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Aliases for TOP3A Gene

Aliases for TOP3A Gene

  • Topoisomerase (DNA) III Alpha 2 3 5
  • Zinc Finger, GRF-Type Containing 7 2 3
  • DNA Topoisomerase III Alpha 3 4
  • TOP3 3 4
  • DNA Topoisomerase 3-Alpha 3
  • Topo III-Alpha 3
  • EC 5.99.1.2 4
  • ZGRF7 3

External Ids for TOP3A Gene

Previous HGNC Symbols for TOP3A Gene

  • TOP3

Previous GeneCards Identifiers for TOP3A Gene

  • GC17M018422
  • GC17M019769
  • GC17M018117
  • GC17M018377
  • GC17M017930
  • GC17M018175

Summaries for TOP3A Gene

Entrez Gene Summary for TOP3A Gene

  • This gene encodes a DNA topoisomerase, an enzyme that controls and alters the topologic states of DNA during transcription. This enzyme catalyzes the transient breaking and rejoining of a single strand of DNA which allows the strands to pass through one another, thus reducing the number of supercoils and altering the topology of DNA. This enzyme forms a complex with BLM which functions in the regulation of recombination in somatic cells. Alternative splicing results in multiple transcript variants encoding different isoforms. [provided by RefSeq, Mar 2016]

GeneCards Summary for TOP3A Gene

TOP3A (Topoisomerase (DNA) III Alpha) is a Protein Coding gene. Diseases associated with TOP3A include Occupational Dermatitis. Among its related pathways are Meiosis and Cell Cycle Checkpoints. GO annotations related to this gene include nucleic acid binding and DNA topoisomerase activity. An important paralog of this gene is TOP3B.

UniProtKB/Swiss-Prot for TOP3A Gene

  • Releases the supercoiling and torsional tension of DNA introduced during the DNA replication and transcription by transiently cleaving and rejoining one strand of the DNA duplex. Introduces a single-strand break via transesterification at a target site in duplex DNA. The scissile phosphodiester is attacked by the catalytic tyrosine of the enzyme, resulting in the formation of a DNA-(5-phosphotyrosyl)-enzyme intermediate and the expulsion of a 3-OH DNA strand. The free DNA strand then undergoes passage around the unbroken strand thus removing DNA supercoils. Finally, in the religation step, the DNA 3-OH attacks the covalent intermediate to expel the active-site tyrosine and restore the DNA phosphodiester backbone. Essential component of the RMI complex, a complex that plays an important role in the processing of homologous recombination intermediates to limit DNA crossover formation in cells. Has DNA decatenation activity.

Gene Wiki entry for TOP3A Gene

No data available for Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for TOP3A Gene

Genomics for TOP3A Gene

Regulatory Elements for TOP3A Gene

Enhancers for TOP3A 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
GH17F018267 0.9 Ensembl ENCODE 23 +46.6 46555 1.2 ZNF263 MAZ SP2 ZIC2 SSRP1 ZFHX2 PATZ1 IKZF1 EGR2 ZBTB20 SHMT1 TOP3A RPL21P121 SMCR8 LLGL1 MIR6778 MYO15A DRG2 ENSG00000260647 GC17M018275
GH17F018181 1.5 FANTOM5 ENCODE 10.5 +129.9 129928 8.0 MLX CREB3L1 ZFP64 FEZF1 DMAP1 YY1 SLC30A9 ZNF143 ZNF548 ZNF263 SMCR8 FOXO3B MYO15A DRG2 LLGL1 ZNF286B MIEF2 FAM106A NOS2P2 ENSG00000262202
GH17F017833 1.6 FANTOM5 ENCODE 6.8 +476.6 476553 8.9 HDGF PKNOX1 CREB3L1 MLX WRNIP1 ZFP64 ARID4B SIN3A DMAP1 ZNF2 SMCR8 DRG2 FOXO3B TOM1L2 LOC100419436 ENSG00000264885 MPRIP-AS1 FAM106A RPL13P12 TOP3A
GH17F018223 1 ENCODE 10.7 +89.8 89751 2.8 HDGF PKNOX1 CREB3L1 ZFP64 ARID4B SIN3A DMAP1 ZNF48 ZNF2 ETS1 LLGL1 SMCR8 SHMT1 MIEF2 ENSG00000273018 FOXO3B TVP23B DRG2 MYO15A RPL21P121
GH17F017847 1.7 FANTOM5 Ensembl ENCODE 5.5 +464.9 464907 5.0 HDGF PKNOX1 ARNT ARID4B SIN3A DMAP1 YY1 ZNF143 KLF13 ZNF263 TOM1L2 ZNF286B SMCR5 MIR33B DRG2 LLGL1 RAI1 TOP3A PEMT RASD1
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around TOP3A on UCSC Golden Path with GeneCards custom track

