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Aliases for TYW1B Gene

Aliases for TYW1B Gene

  • TRNA-YW Synthesizing Protein 1 Homolog B 2 3 5
  • Radical S-Adenosyl Methionine And Flavodoxin Domain-Containing Protein 2 3 4
  • TRNA-YW Synthesizing Protein 1 Homolog B (Non-Protein Coding) 2 3
  • Radical S-Adenosyl Methionine And Flavodoxin Domains 1 2 3
  • TRNA Wybutosine-Synthesizing Protein 1 Homolog B 3 4
  • Long Intergenic Non-Protein Coding RNA 69 2 3
  • RSAFD2 3 4
  • S-Adenosyl-L-Methionine-Dependent TRNA 4-Demethylwyosine Synthase 3
  • TRNA-YW Synthesizing Protein 1 Homolog B (S. Cerevisiae) 2
  • Non-Protein Coding RNA 69 2
  • EC 4.1.3.44 4
  • NCRNA00069 3
  • LINC00069 3

External Ids for TYW1B Gene

Previous GeneCards Identifiers for TYW1B Gene

  • GC07M071680
  • GC07M071683
  • GC07M071686
  • GC07M072023
  • GC07M068192

Summaries for TYW1B Gene

Entrez Gene Summary for TYW1B Gene

  • Wybutosine is a hypermodified guanosine found in phenylalanine tRNA. Wybutosine functions to stabilize codon-anticodon interactions during ribosome decoding and therefore supports the maintenance of the reading frame. In yeast, the homolog of this gene is essential for the synthesis of wybutosine. The human genome contains two closely related genes that putatively function in wybutosine synthesis. The open reading frame of this locus is disrupted in some individuals. Thus, this locus appears to be an evolving pseudogene, but may still be functional in some members of the population. [provided by RefSeq, Apr 2014]

GeneCards Summary for TYW1B Gene

TYW1B (TRNA-YW Synthesizing Protein 1 Homolog B) is a Protein Coding gene. GO annotations related to this gene include oxidoreductase activity and 4 iron, 4 sulfur cluster binding. An important paralog of this gene is TYW1.

UniProtKB/Swiss-Prot for TYW1B Gene

  • Probable 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 condensation of N-methylguanine with 2 carbon atoms from pyruvate to form the tricyclic 4-demethylwyosine, an intermediate in wybutosine biosynthesis (By similarity).

No data available for Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for TYW1B Gene

Genomics for TYW1B Gene

Regulatory Elements for TYW1B Gene

Enhancers for TYW1B 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
GH07F072805 1.3 Ensembl ENCODE 62.4 +21.9 21921 2.1 HDGF PKNOX1 ATF1 ARNT CREB3L1 SIN3A CBX5 ELK1 GATA2 FOS TYW1B BAZ1B RN7SL377P GC07P072782
GH07F072783 1 Ensembl ENCODE 64.4 +43.9 43868 1.6 SMARCE1 HDAC1 PKNOX1 RNF2 MAFG FEZF1 DPF2 ARID1B OSR2 ZNF316 TYW1B GC07P072782 RN7SL377P
GH07F072744 0.8 Ensembl ENCODE 69.7 +83.5 83487 1.1 ZNF366 ZNF512 IKZF1 ZNF266 TYW1B GTF2IP4 GC07P072723 ENSG00000270555
GH07F072790 0.6 ENCODE 64.4 +37.3 37302 1.7 OSR2 ZFP69B KLF1 ZFHX2 ZNF692 GLIS1 EGR2 TYW1B GTF2IP4 GC07P072782 RN7SL377P
GH07F072827 1.1 ENCODE 35 -1.3 -1332 4.1 HDGF PKNOX1 CREB3L1 ARID4B SIN3A DMAP1 ZNF2 YY1 ZNF143 FOS TYW1B POM121 POM121B GTF2IRD2P1 GTF2IP4 PIR36920 SBDSP1
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around TYW1B on UCSC Golden Path with GeneCards custom track

Promoters for TYW1B Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00001560727 -766 4001 HDGF PKNOX1 ARNT CREB3L1 ARID4B SIN3A DMAP1 ZNF2 YY1 ZNF143

Genomic Location for TYW1B Gene

Chromosome:
7
Start:
72,558,744 bp from pter
End:
72,828,234 bp from pter
Size:
269,491 bases
Orientation:
Minus strand

Genomic View for TYW1B Gene

Genes around TYW1B on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
TYW1B Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for TYW1B Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for TYW1B Gene

Proteins for TYW1B Gene

  • Protein details for TYW1B Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q6NUM6-TYW1B_HUMAN
    Recommended name:
    S-adenosyl-L-methionine-dependent tRNA 4-demethylwyosine synthase
    Protein Accession:
    Q6NUM6
    Secondary Accessions:
    • A6NG09
    • B4DFY2
    • Q3KQX2

    Protein attributes for TYW1B Gene

    Size:
    668 amino acids
    Molecular mass:
    76916 Da
    Cofactor:
    Name=[4Fe-4S] cluster; Xref=ChEBI:CHEBI:49883;
    Quaternary structure:
    No Data Available

