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Aliases for ALKBH3 Gene

Aliases for ALKBH3 Gene

  • AlkB, Alkylation Repair Homolog 3 (E. Coli) 2 3
  • DEPC1 3 4 6
  • ABH3 3 4 6
  • Alkylated DNA Repair Protein AlkB Homolog 3 3 4
  • Prostate Cancer Antigen 1 3 4
  • DEPC-1 3 4
  • PCA1 3 6
  • Alpha-Ketoglutarate-Dependent Dioxygenase AlkB Homolog 3 3
  • Prostate Cancer Antigen-1 3
  • EC 1.14.11.- 4
  • EC 1.14.11 63

External Ids for ALKBH3 Gene

Previous GeneCards Identifiers for ALKBH3 Gene

  • GC11P043859
  • GC11P043611

Summaries for ALKBH3 Gene

Entrez Gene Summary for ALKBH3 Gene

  • The Escherichia coli AlkB protein protects against the cytotoxicity of methylating agents by repair of the specific DNA lesions generated in single-stranded DNA. ALKBH2 (MIM 610602) and ALKBH3 are E. coli AlkB homologs that catalyze the removal of 1-methyladenine and 3-methylcytosine (Duncan et al., 2002 [PubMed 12486230]).[supplied by OMIM, Mar 2008]

GeneCards Summary for ALKBH3 Gene

ALKBH3 (AlkB, Alkylation Repair Homolog 3 (E. Coli)) is a Protein Coding gene. Diseases associated with ALKBH3 include prostate cancer. Among its related pathways are DNA Repair and DNA Repair. GO annotations related to this gene include L-ascorbic acid binding and DNA-N1-methyladenine dioxygenase activity. An important paralog of this gene is ALKBH2.

UniProtKB/Swiss-Prot for ALKBH3 Gene

  • Dioxygenase that repairs alkylated DNA containing 1-methyladenine (1meA) and 3-methylcytosine (3meC) by oxidative demethylation. Has a strong preference for single-stranded DNA. Able to process alkylated 3mC within double-stranded regions via its interaction with ASCC3, which promotes DNA unwinding to generate single-stranded substrate needed for ALKHB3. May also act on RNA. Requires molecular oxygen, alpha-ketoglutarate and iron.

No data available for Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for ALKBH3 Gene

Genomics for ALKBH3 Gene

Regulatory Elements for ALKBH3 Gene

Genomic Location for ALKBH3 Gene

Start:
43,880,807 bp from pter
End:
43,920,275 bp from pter
Size:
39,469 bases
Orientation:
Plus strand

Genomic View for ALKBH3 Gene

UCSC Golden Path with GeneCards custom track
Cytogenetic band:
Genomic Location for ALKBH3 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for ALKBH3 Gene

Proteins for ALKBH3 Gene

  • Protein details for ALKBH3 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q96Q83-ALKB3_HUMAN
    Recommended name:
    Alpha-ketoglutarate-dependent dioxygenase alkB homolog 3
    Protein Accession:
    Q96Q83
    Secondary Accessions:
    • A6NDJ1
    • Q3SYI0
    • Q6NX57
    • Q96BU8

    Protein attributes for ALKBH3 Gene

    Size:
    286 amino acids
    Molecular mass:
    33375 Da
    Cofactor:
    Name=Fe(2+); Xref=ChEBI:CHEBI:29033; Note=Binds 1 Fe(2+) ion per subunit.;
    Quaternary structure:
    • Interacts with the TRIP4 complex, notably composed of ASCC3.
    SequenceCaution:
    • Sequence=AAH15155.1; Type=Erroneous initiation; Evidence={ECO:0000305};

    Three dimensional structures from OCA and Proteopedia for ALKBH3 Gene

    Alternative splice isoforms for ALKBH3 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for ALKBH3 Gene

Proteomics data for ALKBH3 Gene at MOPED

Selected DME Specific Peptides for ALKBH3 Gene

Post-translational modifications for ALKBH3 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for ALKBH3 Gene

Domains for ALKBH3 Gene

Gene Families for ALKBH3 Gene

HGNC:
  • ALKB :Alkylation repair homologs

Protein Domains for ALKBH3 Gene

Suggested Antigen Peptide Sequences for ALKBH3 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

Q96Q83

UniProtKB/Swiss-Prot:

ALKB3_HUMAN :
  • Q96Q83
Domain:
  • Contains 1 Fe2OG dioxygenase domain.
Family:
  • Belongs to the alkB family.
genes like me logo Genes that share domains with ALKBH3: view

Function for ALKBH3 Gene

Molecular function for ALKBH3 Gene

UniProtKB/Swiss-Prot EnzymeRegulation: Activated by ascorbate.
UniProtKB/Swiss-Prot Function: Dioxygenase that repairs alkylated DNA containing 1-methyladenine (1meA) and 3-methylcytosine (3meC) by oxidative demethylation. Has a strong preference for single-stranded DNA. Able to process alkylated 3mC within double-stranded regions via its interaction with ASCC3, which promotes DNA unwinding to generate single-stranded substrate needed for ALKHB3. May also act on RNA. Requires molecular oxygen, alpha-ketoglutarate and iron.

