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Aliases for PUS3 Gene

Aliases for PUS3 Gene

  • Pseudouridylate Synthase 3 2 3 5
  • TRNA Pseudouridylate Synthase 3 3 4
  • TRNA Pseudouridine Synthase 3 3 4
  • TRNA-Uridine Isomerase 3 3 4
  • TRNA Pseudouridine(38/39) Synthase 3
  • 2610020J05Rik 3
  • EC 5.4.99.45 4
  • FKSG32 3
  • MRT55 3

External Ids for PUS3 Gene

Previous GeneCards Identifiers for PUS3 Gene

  • GC11M125268
  • GC11M125763
  • GC11M121705

Summaries for PUS3 Gene

Entrez Gene Summary for PUS3 Gene

  • The protein encoded by this gene catalyzes the formation of tRNA pseudouridine from tRNA uridine at position 39 in the anticodon stem and loop of transfer RNAs. Two transcript variants encoding different isoforms have been found for this gene. [provided by RefSeq, Dec 2012]

GeneCards Summary for PUS3 Gene

PUS3 (Pseudouridylate Synthase 3) is a Protein Coding gene. Among its related pathways are Gene Expression and tRNA processing. GO annotations related to this gene include RNA binding and pseudouridine synthase activity.

UniProtKB/Swiss-Prot for PUS3 Gene

  • Formation of pseudouridine at position 39 in the anticodon stem and loop of transfer RNAs.

No data available for CIViC summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for PUS3 Gene

Genomics for PUS3 Gene

Regulatory Elements for PUS3 Gene

Enhancers for PUS3 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
GH11G125901 1 ENCODE 7.7 +0.4 377 2.0 PKNOX1 ATF1 WRNIP1 ARID4B SIN3A DMAP1 YY1 ETS1 ZNF766 ELK1 DDX25 ACRV1 ENSG00000260209 ENSG00000254790 ENSG00000254694 FAM118B RPUSD4 PUS3 PIR36090
GH11G125874 0.7 ENCODE 10.5 +28.7 28669 0.2 CTCF ZNF654 ATF1 SAP130 TRIM22 MAX MNT REST RAD21 TEAD3 PUS3 DDX25 PATE4 CHEK1 ENSG00000260209 HYLS1
GH11G125493 1.4 FANTOM5 ENCODE dbSUPER 5.2 +407.9 407942 2.9 ZSCAN4 INSM2 ZNF76 KLF17 ZNF2 GLIS2 ZNF366 ZNF263 USF2 REST FEZ1 PUS3 DDX25 PKNOX2 LOC403312
GH11G126196 0.7 ENCODE dbSUPER 10.1 -294.1 -294123 2.6 ATF2 MAFK RELA FOXRED1 FAM118B ENSG00000254790 SRPRA DDX25 PUS3 DCPS ENSG00000254694 ENSG00000254771
GH11G126034 0.7 ENCODE 9.5 -131.6 -131581 1.4 RING1 PHF8 MXI1 RNF2 NRF1 MAX RBBP5 NR2F2 POLR2A HDAC2 CDON PUS3 DDX25 PIR48177
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around PUS3 on UCSC Golden Path with GeneCards custom track

Promoters for PUS3 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00000046540 269 1800 PKNOX1 ATF1 WRNIP1 ARID4B SIN3A YY1 ETS1 ZNF766 GATA2 ELK1

Genomic Location for PUS3 Gene

Chromosome:
11
Start:
125,893,485 bp from pter
End:
125,903,369 bp from pter
Size:
9,885 bases
Orientation:
Minus strand

Genomic View for PUS3 Gene

Genes around PUS3 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
PUS3 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for PUS3 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for PUS3 Gene

Proteins for PUS3 Gene

  • Protein details for PUS3 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q9BZE2-PUS3_HUMAN
    Recommended name:
    tRNA pseudouridine(38/39) synthase
    Protein Accession:
    Q9BZE2
    Secondary Accessions:
    • B2RAM0
    • Q96D17
    • Q96J23
    • Q96NB4

    Protein attributes for PUS3 Gene

    Size:
    481 amino acids
    Molecular mass:
    55647 Da
    Quaternary structure:
    No Data Available

neXtProt entry for PUS3 Gene

Post-translational modifications for PUS3 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

No data available for DME Specific Peptides for PUS3 Gene

Domains & Families for PUS3 Gene

Suggested Antigen Peptide Sequences for PUS3 Gene

Graphical View of Domain Structure for InterPro Entry

Q9BZE2

UniProtKB/Swiss-Prot:

PUS3_HUMAN :
  • Belongs to the tRNA pseudouridine synthase TruA family.
Family:
  • Belongs to the tRNA pseudouridine synthase TruA family.
genes like me logo Genes that share domains with PUS3: view

No data available for Gene Families for PUS3 Gene

Function for PUS3 Gene

Molecular function for PUS3 Gene

UniProtKB/Swiss-Prot CatalyticActivity:
tRNA uridine(38/39) = tRNA pseudouridine(38/39).
UniProtKB/Swiss-Prot Function:
Formation of pseudouridine at position 39 in the anticodon stem and loop of transfer RNAs.

