Aliases for TRIM58 Gene

Aliases for TRIM58 Gene

  • Tripartite Motif Containing 58 2 3 5
  • RING-Type E3 Ubiquitin Transferase TRIM58 3 4
  • Tripartite Motif-Containing Protein 58 3 4
  • E3 Ubiquitin-Protein Ligase TRIM58 3 4
  • Tripartite Motif-Containing 58 2
  • Protein BIA2 4
  • EC 2.3.2.27 4
  • BIA2 3

External Ids for TRIM58 Gene

Previous GeneCards Identifiers for TRIM58 Gene

  • GC01P244347
  • GC01P246087
  • GC01P248020
  • GC01P218409

Summaries for TRIM58 Gene

GeneCards Summary for TRIM58 Gene

TRIM58 (Tripartite Motif Containing 58) is a Protein Coding gene. Diseases associated with TRIM58 include Lung Squamous Cell Carcinoma. Gene Ontology (GO) annotations related to this gene include ligase activity. An important paralog of this gene is TRIM21.

UniProtKB/Swiss-Prot Summary for TRIM58 Gene

  • E3 ubiquitin ligase induced during late erythropoiesis. Directly binds and ubiquitinates the intermediate chain of the microtubule motor dynein (DYNC1LI1/DYNC1LI2), stimulating the degradation of the dynein holoprotein complex. May participate in the erythroblast enucleation process through regulation of nuclear polarization.

Additional gene information for TRIM58 Gene

No data available for Entrez Gene Summary , CIViC Summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , Rfam classification and piRNA Summary for TRIM58 Gene

Genomics for TRIM58 Gene

GeneHancer (GH) Regulatory Elements for TRIM58 Gene

Promoters and enhancers for TRIM58 Gene
GeneHancer (GH) Identifier GH Type GH
Score
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH01J247856 Promoter/Enhancer 1.6 EPDnew Ensembl ENCODE 521.5 +0.5 504 1.8 HNRNPK CTCF NRF1 PHB2 ZBTB11 AFF1 ZBTB26 TARDBP REST DNMT1 TRIM58 OR2T8 RF00017-557
GH01J247854 Enhancer 1.3 FANTOM5 Ensembl ENCODE 514.7 -2.0 -1956 2.1 ZBTB5 ZBTB11 MYC CTBP1 NCOR1 NEUROD1 ZNF316 NFIC ARNT FOSL1 TRIM58 OR2T8 OR13G1 OR2W3 OR11L1
GH01J247858 Enhancer 0.7 ENCODE 511 +1.9 1914 0.5 HDAC3 NCOR1 ZNF316 ARNT CEBPG MAX POLR2H NFE2 BCOR MNT TRIM58 OR2AJ1 OR2T8 CLK3P2 OR2L13 OR2X1P RF00017-557
GH01J247852 Enhancer 0.5 Ensembl 37.9 -4.5 -4486 1.8 ZNF316 MAFF MAFK SPI1 NFE2 MAFG HMBOX1 EMSY TRIM58 OR2AJ1 OR2T8 OR13G1 OR11L1
GH01J247639 Promoter/Enhancer 1.3 Ensembl ENCODE CraniofacialAtlas 6.9 -217.5 -217486 1 NRF1 CREB3L1 MAX POLR2G PHF8 POLR2A E2F6 TFDP1 EGR1 HMGN3 ENSG00000235749 ENSG00000236817 LOC102724446 TRIM58
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around TRIM58 on UCSC Golden Path with GeneCards custom track

Cistromic (ChIP-Seq) regulation report from SPP (The Signaling Pathways Project) for TRIM58

Top Transcription factor binding sites by QIAGEN in the TRIM58 gene promoter:
  • E2F
  • E2F-1
  • E2F-2
  • E2F-3a
  • E2F-4
  • E2F-5
  • E47
  • GATA-2
  • GR
  • GR-alpha

Genomic Locations for TRIM58 Gene

Genomic Locations for TRIM58 Gene
chr1:247,857,187-247,880,138
(GRCh38/hg38)
Size:
22,952 bases
Orientation:
Plus strand
chr1:248,020,501-248,043,440
(GRCh37/hg19)
Size:
22,940 bases
Orientation:
Plus strand

Genomic View for TRIM58 Gene

Genes around TRIM58 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
TRIM58 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for TRIM58 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for TRIM58 Gene

Proteins for TRIM58 Gene

  • Protein details for TRIM58 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q8NG06-TRI58_HUMAN
    Recommended name:
    E3 ubiquitin-protein ligase TRIM58
    Protein Accession:
    Q8NG06
    Secondary Accessions:
    • Q6B0H9

    Protein attributes for TRIM58 Gene

    Size:
    486 amino acids
    Molecular mass:
    54766 Da
    Quaternary structure:
    No Data Available
    SequenceCaution:
    • Sequence=AAM63958.1; Type=Erroneous initiation; Evidence={ECO:0000305};

neXtProt entry for TRIM58 Gene

Post-translational modifications for TRIM58 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for TRIM58 Gene