Enzyme Numbers (IUBMB) for ALKBH3 Gene

Gene Ontology (GO) - Molecular Function for ALKBH3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005515 protein binding IPI 22055184
GO:0008198 ferrous iron binding IDA 16858410
GO:0016491 oxidoreductase activity --
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 --
GO:0031418 L-ascorbic acid binding IEA --
genes like me logo Genes that share ontologies with ALKBH3: view
genes like me logo Genes that share phenotypes with ALKBH3: view

Animal Models for ALKBH3 Gene

MGI Knock Outs for ALKBH3:

Animal Model Products

CRISPR Products

miRNA Products

Inhibitory RNA Products

  • Predesigned siRNA for gene silencing in human,mouse,rat for ALKBH3

In Situ Assay Products

Flow Cytometry Products

No data available for miRNA , Transcription Factor Targeting and HOMER Transcription for ALKBH3 Gene

Localization for ALKBH3 Gene

Subcellular locations from UniProtKB/Swiss-Prot for ALKBH3 Gene

Cytoplasm. Nucleus.

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for ALKBH3 Gene COMPARTMENTS Subcellular localization image for ALKBH3 gene
Compartment Confidence
nucleus 5
mitochondrion 4
cytosol 3

Gene Ontology (GO) - Cellular Components for ALKBH3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus IDA --
GO:0005654 nucleoplasm TAS --
GO:0005737 cytoplasm IDA --
GO:0005739 mitochondrion IDA --
genes like me logo Genes that share ontologies with ALKBH3: view

Pathways for ALKBH3 Gene

genes like me logo Genes that share pathways with ALKBH3: view

Gene Ontology (GO) - Biological Process for ALKBH3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006281 DNA repair TAS --
GO:0006307 DNA dealkylation involved in DNA repair TAS --
GO:0008283 cell proliferation IMP 22055184
GO:0035552 oxidative single-stranded DNA demethylation IMP 22055184
GO:0055114 oxidation-reduction process --
genes like me logo Genes that share ontologies with ALKBH3: view

Compounds for ALKBH3 Gene

(3) HMDB Compounds for ALKBH3 Gene

Compound Synonyms Cas Number PubMed IDs
2-Ketobutyric acid
  • 2-Ketobutanoate
600-18-0
Ascorbic acid
  • (+)-ascorbate
50-81-7
Iron
  • Armco iron
7439-89-6

(1) Drugbank Compounds for ALKBH3 Gene

Compound Synonyms Cas Number Type Actions PubMed IDs
Vitamin C
  • Ascorbate
50-81-7 target
genes like me logo Genes that share compounds with ALKBH3: view

Transcripts for ALKBH3 Gene

Unigene Clusters for ALKBH3 Gene

AlkB, alkylation repair homolog 3 (E. coli):
Representative Sequences:

CRISPR Products

miRNA Products

Inhibitory RNA Products

  • Predesigned siRNA for gene silencing in human,mouse,rat for ALKBH3

Primer Products

Flow Cytometry Products

Alternative Splicing Database (ASD) splice patterns (SP) for ALKBH3 Gene

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

Relevant External Links for ALKBH3 Gene

GeneLoc Exon Structure for
ALKBH3
ECgene alternative splicing isoforms for
ALKBH3

Expression for ALKBH3 Gene

mRNA expression in normal human tissues for ALKBH3 Gene

Integrated Proteomics: protein expression from ProteomicsDB, PaxDb, MOPED, and MaxQB for ALKBH3 Gene

SOURCE GeneReport for Unigene cluster for ALKBH3 Gene Hs.720708

mRNA Expression by UniProt/SwissProt for ALKBH3 Gene

Q96Q83-ALKB3_HUMAN
Tissue specificity: Ubiquitous. Detected in heart, pancreas, skeletal muscle, thymus, testis, ovary, spleen, prostate, small intestine, peripheral blood leukocytes, urinary bladder and colon.
genes like me logo Genes that share expressions with ALKBH3: view

In Situ Assay Products

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery and mRNA differential expression in normal tissues for ALKBH3 Gene

Orthologs for ALKBH3 Gene

This gene was present in the common ancestor of chordates.

