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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 HSPBAP1.

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 , CIViC 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
GH02G199454 2 FANTOM5 Ensembl ENCODE dbSUPER 23.7 +496.5 496452 10.3 MLX AGO1 ZFP64 FEZF1 DMAP1 YY1 SLC30A9 ZNF143 ZNF263 SP3 TYW5 SATB2 SATB2-AS1
GH02G200887 1.4 ENCODE dbSUPER 20 -933.5 -933452 3.6 CREB3L1 FEZF1 DMAP1 YY1 SLC30A9 ZNF143 ZNF263 SP3 TBX21 ZNF610 PPIL3 TYW5 ORC2 RNU6-762P LOC100420110 NIF3L1 RNU6-312P
GH02G200866 1.4 Ensembl ENCODE dbSUPER 10.4 -911.4 -911359 1.4 TBP INSM2 FEZF1 GTF3C2 ZNF366 ZNF548 ZNF362 CEBPB ZEB2 ZNF843 PPIL3 ORC2 RNU6-762P TYW5 LOC100420110 CLK1 RNU6-312P
GH02G200123 0.9 ENCODE 14.9 -170.7 -170677 5.0 PKNOX1 MLX ARNT ARID4B DMAP1 ZNF48 TCF12 GATA2 NCOA1 PPARG RNU6-312P TYW5 ORC2 LOC101927687 SPATS2L LOC105373833 LOC105373834
GH02G200809 1.1 ENCODE 11.4 -856.6 -856620 5.0 HDGF PKNOX1 MLX CREB3L1 ARNT AGO1 ZFP64 ARID4B SIN3A DMAP1 BICD1P1 TYW5 PPIL3 CASP10 CASP8 LOC101927795 GC02P200825
- Elite enhancer and/or Elite enhancer-gene association 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
ENSR00000128608 136 2401 HDGF PKNOX1 CREB3L1 ARNT 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 :
  • Belongs to the TYW5 family.
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

CRISPR Products

Inhibitory RNA Products

Clone 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
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 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.

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

Drugs & Compounds for TYW5 Gene

No Compound Related Data Available

Transcripts for TYW5 Gene

Unigene Clusters for TYW5 Gene

TRNA-yW synthesizing protein 5:
Representative Sequences:

CRISPR Products

Inhibitory RNA Products

Clone 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 from GTEx, Illumina, BioGPS, and CGAP SAGE 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

Evidence on tissue expression from TISSUES for TYW5 Gene

  • Nervous system(4.1)
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 , mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer 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
rs1000082555 -- 199,932,759(+) TGAAT(A/C)ATTGG nc-transcript-variant, utr-variant-3-prime
rs1000215915 -- 199,947,063(+) CTACA(C/T)TTGGA intron-variant
rs1000237398 -- 199,954,769(+) TATCA(A/C/G)GTAAG intron-variant, upstream-variant-2KB
rs1000334702 -- 199,948,415(+) ATCCA(C/T)TGTCC intron-variant, nc-transcript-variant, reference, missense, utr-variant-5-prime
rs1000346380 -- 199,948,955(+) TTTCA(A/C)GGTTA 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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