Promoters for TOP3A Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00001342188 207 2401 HDGF PKNOX1 CREB3L1 WRNIP1 ARID4B SIN3A FEZF1 DMAP1 ZNF2 YY1

Genomic Location for TOP3A Gene

Chromosome:
17
Start:
18,271,428 bp from pter
End:
18,315,007 bp from pter
Size:
43,580 bases
Orientation:
Minus strand

Genomic View for TOP3A Gene

Genes around TOP3A on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
TOP3A Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for TOP3A Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for TOP3A Gene

Proteins for TOP3A Gene

  • Protein details for TOP3A Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q13472-TOP3A_HUMAN
    Recommended name:
    DNA topoisomerase 3-alpha
    Protein Accession:
    Q13472
    Secondary Accessions:
    • A8KA61
    • B4DK80
    • D3DXC7
    • Q13473

    Protein attributes for TOP3A Gene

    Size:
    1001 amino acids
    Molecular mass:
    112372 Da
    Cofactor:
    Name=Mg(2+); Xref=ChEBI:CHEBI:18420;
    Quaternary structure:
    • Interacts (via N-terminal region) with BLM; the interaction is direct. Directly interacts with RMI1. Component of the RMI complex, containing at least TOP3A, RMI1 and RMI2. The RMI complex interacts with BLM.

    Three dimensional structures from OCA and Proteopedia for TOP3A Gene

    Alternative splice isoforms for TOP3A Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for TOP3A Gene

Post-translational modifications for TOP3A Gene

  • Ubiquitination at Lys 257 and Lys 557
  • Modification sites at PhosphoSitePlus

No data available for DME Specific Peptides for TOP3A Gene

Domains & Families for TOP3A Gene

Gene Families for TOP3A Gene

Graphical View of Domain Structure for InterPro Entry

Q13472

UniProtKB/Swiss-Prot:

TOP3A_HUMAN :
  • Contains 1 Toprim domain.
  • Belongs to the type IA topoisomerase family.
Domain:
  • Contains 1 Toprim domain.
Family:
  • Belongs to the type IA topoisomerase family.
genes like me logo Genes that share domains with TOP3A: view

Function for TOP3A Gene

Molecular function for TOP3A Gene

GENATLAS Biochemistry:
DNA topoisomerase III,putatively involved in suppression of mitotic recombination between repetitive sequences,deleted in SMCR
UniProtKB/Swiss-Prot CatalyticActivity:
ATP-independent breakage of single-stranded DNA, followed by passage and rejoining.
UniProtKB/Swiss-Prot Function:
Releases the supercoiling and torsional tension of DNA introduced during the DNA replication and transcription by transiently cleaving and rejoining one strand of the DNA duplex. Introduces a single-strand break via transesterification at a target site in duplex DNA. The scissile phosphodiester is attacked by the catalytic tyrosine of the enzyme, resulting in the formation of a DNA-(5-phosphotyrosyl)-enzyme intermediate and the expulsion of a 3-OH DNA strand. The free DNA strand then undergoes passage around the unbroken strand thus removing DNA supercoils. Finally, in the religation step, the DNA 3-OH attacks the covalent intermediate to expel the active-site tyrosine and restore the DNA phosphodiester backbone. Essential component of the RMI complex, a complex that plays an important role in the processing of homologous recombination intermediates to limit DNA crossover formation in cells. Has DNA decatenation activity.

Enzyme Numbers (IUBMB) for TOP3A Gene

Gene Ontology (GO) - Molecular Function for TOP3A Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003676 nucleic acid binding IEA --
GO:0003677 DNA binding IEA,TAS --
GO:0003916 DNA topoisomerase activity IBA --
GO:0003917 DNA topoisomerase type I activity IDA 20445207
GO:0005515 protein binding IPI 10728666
genes like me logo Genes that share ontologies with TOP3A: view
genes like me logo Genes that share phenotypes with TOP3A: view

Animal Models for TOP3A Gene

MGI Knock Outs for TOP3A:

Animal Model Products

Inhibitory RNA Products

Clone Products

Flow Cytometry Products

No data available for Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for TOP3A Gene

Localization for TOP3A 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 TOP3A gene
Compartment Confidence
nucleus 5
cytosol 3
mitochondrion 2

