,085,424 bp from pter
End:
101,097,967 bp from pter
Size:
12,544 bases
Orientation:
Plus strand

Genomic View for TRIM56 Gene

Genes around TRIM56 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
TRIM56 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for TRIM56 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for TRIM56 Gene

Proteins for TRIM56 Gene

  • Protein details for TRIM56 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q9BRZ2-TRI56_HUMAN
    Recommended name:
    E3 ubiquitin-protein ligase TRIM56
    Protein Accession:
    Q9BRZ2
    Secondary Accessions:
    • Q6PJS5
    • Q86VT6
    • Q8N2H8
    • Q8NAC0
    • Q9H031

    Protein attributes for TRIM56 Gene

    Size:
    755 amino acids
    Molecular mass:
    81488 Da
    Quaternary structure:
    • Interacts with TMEM173/STING.
    SequenceCaution:
    • Sequence=AAH11882.1; Type=Erroneous initiation; Note=Translation N-terminally shortened.; Evidence={ECO:0000305}; Sequence=BAC11500.1; Type=Erroneous initiation; Note=Translation N-terminally extended.; Evidence={ECO:0000305};

    Alternative splice isoforms for TRIM56 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for TRIM56 Gene

Post-translational modifications for TRIM56 Gene

  • Ubiquitination at Lys 270
  • Modification sites at PhosphoSitePlus

Other Protein References for TRIM56 Gene

ENSEMBL proteins:
REFSEQ proteins:

No data available for DME Specific Peptides for TRIM56 Gene

Domains & Families for TRIM56 Gene

Gene Families for TRIM56 Gene

Suggested Antigen Peptide Sequences for TRIM56 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

Q9BRZ2

UniProtKB/Swiss-Prot:

TRI56_HUMAN :
  • Belongs to the TRIM/RBCC family.
  • Contains 2 B box-type zinc fingers.
Family:
  • Belongs to the TRIM/RBCC family.
Similarity:
  • Contains 2 B box-type zinc fingers.
  • Contains 1 RING-type zinc finger.
genes like me logo Genes that share domains with TRIM56: view

Function for TRIM56 Gene

Molecular function for TRIM56 Gene

UniProtKB/Swiss-Prot Function:
E3 ubiquitin-protein ligase that mediates Lys-63-linked polyubiquitination of TMEM173/STING, thereby playing a key role in innate immunity. TMEM173/STING Lys-63-linked ubiquitination activates the production of type I interferon IFN-beta following detection of pathogen- and host-derived double-stranded DNA (By similarity).

Enzyme Numbers (IUBMB) for TRIM56 Gene

Gene Ontology (GO) - Molecular Function for TRIM56 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0004842 ubiquitin-protein transferase activity TAS --
GO:0008270 zinc ion binding IEA --
GO:0016874 ligase activity IEA --
GO:0044822 poly(A) RNA binding IDA 22658674
genes like me logo Genes that share ontologies with TRIM56: view
genes like me logo Genes that share phenotypes with TRIM56: view

Animal Model Products

CRISPR Products

Inhibitory RNA Products

Clone Products

Flow Cytometry Products

No data available for Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for TRIM56 Gene

Localization for TRIM56 Gene

Subcellular locations from UniProtKB/Swiss-Prot for TRIM56 Gene

Cytoplasm.

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for TRIM56 Gene COMPARTMENTS Subcellular localization image for TRIM56 gene
Compartment Confidence
cytosol 5
nucleus 4

Gene Ontology (GO) - Cellular Components for TRIM56 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005737 cytoplasm ISS --
GO:0005829 cytosol TAS --
genes like me logo Genes that share ontologies with TRIM56: view

Pathways & Interactions for TRIM56 Gene

genes like me logo Genes that share pathways with TRIM56: view

Gene Ontology (GO) - Biological Process for TRIM56 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0032479 regulation of type I interferon production TAS --
GO:0032608 interferon-beta production ISS --
GO:0034340 response to type I interferon ISS --
GO:0051607 defense response to virus ISS --
GO:0070534 protein K63-linked ubiquitination ISS --
genes like me logo Genes that share ontologies with TRIM56: view

No data available for SIGNOR curated interactions for TRIM56 Gene

Drugs & Compounds for TRIM56 Gene

No Compound Related Data Available

Transcripts for TRIM56 Gene

Unigene Clusters for TRIM56 Gene

Tripartite motif containing 56:
Representative Sequences:

CRISPR Products

Inhibitory RNA Products

Clone Products

Flow Cytometry Products

Alternative Splicing Database (ASD) splice patterns (SP) for TRIM56 Gene

No ASD Table

Relevant External Links for TRIM56 Gene

GeneLoc Exon Structure for
TRIM56
ECgene alternative splicing isoforms for
TRIM56

Expression for TRIM56 Gene

mRNA expression in normal human tissues for TRIM56 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

Protein differential expression in normal tissues from HIPED for TRIM56 Gene

This gene is overexpressed in Peripheral blood mononuclear cells (12.0), Cervix (10.9), and Lung (6.0).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MaxQB, and MOPED for TRIM56 Gene



Protein tissue co-expression partners for TRIM56 Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of TRIM56 Gene:

TRIM56

SOURCE GeneReport for Unigene cluster for TRIM56 Gene:

Hs.521092
genes like me logo Genes that share expression patterns with TRIM56: view

Primer Products

No data available for mRNA differential expression in normal tissues and mRNA Expression by UniProt/SwissProt for TRIM56 Gene

Orthologs for TRIM56 Gene

This gene was present in the common ancestor of animals.

