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Aliases for CTU1 Gene

Aliases for CTU1 Gene

  • Cytosolic Thiouridylase Subunit 1 2 3 5
  • ATP-Binding Domain-Containing Protein 3 3 4
  • Cytoplasmic TRNA Adenylyltransferase 1 3 4
  • Cancer-Associated Gene Protein 3 4
  • ATP Binding Domain 3 2 3
  • ATPBD3 3 4
  • NCS6 3 4
  • Cytosolic Thiouridylase Subunit 1 Homolog (S. Pombe) 2
  • Cytosolic Thiouridylase Subunit 1 Homolog 3
  • Cytoplasmic TRNA 2-Thiolation Protein 1 3
  • Cancer-Associated Protein 3
  • EC 2.7.7.- 4
  • EC 2.7.7 61

External Ids for CTU1 Gene

Previous HGNC Symbols for CTU1 Gene

  • ATPBD3

Previous GeneCards Identifiers for CTU1 Gene

  • GC19M056295
  • GC19M051601
  • GC19M047934

Summaries for CTU1 Gene

GeneCards Summary for CTU1 Gene

CTU1 (Cytosolic Thiouridylase Subunit 1) is a Protein Coding gene. Among its related pathways are tRNA processing and Sulfur relay system. GO annotations related to this gene include tRNA binding and nucleotidyltransferase activity.

UniProtKB/Swiss-Prot for CTU1 Gene

  • Plays a central role in 2-thiolation of mcm(5)S(2)U at tRNA wobble positions of tRNA(Lys), tRNA(Glu) and tRNA(Gln). Directly binds tRNAs and probably acts by catalyzing adenylation of tRNAs, an intermediate required for 2-thiolation. It is unclear whether it acts as a sulfurtransferase that transfers sulfur from thiocarboxylated URM1 onto the uridine of tRNAs at wobble position.

No data available for Entrez Gene Summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for CTU1 Gene

Genomics for CTU1 Gene

Regulatory Elements for CTU1 Gene

Enhancers for CTU1 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
GH19F051393 1.5 FANTOM5 ENCODE 25.8 -286.7 -286658 2.8 HDGF PKNOX1 ARNT WRNIP1 ZFP64 ARID4B SIN3A ZNF143 FOS KLF13 ZNF616 ZNF577 ZNF766 ZNF432 ZNF841 ZNF836 ZNF175 CTU1 ZNF350 C19orf84
GH19F050496 1.6 FANTOM5 Ensembl ENCODE 13.7 +609.0 609043 6.1 HDGF ATF1 PKNOX1 CREB3L1 GLI4 ZNF48 GLIS2 GATA2 KLF13 ZNF202 PRR12 NUP62 ENSG00000268047 CTU1 POLD1 ADM5 PTOV1-AS2 JOSD2 ASPDH MYH14
GH19F050488 1.5 FANTOM5 Ensembl ENCODE 13.7 +617.9 617878 4.6 HDAC1 PKNOX1 CBX3 KLF17 NFXL1 ZNF48 ZNF366 SCRT2 FOS EGR2 SNORD35A POLD1 PRR12 NUP62 PTOV1-AS2 RPS11 SNORD35B ENSG00000268047 PNKP CTU1
GH19F050678 1.3 Ensembl ENCODE 13.7 +428.9 428914 1.2 HDGF PKNOX1 ATF1 ZNF133 SIN3A YBX1 GLI4 ZNF48 BRCA1 GLIS2 ZNF175 NUP62 POLD1 ADM5 ENSG00000268047 CTU1 RPS9P4 PTOV1-AS2 AKT1S1 SYT3
GH19F051545 1.7 FANTOM5 Ensembl ENCODE 10.4 -441.4 -441425 8.1 HDGF PKNOX1 ARNT MLX CREB3L1 ZFP64 ARID4B SIN3A DMAP1 YY1 ZNF175 SIGLEC14 SIGLEC6 SIGLEC5 SIGLEC8 CEACAM18 ENSG00000269102 SIGLEC12 RPL7P51 LOC100419835
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around CTU1 on UCSC Golden Path with GeneCards custom track

Promoters for CTU1 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00001419940 290 2201 HDGF PKNOX1 ARNT CREB3L1 WRNIP1 ARID4B SIN3A FEZF1 DMAP1 YY1

Genomic Location for CTU1 Gene

Chromosome:
19
Start:
51,097,606 bp from pter
End:
51,108,390 bp from pter
Size:
10,785 bases
Orientation:
Minus strand

Genomic View for CTU1 Gene

Genes around CTU1 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
CTU1 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for CTU1 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for CTU1 Gene

Proteins for CTU1 Gene

  • Protein details for CTU1 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q7Z7A3-CTU1_HUMAN
    Recommended name:
    Cytoplasmic tRNA 2-thiolation protein 1
    Protein Accession:
    Q7Z7A3
    Secondary Accessions:
    • A8K558
    • Q96GZ7