ENSEMBL proteins:
REFSEQ proteins:

No data available for DME Specific Peptides for TRIM58 Gene

Domains & Families for TRIM58 Gene

Gene Families for TRIM58 Gene

HGNC:
Human Protein Atlas (HPA):
  • Enzymes
  • Predicted intracellular proteins

Protein Domains for TRIM58 Gene

Suggested Antigen Peptide Sequences for TRIM58 Gene

GenScript: Design optimal peptide antigens:
  • Protein BIA2 (TRI58_HUMAN)

Graphical View of Domain Structure for InterPro Entry

Q8NG06

UniProtKB/Swiss-Prot:

TRI58_HUMAN :
  • The RING finger is required for ubiquitin ligase activity.
  • Belongs to the TRIM/RBCC family.
Domain:
  • The RING finger is required for ubiquitin ligase activity.
Family:
  • Belongs to the TRIM/RBCC family.
genes like me logo Genes that share domains with TRIM58: view

Function for TRIM58 Gene

Molecular function for TRIM58 Gene

UniProtKB/Swiss-Prot Function:
E3 ubiquitin ligase induced during late erythropoiesis. Directly binds and ubiquitinates the intermediate chain of the microtubule motor dynein (DYNC1LI1/DYNC1LI2), stimulating the degradation of the dynein holoprotein complex. May participate in the erythroblast enucleation process through regulation of nuclear polarization.
UniProtKB/Swiss-Prot CatalyticActivity:
Reaction=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.; EC=2.3.2.27;.

Enzyme Numbers (IUBMB) for TRIM58 Gene

Phenotypes From GWAS Catalog for TRIM58 Gene

Gene Ontology (GO) - Molecular Function for TRIM58 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003674 molecular_function ND --
GO:0005515 protein binding IEA --
GO:0008270 zinc ion binding IEA --
GO:0016740 transferase activity IEA --
GO:0045504 dynein heavy chain binding IEA --
genes like me logo Genes that share ontologies with TRIM58: view
genes like me logo Genes that share phenotypes with TRIM58: view

Animal Models for TRIM58 Gene

MGI Knock Outs for TRIM58:

Animal Model Products

CRISPR Products

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for TRIM58

No data available for Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for TRIM58 Gene

Localization for TRIM58 Gene

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 TRIM58 gene
Compartment Confidence
nucleus 3
cytosol 2
plasma membrane 1
extracellular 1
cytoskeleton 1
mitochondrion 1
lysosome 1
golgi apparatus 1

No data available for Subcellular locations from UniProtKB/Swiss-Prot , Subcellular locations from the Human Protein Atlas (HPA) and Gene Ontology (GO) - Cellular Components for TRIM58 Gene

Pathways & Interactions for TRIM58 Gene

PathCards logo

SuperPathways for TRIM58 Gene

No Data Available

UniProtKB/Swiss-Prot Q8NG06-TRI58_HUMAN

  • Pathway: Protein modification; protein ubiquitination.

Gene Ontology (GO) - Biological Process for TRIM58 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000209 protein polyubiquitination IEA --
GO:0006511 ubiquitin-dependent protein catabolic process IEA --
GO:0008150 biological_process ND --
GO:0016567 protein ubiquitination IEA --
GO:0051865 protein autoubiquitination IEA --
genes like me logo Genes that share ontologies with TRIM58: view

No data available for Pathways by source and SIGNOR curated interactions for TRIM58 Gene

Drugs & Compounds for TRIM58 Gene

No Compound Related Data Available

Transcripts for TRIM58 Gene

mRNA/cDNA for TRIM58 Gene

1 REFSEQ mRNAs :
6 NCBI additional mRNA sequence :
1 Ensembl transcripts including schematic representations, and UCSC links to gene/alias where relevant :

CRISPR Products

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for TRIM58

Alternative Splicing Database (ASD) splice patterns (SP) for TRIM58 Gene

No ASD Table

Relevant External Links for TRIM58 Gene

GeneLoc Exon Structure for
TRIM58

Expression for TRIM58 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for TRIM58 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for TRIM58 Gene

This gene is overexpressed in Whole Blood (x32.7).

Protein differential expression in normal tissues from HIPED for TRIM58 Gene

This gene is overexpressed in Peripheral blood mononuclear cells (31.4), Bone (15.0), and Platelet (13.7).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, MaxQB, and MOPED for TRIM58 Gene



Protein tissue co-expression partners for TRIM58 Gene

Transcriptomic regulation report from SPP (The Signaling Pathways Project) for TRIM58

SOURCE GeneReport for Unigene cluster for TRIM58 Gene:

Hs.269151

mRNA Expression by UniProt/SwissProt for TRIM58 Gene:

Q8NG06-TRI58_HUMAN
Tissue specificity: Expressed in erythroblasts.

Evidence on tissue expression from TISSUES for TRIM58 Gene

  • Lung(4.4)
  • Blood(2.1)
genes like me logo Genes that share expression patterns with TRIM58: view

No data available for Phenotype-based relationships between genes and organs from Gene ORGANizer for TRIM58 Gene

Orthologs for TRIM58 Gene

This gene was present in the common ancestor of chordates.

