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Aliases for TYW5 Gene

Aliases for TYW5 Gene

  • TRNA-YW Synthesizing Protein 5 2 3 5
  • TRNA(Phe) (7-(3-Amino-3-Carboxypropyl)Wyosine(37)-C(2))-Hydroxylase 3 4
  • C2orf60 3 4
  • HTYW5 3 4
  • JmjC Domain-Containing Protein C2orf60 3
  • TRNA Wybutosine-Synthesizing Protein 5 3
  • Chromosome 2 Open Reading Frame 60 2
  • TRNA YW-Synthesizing Enzyme 5 3
  • EC 1.14.11.42 4

External Ids for TYW5 Gene

Previous HGNC Symbols for TYW5 Gene

  • C2orf60

Previous GeneCards Identifiers for TYW5 Gene

  • GC02M200794

Summaries for TYW5 Gene

GeneCards Summary for TYW5 Gene

TYW5 (TRNA-YW Synthesizing Protein 5) is a Protein Coding gene. Among its related pathways are tRNA processing and Gene Expression. GO annotations related to this gene include protein homodimerization activity and tRNA binding. An important paralog of this gene is KDM8.

UniProtKB/Swiss-Prot for TYW5 Gene

  • tRNA hydroxylase that acts as a component of the wybutosine biosynthesis pathway. Wybutosine is a hyper modified guanosine with a tricyclic base found at the 3-position adjacent to the anticodon of eukaryotic phenylalanine tRNA. Catalyzes the hydroxylation of 7-(a-amino-a-carboxypropyl)wyosine (yW-72) into undermodified hydroxywybutosine (OHyW*). OHyW* being further transformed into hydroxywybutosine (OHyW) by LCMT2/TYW4. OHyW is a derivative of wybutosine found in higher eukaryotes.

No data available for Entrez Gene Summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for TYW5 Gene

Genomics for TYW5 Gene

Regulatory Elements for TYW5 Gene

Enhancers for TYW5 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
GH02F199454 1.3 FANTOM5 Ensembl ENCODE 35.1 +496.5 496452 10.3 PKNOX1 MLX WRNIP1 ZFP64 ARID4B SIN3A FEZF1 DMAP1 ZNF2 YY1 TYW5 C2orf69 SATB2 SATB2-AS1
GH02F200887 0.2 ENCODE 28.8 -933.5 -933452 3.6 PKNOX1 CREB3L1 WRNIP1 ARID4B SIN3A FEZF1 DMAP1 ZNF2 YY1 SLC30A9 PPIL3 TYW5 ORC2 KCTD18 RNU6-762P SPATS2L LOC100420110 NIF3L1 RNU6-312P
GH02F200314 1.1 Ensembl ENCODE 15.1 -362.1 -362105 7.0 HDGF PKNOX1 MLX ARID4B SIN3A DMAP1 YY1 SLC30A9 ZNF143 DEK TYW5 PPIL3 SPATS2L LOC101927687 RNU6-312P GC02P200374
GH02F200123 0.8 Ensembl ENCODE 14.9 -170.7 -170677 5.0 ELF3 HDAC1 PKNOX1 ARNT MLX ARID4B DMAP1 ZNF48 RARA CHAMP1 RNU6-312P TYW5 ORC2 LOC101927687 SPATS2L LOC105373833 LOC105373834
GH02F200176 0.5 Ensembl ENCODE 13.3 -222.8 -222836 3.2 SOX13 ZNF202 ZNF274 POLR2A SMARCA4 BCL6 ZBTB33 ZNF652 LOC101927687 ORC2 TYW5 RNU6-762P SPATS2L LOC105373834 GC02P200203
- Elite enhancer/Elite enhancer-gene association Download Table
Download GeneHancer data dump

Enhancers around TYW5 on UCSC Golden Path with GeneCards custom track

Promoters for TYW5 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00000018081 36 3001 HDGF PKNOX1 ARNT CREB3L1 ZFP64 ARID4B SIN3A DMAP1 YBX1 ZNF2

Genomic Location for TYW5 Gene

Chromosome:
2
Start:
199,928,911 bp from pter
End:
199,955,736 bp from pter
Size:
26,826 bases
Orientation:
Minus strand

Genomic View for TYW5 Gene

Genes around TYW5 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
TYW5 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for TYW5 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for TYW5 Gene

Proteins for TYW5 Gene

  • Protein details for TYW5 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    A2RUC4-TYW5_HUMAN
    Recommended name:
    tRNA wybutosine-synthesizing protein 5
    Protein Accession:
    A2RUC4
    Secondary Accessions:
    • B2RNE3
    • Q8N1R2

    Protein attributes for TYW5 Gene

    Size:
    315 amino acids
    Molecular mass:
    36548 Da
    Cofactor:
    Name=Fe(2+); Xref=ChEBI:CHEBI:29033;
    Quaternary structure:
    • Homodimer.
    SequenceCaution:
    • Sequence=AAH63502.1; Type=Erroneous initiation; Note=Translation N-terminally extended.; Evidence={ECO:0000305};