    Protein attributes for CTU1 Gene

    Size:
    348 amino acids
    Molecular mass:
    36450 Da
    Quaternary structure:
    • Component of a complex at least composed of URM1, CTU2/NCS2 and CTU1/ATPBD3. May form a heterodimer with CTU2/NCS2.

neXtProt entry for CTU1 Gene

Selected DME Specific Peptides for CTU1 Gene

Q7Z7A3:
  • TGHNADD
  • AETVLMN
  • ASGGKDSTVLAH
  • GASGGKDSTVLA
  • SGQALCG
  • DLFGGWTMDAVARSTAGSGRSR
  • CFCAAFEAEVL
  • LEAARPSA

Post-translational modifications for CTU1 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for CTU1 Gene

ENSEMBL proteins:
REFSEQ proteins:

Domains & Families for CTU1 Gene

Suggested Antigen Peptide Sequences for CTU1 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

Q7Z7A3

UniProtKB/Swiss-Prot:

CTU1_HUMAN :
  • Belongs to the TtcA family. CTU1/NCS6/ATPBD3 subfamily.
Family:
  • Belongs to the TtcA family. CTU1/NCS6/ATPBD3 subfamily.
genes like me logo Genes that share domains with CTU1: view

No data available for Gene Families for CTU1 Gene

Function for CTU1 Gene

Molecular function for CTU1 Gene

UniProtKB/Swiss-Prot Function:
Plays a central role in 2-thiolation of mcm(5)S(2)U at tRNA wobble positions of tRNA(Lys), tRNA(Glu) and tRNA(Gln). Directly binds tRNAs and probably acts by catalyzing adenylation of tRNAs, an intermediate required for 2-thiolation. It is unclear whether it acts as a sulfurtransferase that transfers sulfur from thiocarboxylated URM1 onto the uridine of tRNAs at wobble position.

Enzyme Numbers (IUBMB) for CTU1 Gene

Gene Ontology (GO) - Molecular Function for CTU1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000049 tRNA binding IEA --
GO:0003723 RNA binding IEA --
GO:0005515 protein binding IPI 19017811
GO:0016740 transferase activity IEA --
GO:0016779 nucleotidyltransferase activity IEA --
genes like me logo Genes that share ontologies with CTU1: view
genes like me logo Genes that share phenotypes with CTU1: view

Animal Model 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 CTU1 Gene

Localization for CTU1 Gene

Subcellular locations from UniProtKB/Swiss-Prot for CTU1 Gene

Cytoplasm.

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 CTU1 gene
Compartment Confidence
cytosol 5
mitochondrion 4
extracellular 1
peroxisome 1
nucleus 1
endoplasmic reticulum 1

Gene Ontology (GO) - Cellular Components for CTU1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005737 cytoplasm IEA --
GO:0005739 mitochondrion IEA --
GO:0005829 cytosol TAS --
genes like me logo Genes that share ontologies with CTU1: view

Pathways & Interactions for CTU1 Gene

genes like me logo Genes that share pathways with CTU1: view

Pathways by source for CTU1 Gene

1 KEGG pathway for CTU1 Gene

UniProtKB/Swiss-Prot Q7Z7A3-CTU1_HUMAN

  • Pathway: tRNA modification; 5-methoxycarbonylmethyl-2-thiouridine-tRNA biosynthesis.

Gene Ontology (GO) - Biological Process for CTU1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0002098 tRNA wobble uridine modification NAS 19017811
GO:0006400 tRNA modification TAS --
GO:0008033 tRNA processing IEA --
GO:0032447 protein urmylation IEA --
GO:0034227 tRNA thio-modification NAS 19017811
genes like me logo Genes that share ontologies with CTU1: view

No data available for SIGNOR curated interactions for CTU1 Gene

Transcripts for CTU1 Gene

mRNA/cDNA for CTU1 Gene

(1) REFSEQ mRNAs :
(2) Additional mRNA sequences :
(41) Selected AceView cDNA sequences:
(1) Ensembl transcripts including schematic representations, and UCSC links where relevant :

Unigene Clusters for CTU1 Gene

Cytosolic thiouridylase subunit 1 homolog (S. pombe):
Representative Sequences:

Inhibitory RNA Products

Clone Products

Flow Cytometry Products

Alternative Splicing Database (ASD) splice patterns (SP) for CTU1 Gene

No ASD Table

Relevant External Links for CTU1 Gene

GeneLoc Exon Structure for
CTU1
ECgene alternative splicing isoforms for
CTU1

Expression for CTU1 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for CTU1 Gene

Protein differential expression in normal tissues from HIPED for CTU1 Gene

This gene is overexpressed in Peripheral blood mononuclear cells (28.9), Heart (14.0), and Pancreas (6.4).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MaxQB, and MOPED for CTU1 Gene



Protein tissue co-expression partners for CTU1 Gene

NURSA nuclear receptor signaling pathways regulating expression of CTU1 Gene:

CTU1

SOURCE GeneReport for Unigene cluster for CTU1 Gene:

Hs.148425
genes like me logo Genes that share expression patterns with CTU1: view

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 CTU1 Gene

Orthologs for CTU1 Gene

This gene was present in the common ancestor of animals and fungi.