Orthologs for TRIM56 Gene

Organism Taxonomy Gene Similarity Type Details
cow
(Bos Taurus)
Mammalia TRIM56 34
  • 85.3 (n)
  • 87.42 (a)
TRIM56 35
  • 89 (a)
OneToOne
dog
(Canis familiaris)
Mammalia TRIM56 34
  • 87.15 (n)
  • 90.86 (a)
-- 35
  • 19 (a)
ManyToMany
mouse
(Mus musculus)
Mammalia Trim56 34
  • 79.22 (n)
  • 83.22 (a)
Trim56 16
Trim56 35
  • 83 (a)
OneToOne
chimpanzee
(Pan troglodytes)
Mammalia TRIM56 34
  • 98.89 (n)
  • 98.88 (a)
TRIM56 35
  • 99 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia -- 35
  • 19 (a)
ManyToMany
lizard
(Anolis carolinensis)
Reptilia TRIM56 35
  • 47 (a)
OneToOne
fruit fly
(Drosophila melanogaster)
Insecta abba 35
  • 6 (a)
ManyToMany
worm
(Caenorhabditis elegans)
Secernentea nhl-1 35
  • 11 (a)
ManyToMany
sea squirt
(Ciona savignyi)
Ascidiacea -- 35
  • 13 (a)
OneToMany
Species where no ortholog for TRIM56 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)
  • chicken (Gallus gallus)
  • 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)
  • oppossum (Monodelphis domestica)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rainbow trout (Oncorhynchus mykiss)
  • rat (Rattus norvegicus)
  • 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)
  • tropical clawed frog (Silurana tropicalis)
  • wheat (Triticum aestivum)
  • zebrafish (Danio rerio)

Evolution for TRIM56 Gene

ENSEMBL:
Gene Tree for TRIM56 (if available)
TreeFam:
Gene Tree for TRIM56 (if available)

Paralogs for TRIM56 Gene

Paralogs for TRIM56 Gene

(2) SIMAP similar genes for TRIM56 Gene using alignment to 2 proteins:

genes like me logo Genes that share paralogs with TRIM56: view

Variants for TRIM56 Gene

Sequence variations from dbSNP and Humsavar for TRIM56 Gene

SNP ID Clin Chr 07 pos Sequence Context AA Info Type
rs7801428 -- 101,083,824(+) GGCCT(A/G)TTTTT upstream-variant-2KB
rs10230363 -- 101,090,064(+) AGGAG(C/G)CCTGA utr-variant-3-prime
rs10233905 -- 101,090,832(+) TTCTG(C/T)TTCGG utr-variant-3-prime
rs10267665 -- 101,084,716(+) TCTTA(C/T)TGttt upstream-variant-2KB
rs4132583 -- 101,090,046(-) TGTAG(A/G)ACCCT utr-variant-3-prime

Structural Variations from Database of Genomic Variants (DGV) for TRIM56 Gene

Variant ID Type Subtype PubMed ID
esv2734888 CNV deletion 23290073
esv2759547 CNV gain+loss 17122850
nsv1030604 CNV gain 25217958
nsv1033081 CNV gain 25217958
nsv428181 CNV gain+loss 18775914
nsv831074 CNV loss 17160897
nsv831075 CNV loss 17160897

Variation tolerance for TRIM56 Gene

Residual Variation Intolerance Score: 7.25% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 3.14; 51.46% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for TRIM56 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
TRIM56

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for TRIM56 Gene

Disorders for TRIM56 Gene

Relevant External Links for TRIM56

Atlas of Genetics and Cytogenetics in Oncology and Haematology:
TRIM56

No disorders were found for TRIM56 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for TRIM56 Gene

Publications for TRIM56 Gene

  1. Global, in vivo, and site-specific phosphorylation dynamics in signaling networks. (PMID: 17081983) Olsen J.V. … Mann M. (Cell 2006) 3 4 65
  2. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T. … Sugano S. (Nat. Genet. 2004) 3 4 65
  3. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) Gerhard D.S. … Malek J. (Genome Res. 2004) 3 4 65
  4. The DNA sequence of human chromosome 7. (PMID: 12853948) Hillier L.W. … Wilson R.K. (Nature 2003) 3 4 65
  5. The C-Terminal Tail of TRIM56 Dictates Antiviral Restriction of Influenza A and B Viruses by Impeding Viral RNA Synthesis. (PMID: 26889027) Liu B. … Li K. (J. Virol. 2016) 3 65

Products for TRIM56 Gene

Sources for TRIM56 Gene

Content
Loading form....