Orthologs for TRIM58 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia TRIM58 31 30
  • 98.9 (n)
OneToOne
dog
(Canis familiaris)
Mammalia TRIM58 31 30
  • 84.71 (n)
OneToOne
cow
(Bos Taurus)
Mammalia TRIM58 31 30
  • 84.23 (n)
OneToOne
mouse
(Mus musculus)
Mammalia Trim58 17 31 30
  • 81.52 (n)
rat
(Rattus norvegicus)
Mammalia Trim58 30
  • 80.4 (n)
oppossum
(Monodelphis domestica)
Mammalia TRIM58 31
  • 62 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia TRIM58 31
  • 55 (a)
OneToOne
chicken
(Gallus gallus)
Aves LOC770718 30
  • 58.64 (n)
-- 31
  • 41 (a)
OneToMany
lizard
(Anolis carolinensis)
Reptilia -- 31
  • 40 (a)
OneToMany
Species where no ortholog for TRIM58 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)
  • rainbow trout (Oncorhynchus mykiss)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea squirt (Ciona intestinalis)
  • sea squirt (Ciona savignyi)
  • 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)
  • worm (Caenorhabditis elegans)
  • zebrafish (Danio rerio)

Evolution for TRIM58 Gene

ENSEMBL:
Gene Tree for TRIM58 (if available)
TreeFam:
Gene Tree for TRIM58 (if available)
Aminode:
Evolutionary constrained regions (ECRs) for TRIM58: view image

Paralogs for TRIM58 Gene

genes like me logo Genes that share paralogs with TRIM58: view

Variants for TRIM58 Gene

Sequence variations, with clinical significance, from ClinVar and Humsavar, with links to dbSNP for TRIM58 Gene

SNP ID Clinical significance and condition Chr 01 pos Variation AA Info Type
rs11204523 - p.Trp3Ser
rs1339847 - p.Val322Ile
rs3811444 - p.Thr374Met

Additional dbSNP identifiers (rs#s) for TRIM58 Gene

Structural Variations from Database of Genomic Variants (DGV) for TRIM58 Gene

Variant ID Type Subtype PubMed ID
dgv604n100 CNV gain 25217958
dgv605n100 CNV gain 25217958
dgv606n100 CNV gain 25217958
esv1620378 CNV insertion 17803354
esv2727906 CNV deletion 23290073
esv2759014 CNV gain+loss 17122850
esv2762235 CNV gain 21179565
esv33129 CNV gain+loss 17666407
esv34503 CNV gain 17911159
esv3589522 CNV gain 21293372
esv3891415 CNV gain 25118596
nsv1008024 CNV gain 25217958
nsv1010087 CNV gain 25217958
nsv1013273 CNV gain 25217958
nsv515858 CNV gain+loss 19592680
nsv5321 CNV deletion 18451855
nsv549597 CNV gain 21841781
nsv549601 CNV loss 21841781
nsv549602 CNV loss 21841781
nsv819723 CNV gain 19587683
nsv827775 CNV gain 20364138

Variation tolerance for TRIM58 Gene

Residual Variation Intolerance Score: 39.1% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 6.88; 79.48% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for TRIM58 Gene

Human Gene Mutation Database (HGMD)
TRIM58
SNPedia medical, phenotypic, and genealogical associations of SNPs for
TRIM58

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for TRIM58 Gene

Disorders for TRIM58 Gene

MalaCards: The human disease database

(1) MalaCards diseases for TRIM58 Gene - From: DISEASES and GeneCards

Disorder Aliases PubMed IDs
lung squamous cell carcinoma
  • epidermoid cell carcinoma of the lung
- elite association - COSMIC cancer census association via MalaCards

Additional Disease Information for TRIM58

Genetic Association Database
(GAD)
Human Genome Epidemiology Navigator
(HuGE)
ATLAS of Genetics and Cytogenetics in Oncology and Haematology
genes like me logo Genes that share disorders with TRIM58: view

No data available for UniProtKB/Swiss-Prot and Genatlas for TRIM58 Gene

Publications for TRIM58 Gene

  1. Trim58 degrades Dynein and regulates terminal erythropoiesis. (PMID: 25241935) Thom CS … Weiss MJ (Developmental cell 2014) 3 4 54
  2. Genome-wide association study of hematological and biochemical traits in a Japanese population. (PMID: 20139978) Kamatani Y … Kamatani N (Nature genetics 2010) 3 41 54
  3. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) Gerhard DS … MGC Project Team (Genome research 2004) 3 4 54
  4. Downregulation of TRIM58 expression is associated with a poor patient outcome and enhances colorectal cancer cell invasion. (PMID: 29956813) Liu M … Chen D (Oncology reports 2018) 3 54
  5. TRIM58/cg26157385 methylation is associated with eight prognostic genes in lung squamous cell carcinoma. (PMID: 29749538) Zhang W … Liu H (Oncology reports 2018) 3 54

Products for TRIM58 Gene

Sources for TRIM58 Gene