Orthologs for CTU1 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia CTU1 35
  • 99 (a)
OneToOne
dog
(Canis familiaris)
Mammalia -- 35
  • 94 (a)
OneToMany
LOC484342 34
  • 90.81 (n)
-- 35
  • 61 (a)
OneToMany
cow
(Bos Taurus)
Mammalia -- 35
  • 93 (a)
OneToMany
CTU1 35
  • 93 (a)
OneToMany
LOC100297056 34
  • 91.55 (n)
oppossum
(Monodelphis domestica)
Mammalia CTU1 35
  • 83 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Ctu1 34 16 35
  • 82.99 (n)
rat
(Rattus norvegicus)
Mammalia Ctu1 34
  • 81.85 (n)
platypus
(Ornithorhynchus anatinus)
Mammalia CTU1 35
  • 73 (a)
OneToOne
zebrafish
(Danio rerio)
Actinopterygii ctu1 35
  • 51 (a)
OneToOne
zgc55395 34
rainbow trout
(Oncorhynchus mykiss)
Actinopterygii Omy.7038 34
fruit fly
(Drosophila melanogaster)
Insecta CG8078 35
  • 48 (a)
OneToOne
worm
(Caenorhabditis elegans)
Secernentea tut-1 35
  • 40 (a)
OneToOne
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes NCS6 35
  • 44 (a)
OneToOne
sea squirt
(Ciona savignyi)
Ascidiacea -- 35
  • 47 (a)
OneToOne
Species where no ortholog for CTU1 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)
  • 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)
  • lizard (Anolis carolinensis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • 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)

Evolution for CTU1 Gene

ENSEMBL:
Gene Tree for CTU1 (if available)
TreeFam:
Gene Tree for CTU1 (if available)

Paralogs for CTU1 Gene

Pseudogenes.org Pseudogenes for CTU1 Gene

genes like me logo Genes that share paralogs with CTU1: view

No data available for Paralogs for CTU1 Gene

Variants for CTU1 Gene

Sequence variations from dbSNP and Humsavar for CTU1 Gene

SNP ID Clin Chr 19 pos Sequence Context AA Info Type
rs10403352 -- 51,097,652(+) TCTTC(C/T)ATTTC utr-variant-3-prime
rs10403942 -- 51,097,664(+) TCCCA(A/G)TGGTG utr-variant-3-prime
rs10405562 -- 51,107,037(+) CGTAA(C/T)GTCAC intron-variant
rs10420875 -- 51,102,133(+) CGTGT(A/G)GCTGG intron-variant
rs11084054 -- 51,098,233(+) TCACA(A/C)GGTGT utr-variant-3-prime

Structural Variations from Database of Genomic Variants (DGV) for CTU1 Gene

Variant ID Type Subtype PubMed ID
nsv953606 CNV deletion 24416366
nsv1140251 OTHER inversion 24896259
esv34104 CNV loss 18971310

Variation tolerance for CTU1 Gene

Gene Damage Index Score: 7.92; 83.85% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for CTU1 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
CTU1

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for CTU1 Gene

Disorders for CTU1 Gene

Relevant External Links for CTU1

Genetic Association Database (GAD)
CTU1
Human Genome Epidemiology (HuGE) Navigator
CTU1
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
CTU1

No disorders were found for CTU1 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for CTU1 Gene

Publications for CTU1 Gene

  1. A functional proteomics approach links the ubiquitin-related modifier Urm1 to a tRNA modification pathway. (PMID: 19017811) Schlieker C.D. … Ploegh H.L. (Proc. Natl. Acad. Sci. U.S.A. 2008) 2 3 4 64
  2. Genetic variants in nuclear-encoded mitochondrial genes influence AIDS progression. (PMID: 20877624) Hendrickson S.L. … O'Brien S.J. (PLoS ONE 2010) 3 46 64
  3. A probability-based approach for high-throughput protein phosphorylation analysis and site localization. (PMID: 16964243) Beausoleil S.A. … Gygi S.P. (Nat. Biotechnol. 2006) 3 4 64
  4. 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
  5. The BioPlex Network: A Systematic Exploration of the Human Interactome. (PMID: 26186194) Huttlin E.L. … Gygi S.P. (Cell 2015) 3 64

Products for CTU1 Gene

Sources for CTU1 Gene

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