Gene Ontology (GO) - Cellular Components for TOP3A Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus IBA,TAS --
GO:0005654 nucleoplasm TAS --
GO:0005694 chromosome IEA --
GO:0005829 cytosol IBA --
GO:0016605 PML body IDA 10728666
genes like me logo Genes that share ontologies with TOP3A: view

No data available for Subcellular locations from UniProtKB/Swiss-Prot for TOP3A Gene

Pathways & Interactions for TOP3A Gene

genes like me logo Genes that share pathways with TOP3A: view

Pathways by source for TOP3A Gene

Gene Ontology (GO) - Biological Process for TOP3A Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000731 DNA synthesis involved in DNA repair TAS --
GO:0000732 strand displacement TAS --
GO:0006260 DNA replication TAS --
GO:0006265 DNA topological change IDA 20445207
GO:0007126 meiotic nuclear division TAS 8622991
genes like me logo Genes that share ontologies with TOP3A: view

No data available for SIGNOR curated interactions for TOP3A Gene

Drugs & Compounds for TOP3A Gene

(1) Drugs for TOP3A Gene - From: Novoseek

Name Status Disease Links Group Role Mechanism of Action Clinical Trials

(1) Additional Compounds for TOP3A Gene - From: Novoseek

Name Synonyms Role CAS Number PubChem IDs PubMed IDs
genes like me logo Genes that share compounds with TOP3A: view

Transcripts for TOP3A Gene

Unigene Clusters for TOP3A Gene

Topoisomerase (DNA) III alpha:
Representative Sequences:

Inhibitory RNA Products

Clone Products

Flow Cytometry Products

Alternative Splicing Database (ASD) splice patterns (SP) for TOP3A Gene

ExUns: 1a · 1b · 1c · 1d ^ 2 ^ 3a · 3b ^ 4 ^ 5a · 5b · 5c ^ 6 ^ 7a · 7b · 7c · 7d ^ 8a · 8b ^ 9 ^ 10 ^ 11 ^ 12 ^ 13 ^ 14 ^ 15 ^ 16 ^
SP1: - - - - -
SP2: - - - - -
SP3: - - -
SP4: - - - - - - -
SP5: - - - - - -
SP6: - - - - - -
SP7: -
SP8:
SP9: - -
SP10:
SP11:

ExUns: 17a · 17b ^ 18a · 18b ^ 19 ^ 20a · 20b
SP1: -
SP2: -
SP3:
SP4:
SP5:
SP6:
SP7:
SP8:
SP9:
SP10:
SP11:

Relevant External Links for TOP3A Gene

GeneLoc Exon Structure for
TOP3A
ECgene alternative splicing isoforms for
TOP3A

Expression for TOP3A Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for TOP3A Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

Protein differential expression in normal tissues from HIPED for TOP3A Gene

This gene is overexpressed in Retina (57.3) and Testis (10.2).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MaxQB, and MOPED for TOP3A Gene



Protein tissue co-expression partners for TOP3A Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of TOP3A Gene:

TOP3A

SOURCE GeneReport for Unigene cluster for TOP3A Gene:

Hs.592115

mRNA Expression by UniProt/SwissProt for TOP3A Gene:

Q13472-TOP3A_HUMAN
Tissue specificity: High expression is found in testis, heart, skeletal muscle and pancreas.
genes like me logo Genes that share expression patterns with TOP3A: view

Primer Products

No data available for mRNA differential expression in normal tissues for TOP3A Gene

Orthologs for TOP3A Gene

This gene was present in the common ancestor of eukaryotes.

Orthologs for TOP3A Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia TOP3A 35 34
  • 99.3 (n)
OneToOne
dog
(Canis familiaris)
Mammalia TOP3A 34 35
  • 87.86 (n)
mouse
(Mus musculus)
Mammalia Top3a 16 35 34
  • 85.18 (n)
rat
(Rattus norvegicus)
Mammalia Top3a 34
  • 83.26 (n)
cow
(Bos Taurus)
Mammalia TOP3A 34 35
  • 82.93 (n)
oppossum
(Monodelphis domestica)
Mammalia TOP3A 35
  • 79 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia TOP3A 35
  • 79 (a)
OneToOne
chicken
(Gallus gallus)
Aves TOP3A 34 35
  • 71.1 (n)
lizard
(Anolis carolinensis)
Reptilia TOP3A 35
  • 72 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia top3a 34
  • 71.61 (n)
Str.19892 34
African clawed frog
(Xenopus laevis)
Amphibia Xl.8942 34
zebrafish
(Danio rerio)
Actinopterygii top3a 34 35
  • 64.78 (n)
fruit fly
(Drosophila melanogaster)
Insecta Top3alpha 36 34 35
  • 56.23 (n)
African malaria mosquito
(Anopheles gambiae)
Insecta AgaP_AGAP010028 34
  • 53.15 (n)
worm
(Caenorhabditis elegans)
Secernentea top-3 36 34 35
  • 53.79 (n)
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes TOP3 35
  • 40 (a)
OneToMany
thale cress
(Arabidopsis thaliana)
eudicotyledons TOP3A 34
  • 51.86 (n)
rice
(Oryza sativa)
Liliopsida Os03g0165000 34
  • 51.87 (n)
sea squirt
(Ciona savignyi)
Ascidiacea -- 35
  • 53 (a)
OneToOne
Species where no ortholog for TOP3A was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • 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)
  • fission yeast (Schizosaccharomyces pombe)
  • 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 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)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)