Enzyme Numbers (IUBMB) for PUS3 Gene

Gene Ontology (GO) - Molecular Function for PUS3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003723 RNA binding IEA --
GO:0009982 pseudouridine synthase activity IEA,IMP 27055666
GO:0016853 isomerase activity IEA --
genes like me logo Genes that share ontologies with PUS3: view
genes like me logo Genes that share phenotypes with PUS3: view

Animal Model Products

  • Taconic Biosciences Mouse Models for PUS3

CRISPR Products

Inhibitory RNA Products

No data available for Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for PUS3 Gene

Localization for PUS3 Gene

Subcellular locations from UniProtKB/Swiss-Prot for PUS3 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 PUS3 gene
Compartment Confidence
nucleus 5
cytosol 5

Gene Ontology (GO) - Cellular Components for PUS3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus IBA,IEA --
GO:0005737 cytoplasm IBA --
GO:0005829 cytosol TAS --
genes like me logo Genes that share ontologies with PUS3: view

Pathways & Interactions for PUS3 Gene

genes like me logo Genes that share pathways with PUS3: view

Pathways by source for PUS3 Gene

Gene Ontology (GO) - Biological Process for PUS3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006400 tRNA modification TAS --
GO:0008033 tRNA processing IEA --
GO:0009451 RNA modification IEA --
GO:0031119 tRNA pseudouridine synthesis IMP 27055666
GO:1990481 mRNA pseudouridine synthesis IBA --
genes like me logo Genes that share ontologies with PUS3: view

No data available for SIGNOR curated interactions for PUS3 Gene

Drugs & Compounds for PUS3 Gene

(1) Drugs for PUS3 Gene - From: HMDB

Name Status Disease Links Group Role Mechanism of Action Clinical Trials
Uridine Experimental Pharma 0

(1) Additional Compounds for PUS3 Gene - From: HMDB

Name Synonyms Role CAS Number PubChem IDs PubMed IDs
pseudouridine
  • 5-(b-D-Ribofuranosyl)uracil
  • 5-(b-delta-Ribofuranosyl)uracil
  • 5-b-D-Ribofuranosyl-Uracil
  • 5-beta-delta-Ribofuranosyl-Uracil
  • 5-Ribosyluracil
1445-07-4
genes like me logo Genes that share compounds with PUS3: view

Transcripts for PUS3 Gene

Unigene Clusters for PUS3 Gene

Pseudouridylate synthase 3:
Representative Sequences:

CRISPR Products

Inhibitory RNA Products

Alternative Splicing Database (ASD) splice patterns (SP) for PUS3 Gene

No ASD Table

Relevant External Links for PUS3 Gene

GeneLoc Exon Structure for
PUS3
ECgene alternative splicing isoforms for
PUS3

Expression for PUS3 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for PUS3 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

Protein differential expression in normal tissues from HIPED for PUS3 Gene

This gene is overexpressed in Heart (51.8) and Adipocyte (12.7).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MaxQB, and MOPED for PUS3 Gene



Protein tissue co-expression partners for PUS3 Gene

NURSA nuclear receptor signaling pathways regulating expression of PUS3 Gene:

PUS3

SOURCE GeneReport for Unigene cluster for PUS3 Gene:

Hs.660922

Evidence on tissue expression from TISSUES for PUS3 Gene

  • Lung(4.2)
  • Pancreas(4.1)
genes like me logo Genes that share expression patterns with PUS3: view

Primer Products

No data available for mRNA differential expression in normal tissues , mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for PUS3 Gene