Orthologs for ALKBH3 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia ALKBH3 35
  • 99.65 (n)
  • 100 (a)
ALKBH3 36
  • 100 (a)
OneToOne
cow
(Bos Taurus)
Mammalia ALKBH3 35
  • 89.39 (n)
  • 87.06 (a)
ALKBH3 36
  • 87 (a)
OneToOne
dog
(Canis familiaris)
Mammalia ALKBH3 35
  • 88.85 (n)
  • 87.32 (a)
ALKBH3 36
  • 77 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Alkbh3 35
  • 84.8 (n)
  • 85.96 (a)
Alkbh3 16
Alkbh3 36
  • 85 (a)
OneToOne
oppossum
(Monodelphis domestica)
Mammalia -- 36
  • 79 (a)
OneToMany
-- 36
  • 52 (a)
OneToMany
platypus
(Ornithorhynchus anatinus)
Mammalia ALKBH3 36
  • 67 (a)
OneToOne
rat
(Rattus norvegicus)
Mammalia Alkbh3 35
  • 85.03 (n)
  • 86.67 (a)
chicken
(Gallus gallus)
Aves ALKBH3 35
  • 67.85 (n)
  • 67.97 (a)
ALKBH3 36
  • 64 (a)
OneToOne
lizard
(Anolis carolinensis)
Reptilia ALKBH3 36
  • 50 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia alkbh3 35
  • 64.37 (n)
  • 64.49 (a)
zebrafish
(Danio rerio)
Actinopterygii alkbh3 35
  • 58.06 (n)
  • 57.56 (a)
alkbh3 36
  • 54 (a)
OneToOne
Dr.14529 35
sea squirt
(Ciona savignyi)
Ascidiacea -- 36
  • 41 (a)
OneToMany
Species with no ortholog for ALKBH3:
  • 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 ALKBH3 Gene

ENSEMBL:
Gene Tree for ALKBH3 (if available)
TreeFam:
Gene Tree for ALKBH3 (if available)

Paralogs for ALKBH3 Gene

Paralogs for ALKBH3 Gene

genes like me logo Genes that share paralogs with ALKBH3: view

Variants for ALKBH3 Gene

Sequence variations from dbSNP and Humsavar for ALKBH3 Gene

SNP ID Clin Chr 11 pos Sequence Context AA Info Type MAF
rs1518813 -- 43,906,747(-) CAATT(G/T)ATTTC intron-variant
rs1518818 -- 43,891,375(-) TCATT(A/G/T)TATTA intron-variant
rs1518819 -- 43,891,241(-) CAACA(A/G)TCAAA intron-variant
rs1554315 -- 43,893,022(-) CTCCA(C/T)GTTTC intron-variant
rs1554316 -- 43,892,988(-) GTCTC(A/G)GCACT intron-variant

Structural Variations from Database of Genomic Variants (DGV) for ALKBH3 Gene

Variant ID Type Subtype PubMed ID
nsv832138 CNV Gain 17160897
esv2616474 CNV Deletion 19546169
esv2744413 CNV Deletion 23290073
esv2028436 CNV Deletion 18987734
esv2663316 CNV Deletion 23128226
esv6093 CNV Loss 19470904
nsv467867 CNV Gain 19166990
esv272089 CNV Insertion 20981092

Relevant External Links for ALKBH3 Gene

HapMap Linkage Disequilibrium report
ALKBH3

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for ALKBH3 Gene

Disorders for ALKBH3 Gene

MalaCards: The human disease database

MalaCards: The human disease database. (1) Diseases for ALKBH3 Gene including...

Search for ALKBH3 Gene in MalaCards »

(1) University of Copenhagen DISEASES for ALKBH3 Gene

(1) Novoseek inferred disease relationships for ALKBH3 Gene

Disease -log(P) Hits PubMed IDs
prostate cancer 32.5 6

Relevant External Links for ALKBH3

Genetic Association Database (GAD)
ALKBH3
Human Genome Epidemiology (HuGE) Navigator
ALKBH3
genes like me logo Genes that share disorders with ALKBH3: view

No data available for UniProtKB/Swiss-Prot for ALKBH3 Gene

Publications for ALKBH3 Gene

  1. DNA unwinding by ASCC3 helicase is coupled to ALKBH3-dependent DNA alkylation repair and cancer cell proliferation. (PMID: 22055184) Dango S. … Shi Y. (Mol. Cell 2011) 2 3 4
  2. Prostate cancer antigen-1 as a potential novel marker for prostate cancer. (PMID: 17968469) Liu B.Q. … Liu R.L. (Asian J. Androl. 2007) 3 23
  3. Reversal of DNA alkylation damage by two human dioxygenases. (PMID: 12486230) Duncan T. … Sedgwick B. (Proc. Natl. Acad. Sci. U.S.A. 2002) 3 4
  4. Human and bacterial oxidative demethylases repair alkylation damage in both RNA and DNA. (PMID: 12594517) Aas P.A. … Krokan H.E. (Nature 2003) 3 4
  5. Human ABH3 structure and key residues for oxidative demethylation to reverse DNA/RNA damage. (PMID: 16858410) Sundheim O. … Slupphaug G. (EMBO J. 2006) 3 4

Products for ALKBH3 Gene

Sources for ALKBH3 Gene

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