Evolution for TOP3A Gene

ENSEMBL:
Gene Tree for TOP3A (if available)
TreeFam:
Gene Tree for TOP3A (if available)

Paralogs for TOP3A Gene

Paralogs for TOP3A Gene

genes like me logo Genes that share paralogs with TOP3A: view

Variants for TOP3A Gene

Sequence variations from dbSNP and Humsavar for TOP3A Gene

SNP ID Clin Chr 17 pos Sequence Context AA Info Type
rs1001303 -- 18,277,290(-) GATGA(A/G)TACAT intron-variant
rs10647472 -- 18,308,670(+) TTTTT(-/TT/TTT)GTAAT intron-variant
rs10668277 -- 18,280,174(+) TTTTT(-/AT/TT)AAAGA intron-variant
rs10700487 -- 18,271,272(+) GGGGG(-/G)TCCAT nc-transcript-variant, downstream-variant-500B, utr-variant-3-prime
rs11078413 -- 18,308,697(+) GCTGA(A/G)ATGGG intron-variant

Structural Variations from Database of Genomic Variants (DGV) for TOP3A Gene

Variant ID Type Subtype PubMed ID
nsv962274 CNV duplication 23825009
nsv833387 CNV loss 17160897
nsv833386 CNV gain 17160897
nsv499114 OTHER inversion 21111241
nsv428333 CNV gain 18775914
nsv155 OTHER inversion 15895083
nsv1134605 CNV deletion 24896259
nsv1116191 CNV deletion 24896259
esv3640146 CNV gain 21293372
esv3640144 CNV loss 21293372
esv3554219 CNV deletion 23714750
esv2657654 CNV deletion 23128226
esv1743367 CNV insertion 17803354

Variation tolerance for TOP3A Gene

Residual Variation Intolerance Score: 16.9% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 6.54; 77.81% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for TOP3A Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
TOP3A

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for TOP3A Gene

Disorders for TOP3A Gene

MalaCards: The human disease database

(1) MalaCards diseases for TOP3A Gene - From: DISEASES

Disorder Aliases PubMed IDs
occupational dermatitis
  • occupational allergic contact dermatitis
- elite association - COSMIC cancer census association via MalaCards
Search TOP3A in MalaCards View complete list of genes associated with diseases

Relevant External Links for TOP3A

Genetic Association Database (GAD)
TOP3A
Human Genome Epidemiology (HuGE) Navigator
TOP3A
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
TOP3A
genes like me logo Genes that share disorders with TOP3A: view

No data available for UniProtKB/Swiss-Prot and Genatlas for TOP3A Gene

Publications for TOP3A Gene

  1. Human TOP3: a single-copy gene encoding DNA topoisomerase III. (PMID: 8622991) Hanai R. … Wang J.C. (Proc. Natl. Acad. Sci. U.S.A. 1996) 3 4 22 64
  2. Scaffolding protein SPIDR/KIAA0146 connects the Bloom syndrome helicase with homologous recombination repair. (PMID: 23509288) Wan L. … Huang J. (Proc. Natl. Acad. Sci. U.S.A. 2013) 3 4 64
  3. Identification of rare DNA variants in mitochondrial disorders with improved array-based sequencing. (PMID: 20843780) Wang W. … Scharfe C. (Nucleic Acids Res. 2011) 3 4 64
  4. Human topoisomerase IIIalpha is a single-stranded DNA decatenase that is stimulated by BLM and RMI1. (PMID: 20445207) Yang J. … Brown G.W. (J. Biol. Chem. 2010) 3 4 64
  5. Association between polymorphisms in RMI1, TOP3A, and BLM and risk of cancer, a case-control study. (PMID: 19432957) Broberg K. … HAPglund M. (BMC Cancer 2009) 3 46 64

Products for TOP3A Gene

Sources for TOP3A Gene

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