Orthologs for PUS3 Gene

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

Orthologs for PUS3 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia PUS3 34 35
  • 99.58 (n)
cow
(Bos Taurus)
Mammalia PUS3 34 35
  • 89.86 (n)
dog
(Canis familiaris)
Mammalia PUS3 34 35
  • 89.07 (n)
mouse
(Mus musculus)
Mammalia Pus3 34 16 35
  • 86.93 (n)
rat
(Rattus norvegicus)
Mammalia Pus3 34
  • 85.51 (n)
oppossum
(Monodelphis domestica)
Mammalia PUS3 35
  • 76 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia PUS3 35
  • 64 (a)
OneToOne
chicken
(Gallus gallus)
Aves PUS3 34 35
  • 68.13 (n)
lizard
(Anolis carolinensis)
Reptilia PUS3 35
  • 68 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia pus3 34
  • 60.84 (n)
zebrafish
(Danio rerio)
Actinopterygii pus3 34 35
  • 59.03 (n)
African malaria mosquito
(Anopheles gambiae)
Insecta AgaP_AGAP010807 34
  • 52.36 (n)
fruit fly
(Drosophila melanogaster)
Insecta CG3045 34 35
  • 49.96 (n)
worm
(Caenorhabditis elegans)
Secernentea tag-124 34 35
  • 50.4 (n)
K. lactis yeast
(Kluyveromyces lactis)
Saccharomycetes KLLA0E14345g 34
  • 53.73 (n)
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes DEG1 34 35 37
  • 53.14 (n)
A. gosspyii yeast
(Ashbya gossypii)
Saccharomycetes AGOS_AGL003W 34
  • 51.54 (n)
fission yeast
(Schizosaccharomyces pombe)
Schizosaccharomycetes SPAC25B8.05 34
  • 52.33 (n)
sea squirt
(Ciona savignyi)
Ascidiacea -- 35
  • 32 (a)
OneToOne
Species where no ortholog for PUS3 was found in the sources mined by GeneCards:
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • 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)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • 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)

Evolution for PUS3 Gene

ENSEMBL:
Gene Tree for PUS3 (if available)
TreeFam:
Gene Tree for PUS3 (if available)

Paralogs for PUS3 Gene

No data available for Paralogs for PUS3 Gene

Variants for PUS3 Gene

Sequence variations from dbSNP and Humsavar for PUS3 Gene

SNP ID Clin Chr 11 pos Sequence Context AA Info Type
rs104894232 Pathogenic 125,900,000(+) GACAG(A/G)CCGGG intron-variant, reference, missense
rs774005569 Pathogenic 125,893,928(+) AATTC(A/G)TCCCC intron-variant, reference, utr-variant-3-prime, stop-gained
rs79600654 Likely benign 125,900,375(+) TTTAT(A/G)GTAAG intron-variant, utr-variant-3-prime
rs117414825 Uncertain significance 125,900,597(+) TGTTT(G/T)TTAAG intron-variant, utr-variant-3-prime
rs138284572 Uncertain significance 125,899,836(+) AACCT(A/G)CCACA intron-variant, reference, synonymous-codon

Structural Variations from Database of Genomic Variants (DGV) for PUS3 Gene

Variant ID Type Subtype PubMed ID
dgv248n67 CNV gain 20364138
esv32964 CNV gain+loss 17666407
nsv468888 CNV loss 19166990
nsv556525 CNV gain 21841781
nsv556526 CNV loss 21841781

Variation tolerance for PUS3 Gene

Residual Variation Intolerance Score: 75.6% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 8.36; 85.40% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for PUS3 Gene

Human Gene Mutation Database (HGMD)
PUS3
SNPedia medical, phenotypic, and genealogical associations of SNPs for
PUS3

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for PUS3 Gene

Disorders for PUS3 Gene

UniProtKB/Swiss-Prot

PUS3_HUMAN
  • Mental retardation, autosomal recessive 55 (MRT55) [MIM:617051]: A form of mental retardation, a disorder characterized by significantly below average general intellectual functioning associated with impairments in adaptive behavior and manifested during the developmental period. {ECO:0000269 PubMed:27055666}. Note=The disease is caused by mutations affecting the gene represented in this entry.

Relevant External Links for PUS3

Atlas of Genetics and Cytogenetics in Oncology and Haematology:
PUS3

No disorders were found for PUS3 Gene.

No data available for MalaCards and Genatlas for PUS3 Gene

Publications for PUS3 Gene

  1. A homozygous truncating mutation in PUS3 expands the role of tRNA modification in normal cognition. (PMID: 27055666) Shaheen R. … Alkuraya F.S. (Hum. Genet. 2016) 3 4 64
  2. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T. … Sugano S. (Nat. Genet. 2004) 3 4 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. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. (PMID: 12477932) Strausberg R.L. … Marra M.A. (Proc. Natl. Acad. Sci. U.S.A. 2002) 2 3 64
  5. Pseudouridine synthase 3 from mouse modifies the anticodon loop of tRNA. (PMID: 11027153) Chen J. … Patton J.R. (Biochemistry 2000) 3 22 64

Products for PUS3 Gene

Sources for PUS3 Gene

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