    Alternative splice isoforms for TYW1B Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for TYW1B Gene

Post-translational modifications for TYW1B Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

No data available for DME Specific Peptides for TYW1B Gene

Domains & Families for TYW1B Gene

Suggested Antigen Peptide Sequences for TYW1B Gene

Graphical View of Domain Structure for InterPro Entry

Q6NUM6

UniProtKB/Swiss-Prot:

TYW1B_HUMAN :
  • Contains 1 flavodoxin-like domain.
  • Belongs to the TYW1 family.
Domain:
  • Contains 1 flavodoxin-like domain.
Family:
  • Belongs to the TYW1 family.
genes like me logo Genes that share domains with TYW1B: view

No data available for Gene Families for TYW1B Gene

Function for TYW1B Gene

Molecular function for TYW1B Gene

UniProtKB/Swiss-Prot CatalyticActivity:
N(1)-methylguanine(37) in tRNA(Phe) + pyruvate + S-adenosyl-L-methionine = 4-demethylwyosine(37) in tRNA(Phe) + L-methionine + 5-deoxyadenosine + CO(2) + H(2)O.
UniProtKB/Swiss-Prot Function:
Probable 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 condensation of N-methylguanine with 2 carbon atoms from pyruvate to form the tricyclic 4-demethylwyosine, an intermediate in wybutosine biosynthesis (By similarity).

Enzyme Numbers (IUBMB) for TYW1B Gene

Gene Ontology (GO) - Molecular Function for TYW1B Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0010181 FMN binding IEA --
GO:0016829 lyase activity IEA --
GO:0046872 metal ion binding IEA --
GO:0051536 iron-sulfur cluster binding IEA --
GO:0051539 4 iron, 4 sulfur cluster binding IEA --
genes like me logo Genes that share ontologies with TYW1B: view

Animal Model Products

Inhibitory RNA Products

Clone Products

Flow Cytometry Products

No data available for Phenotypes , Human Phenotype Ontology , Animal Models , miRNA , Transcription Factor Targets and HOMER Transcription for TYW1B Gene

Localization for TYW1B Gene

Gene Ontology (GO) - Cellular Components for TYW1B Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0016020 membrane IEA --
GO:0016021 integral component of membrane IEA --
genes like me logo Genes that share ontologies with TYW1B: view

No data available for Subcellular locations from UniProtKB/Swiss-Prot and Subcellular locations from COMPARTMENTS for TYW1B Gene

Pathways & Interactions for TYW1B Gene

SuperPathways for TYW1B Gene

No Data Available

UniProtKB/Swiss-Prot Q6NUM6-TYW1B_HUMAN

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

Interacting Proteins for TYW1B Gene

Selected Interacting proteins: Q6NUM6-TYW1B_HUMAN for TYW1B Gene via IID

Gene Ontology (GO) - Biological Process for TYW1B Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0008033 tRNA processing IEA --
GO:0055114 oxidation-reduction process IEA --
genes like me logo Genes that share ontologies with TYW1B: view

No data available for Pathways by source and SIGNOR curated interactions for TYW1B Gene

Drugs & Compounds for TYW1B Gene

(2) Drugs for TYW1B Gene - From: HMDB

Name Status Disease Links Group Role Mechanism of Action Clinical Trials
S-Adenosylmethionine Approved Nutra 0
Flavin Mononucleotide Experimental Pharma 6
genes like me logo Genes that share compounds with TYW1B: view

Transcripts for TYW1B Gene

Unigene Clusters for TYW1B Gene

TRNA-yW synthesizing protein 1 homolog B (S. cerevisiae):
Representative Sequences:

Inhibitory RNA Products

Clone Products

Flow Cytometry Products

Alternative Splicing Database (ASD) splice patterns (SP) for TYW1B Gene

No ASD Table

Relevant External Links for TYW1B Gene

GeneLoc Exon Structure for
TYW1B
ECgene alternative splicing isoforms for
TYW1B

Expression for TYW1B Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for TYW1B Gene

Protein differential expression in normal tissues from HIPED for TYW1B Gene

This gene is overexpressed in Urine (69.0).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB and MOPED for TYW1B Gene



Protein tissue co-expression partners for TYW1B Gene

NURSA nuclear receptor signaling pathways regulating expression of TYW1B Gene:

TYW1B

SOURCE GeneReport for Unigene cluster for TYW1B Gene:

Hs.488614
genes like me logo Genes that share expression patterns with TYW1B: 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 TYW1B Gene

Orthologs for TYW1B Gene

This gene was present in the common ancestor of human and chimp.