    Three dimensional structures from OCA and Proteopedia for TYW5 Gene

    Alternative splice isoforms for TYW5 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for TYW5 Gene

Post-translational modifications for TYW5 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for TYW5 Gene

No data available for DME Specific Peptides for TYW5 Gene

Domains & Families for TYW5 Gene

Protein Domains for TYW5 Gene

InterPro:
ProtoNet:

Suggested Antigen Peptide Sequences for TYW5 Gene

Graphical View of Domain Structure for InterPro Entry

A2RUC4

UniProtKB/Swiss-Prot:

TYW5_HUMAN :
  • Contains 1 JmjC domain.
  • Belongs to the TYW5 family.
Domain:
  • Contains 1 JmjC domain.
Family:
  • Belongs to the TYW5 family.
genes like me logo Genes that share domains with TYW5: view

No data available for Gene Families for TYW5 Gene

Function for TYW5 Gene

Molecular function for TYW5 Gene

UniProtKB/Swiss-Prot CatalyticActivity:
7-(3-amino-3-carboxypropyl)wyosine(37) in tRNA(Phe) + 2-oxoglutarate + O(2) = 7-(2-hydroxy-3-amino-3-carboxypropyl)wyosine(37) in tRNA(Phe) + succinate + CO(2).
UniProtKB/Swiss-Prot Function:
tRNA hydroxylase that acts as a component of the wybutosine biosynthesis pathway. Wybutosine is a hyper modified guanosine with a tricyclic base found at the 3-position adjacent to the anticodon of eukaryotic phenylalanine tRNA. Catalyzes the hydroxylation of 7-(a-amino-a-carboxypropyl)wyosine (yW-72) into undermodified hydroxywybutosine (OHyW*). OHyW* being further transformed into hydroxywybutosine (OHyW) by LCMT2/TYW4. OHyW is a derivative of wybutosine found in higher eukaryotes.

Enzyme Numbers (IUBMB) for TYW5 Gene

Gene Ontology (GO) - Molecular Function for TYW5 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000049 tRNA binding IDA 20972222
GO:0005506 iron ion binding IDA 20972222
GO:0016491 oxidoreductase activity IEA --
GO:0016706 oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, 2-oxoglutarate as one donor, and incorporation of one atom each of oxygen into both donors IEA,IDA 20739293
GO:0042803 protein homodimerization activity IDA 20972222
genes like me logo Genes that share ontologies with TYW5: view
genes like me logo Genes that share phenotypes with TYW5: view

Animal Model Products

Inhibitory RNA Products

Flow Cytometry Products

No data available for Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for TYW5 Gene

Localization for TYW5 Gene

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for TYW5 Gene COMPARTMENTS Subcellular localization image for TYW5 gene
Compartment Confidence
cytosol 3
nucleus 2
peroxisome 1

Gene Ontology (GO) - Cellular Components for TYW5 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005737 cytoplasm TAS --
genes like me logo Genes that share ontologies with TYW5: view

No data available for Subcellular locations from UniProtKB/Swiss-Prot for TYW5 Gene

Pathways & Interactions for TYW5 Gene

genes like me logo Genes that share pathways with TYW5: view

UniProtKB/Swiss-Prot A2RUC4-TYW5_HUMAN

  • Pathway: tRNA modification; wybutosine-tRNA(Phe) biosynthesis.

Interacting Proteins for TYW5 Gene

STRING Interaction Network Preview (showing 1 interactants - click image to see details)
http://string-db.org/version_10/api/image/networkList?limit=0&targetmode=proteins&caller_identity=gene_cards&network_flavor=evidence&identifiers=9606.ENSP00000346627%0d%0a9606.ENSP00000272091%0d%0a
Selected Interacting proteins: ENSP00000346627 A2RUC4-TYW5_HUMAN for TYW5 Gene via STRING IID

Gene Ontology (GO) - Biological Process for TYW5 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006400 tRNA modification TAS --
GO:0008033 tRNA processing IEA --
GO:0031591 wybutosine biosynthetic process IEA,IDA 20739293
GO:0055114 oxidation-reduction process IEA --
genes like me logo Genes that share ontologies with TYW5: view

No data available for SIGNOR curated interactions for TYW5 Gene

Transcripts for TYW5 Gene

Unigene Clusters for TYW5 Gene

TRNA-yW synthesizing protein 5:
Representative Sequences:

Inhibitory RNA Products

Flow Cytometry Products

Alternative Splicing Database (ASD) splice patterns (SP) for TYW5 Gene

ExUns: 1a · 1b · 1c ^ 2a · 2b · 2c ^ 3 ^ 4 ^ 5a · 5b ^ 6 ^ 7 ^ 8a · 8b
SP1: - - -
SP2: - - - -
SP3: - -
SP4: - -
SP5:

Relevant External Links for TYW5 Gene

GeneLoc Exon Structure for
TYW5
ECgene alternative splicing isoforms for
TYW5

Expression for TYW5 Gene

mRNA expression in normal human tissues for TYW5 Gene

Protein differential expression in normal tissues from HIPED for TYW5 Gene

This gene is overexpressed in Heart (33.7), Skin (11.0), and Retina (10.3).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MaxQB, and MOPED for TYW5 Gene



Protein tissue co-expression partners for TYW5 Gene

NURSA nuclear receptor signaling pathways regulating expression of TYW5 Gene:

TYW5

SOURCE GeneReport for Unigene cluster for TYW5 Gene:

Hs.204619
genes like me logo Genes that share expression patterns with TYW5: view

Primer Products

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA differential expression in normal tissues and mRNA Expression by UniProt/SwissProt for TYW5 Gene

Orthologs for TYW5 Gene

This gene was present in the common ancestor of chordates.

Orthologs for TYW5 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia TYW5 34 35
  • 99.79 (n)
dog
(Canis familiaris)
Mammalia TYW5 34 35
  • 92.38 (n)
cow
(Bos Taurus)
Mammalia TYW5 34 35
  • 90.9 (n)
mouse
(Mus musculus)
Mammalia Tyw5 34 16 35
  • 86.88 (n)
rat
(Rattus norvegicus)
Mammalia Tyw5 34
  • 85.82 (n)
oppossum
(Monodelphis domestica)
Mammalia TYW5 35
  • 85 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia TYW5 35
  • 74 (a)
OneToOne
chicken
(Gallus gallus)
Aves TYW5 34 35
  • 77.2 (n)
lizard
(Anolis carolinensis)
Reptilia TYW5 35
  • 78 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia tyw5 34
  • 70.73 (n)
zebrafish
(Danio rerio)
Actinopterygii tyw5 34 35
  • 62.68 (n)
Dr.14896 34
sea squirt
(Ciona savignyi)
Ascidiacea -- 35
  • 59 (a)
OneToOne
Species where no ortholog for TYW5 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 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)
  • worm (Caenorhabditis elegans)

Evolution for TYW5 Gene

ENSEMBL:
Gene Tree for TYW5 (if available)
TreeFam:
Gene Tree for TYW5 (if available)

Paralogs for TYW5 Gene

Paralogs for TYW5 Gene

Pseudogenes.org Pseudogenes for TYW5 Gene

genes like me logo Genes that share paralogs with TYW5: view

Variants for TYW5 Gene

Sequence variations from dbSNP and Humsavar for TYW5 Gene

SNP ID Clin Chr 02 pos Sequence Context AA Info Type
rs10202253 -- 199,928,482(+) ACAAC(A/G)AACAA downstream-variant-500B
rs10497844 -- 199,948,403(+) TTGGC(C/T)TAGGT intron-variant, nc-transcript-variant, reference, missense, utr-variant-5-prime
rs10627509 -- 199,930,769(+) GAGAA(-/AGAA)TGGAG nc-transcript-variant, utr-variant-3-prime
rs10660827 -- 199,932,026(+) TAAAT(-/TAAAA)TATTT nc-transcript-variant, utr-variant-3-prime
rs111240414 -- 199,950,961(+) TGTAA(A/G)CATTT intron-variant

Structural Variations from Database of Genomic Variants (DGV) for TYW5 Gene

Variant ID Type Subtype PubMed ID
nsv834510 CNV loss 17160897

Variation tolerance for TYW5 Gene

Residual Variation Intolerance Score: 54.5% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 4.46; 64.20% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for TYW5 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
TYW5

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for TYW5 Gene

Disorders for TYW5 Gene

Relevant External Links for TYW5

Atlas of Genetics and Cytogenetics in Oncology and Haematology:
TYW5

No disorders were found for TYW5 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for TYW5 Gene

Publications for TYW5 Gene

  1. Expanding role of the jumonji C domain as an RNA hydroxylase. (PMID: 20739293) Noma A. … Suzuki T. (J. Biol. Chem. 2010) 2 3 4 64
  2. Crystal structure of a novel JmjC-domain-containing protein, TYW5, involved in tRNA modification. (PMID: 20972222) Kato M. … Nureki O. (Nucleic Acids Res. 2011) 3 4 64
  3. The BioPlex Network: A Systematic Exploration of the Human Interactome. (PMID: 26186194) Huttlin E.L. … Gygi S.P. (Cell 2015) 3 64
  4. Genome-wide association analysis identifies 13 new risk loci for schizophrenia. (PMID: 23974872) Ripke S. … Sullivan P.F. (Nat. Genet. 2013) 3 64
  5. Identification of intrahepatic cholangiocarcinoma related genes by comparison with normal liver tissues using expressed sequence tags. (PMID: 16712791) Wang A.G. … Kim N.S. (Biochem. Biophys. Res. Commun. 2006) 3 64

Products for TYW5 Gene

Sources for TYW5 Gene

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