Orthologs for TYW1B Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia TYW1B 34
  • 98.71 (n)
Species where no ortholog for TYW1B 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)
  • cow (Bos Taurus)
  • dog (Canis familiaris)
  • 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)
  • lizard (Anolis carolinensis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • mouse (Mus musculus)
  • oppossum (Monodelphis domestica)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • platypus (Ornithorhynchus anatinus)
  • rainbow trout (Oncorhynchus mykiss)
  • rat (Rattus norvegicus)
  • 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 TYW1B Gene

ENSEMBL:
Gene Tree for TYW1B (if available)
TreeFam:
Gene Tree for TYW1B (if available)

Paralogs for TYW1B Gene

Paralogs for TYW1B Gene

(1) SIMAP similar genes for TYW1B Gene using alignment to 3 proteins:

Pseudogenes.org Pseudogenes for TYW1B Gene

genes like me logo Genes that share paralogs with TYW1B: view

Variants for TYW1B Gene

Sequence variations from dbSNP and Humsavar for TYW1B Gene

SNP ID Clin Chr 07 pos Sequence Context AA Info Type
rs10085414 -- 72,608,526(+) aaagt(A/C)tatac intron-variant
rs10216319 -- 72,766,878(+) gctga(A/G)atcac intron-variant
rs10216327 -- 72,672,028(+) ggggg(A/G)acctg intron-variant
rs10226326 -- 72,772,884(+) gtctc(C/T)agagg intron-variant
rs10233852 -- 72,632,400(+) tatat(A/T)atata intron-variant

Structural Variations from Database of Genomic Variants (DGV) for TYW1B Gene

Variant ID Type Subtype PubMed ID
nsv1017637 CNV loss 25217958
nsv1019397 CNV gain 25217958
nsv1019945 CNV gain+loss 25217958
nsv1020209 CNV gain 25217958
nsv1023115 CNV gain 25217958
nsv1030584 CNV gain 25217958
nsv1034339 CNV loss 25217958
nsv1114976 CNV deletion 24896259
nsv1146102 OTHER inversion 26484159
nsv1161562 CNV duplication 26073780
nsv428171 CNV gain 18775914
nsv436901 CNV insertion 17901297
nsv442053 CNV gain 18776908
nsv469716 CNV gain 16826518
nsv469793 CNV gain 16826518
nsv470310 CNV gain 18288195
nsv520573 CNV gain+loss 19592680
nsv5789 CNV insertion 18451855
nsv5790 CNV deletion 18451855
nsv607467 CNV gain 21841781
nsv8131 CNV loss 18304495
nsv970525 CNV duplication 23825009
nsv981520 CNV duplication 23825009
nsv981521 CNV duplication 23825009
nsv981522 CNV duplication 23825009
esv3891144 CNV gain 25118596
esv3613674 CNV loss 21293372
esv3613673 CNV gain 21293372
esv3613672 CNV loss 21293372
esv3613670 CNV loss 21293372
esv3613669 CNV loss 21293372
esv3613668 CNV gain 21293372
esv3613667 CNV loss 21293372
esv3613666 CNV loss 21293372
esv3613665 CNV loss 21293372
esv3613664 CNV loss 21293372
esv3613663 CNV gain 21293372
esv3613662 CNV loss 21293372
esv34349 CNV gain 17911159
esv33871 CNV loss 17666407
esv2761093 CNV loss 21179565
esv2759537 CNV gain+loss 17122850
esv2666930 CNV deletion 23128226
esv25116 CNV loss 19812545
dgv821n27 CNV gain 19166990
dgv6465n100 CNV loss 25217958
dgv6464n100 CNV gain 25217958
dgv6463n100 CNV gain 25217958
dgv6462n100 CNV gain 25217958
dgv6461n100 CNV gain 25217958
dgv6460n100 CNV gain 25217958
dgv6459n100 CNV loss 25217958
dgv62n64 CNV gain 17921354
dgv231e55 CNV gain 17911159
dgv1924e212 CNV loss 25503493
dgv1923e212 CNV gain 25503493
dgv1303e214 CNV gain 21293372
dgv11443n54 CNV gain 21841781
dgv11442n54 CNV gain 21841781
dgv1116n67 CNV gain 20364138

Relevant External Links for TYW1B Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
TYW1B

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot and Variation tolerance for TYW1B Gene

Disorders for TYW1B Gene

Relevant External Links for TYW1B

Genetic Association Database (GAD)
TYW1B
Human Genome Epidemiology (HuGE) Navigator
TYW1B
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
TYW1B

No disorders were found for TYW1B Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for TYW1B Gene

Publications for TYW1B Gene

  1. Personalized smoking cessation: interactions between nicotine dose, dependence and quit-success genotype score. (PMID: 20379614) Rose J.E. … Uhl G.R. (Mol. Med. 2010) 3 46 64
  2. Biological, clinical and population relevance of 95 loci for blood lipids. (PMID: 20686565) Teslovich T.M. … Kathiresan S. (Nature 2010) 3 46 64
  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 64
  4. The BioPlex Network: A Systematic Exploration of the Human Interactome. (PMID: 26186194) Huttlin E.L. … Gygi S.P. (Cell 2015) 3 64
  5. Discovery and refinement of loci associated with lipid levels. (PMID: 24097068) . … Abecasis G.R. (Nat. Genet. 2013) 3 64

Products for TYW1B Gene

Sources for TYW1B Gene

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