Free for academic non-profit institutions. Other users need a Commercial license

Aliases for ALKBH3 Gene

Aliases for ALKBH3 Gene

  • AlkB Homolog 3, Alpha-Ketoglutarate-Dependent Dioxygenase 2 3 5
  • Alkylated DNA Repair Protein AlkB Homolog 3 3 4
  • Prostate Cancer Antigen 1 3 4
  • DEPC-1 3 4
  • DEPC1 3 4
  • ABH3 3 4
  • AlkB, Alkylation Repair Homolog 3 (E. Coli) 2
  • AlkB, Alkylation Repair Homolog 3 3
  • Prostate Cancer Antigen-1 3
  • EC 1.14.11.- 4
  • EC 1.14.11 63
  • PCA1 3

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 Homolog 3, Alpha-Ketoglutarate-Dependent Dioxygenase) is a Protein Coding gene. Diseases associated with ALKBH3 include prostate cancer. Among its related pathways are DNA Double-Strand Break Repair and DNA Damage Reversal. GO annotations related to this gene include oxidoreductase activity and L-ascorbic acid binding. 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

Promoters for ALKBH3 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters

ENSRs around ALKBH3 on UCSC Golden Path with GeneCards custom track

Genomic Location for ALKBH3 Gene

Chromosome:
11
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

Genes around ALKBH3 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
ALKBH3 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
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;
    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

Antibody Products

Domains & Families for ALKBH3 Gene

Gene Families for ALKBH3 Gene

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 :
  • Contains 1 Fe2OG dioxygenase domain.
  • Belongs to the alkB family.
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:0051747 cytosine C-5 DNA demethylase activity IEA --
GO:1990930 RNA N1-methyladenosine dioxygenase activity IDA 26863196
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

  • Taconic Biosciences Mouse Models for ALKBH3

Inhibitory RNA Products

In Situ Assay Products

Flow Cytometry Products

No data available for Human Phenotype Ontology , Transcription Factor Targets 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
mitochondrion 5
nucleus 5
cytosol 3

No data available for Gene Ontology (GO) - Cellular Components for ALKBH3 Gene

Pathways & Interactions 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:0055114 oxidation-reduction process IEA --
genes like me logo Genes that share ontologies with ALKBH3: view

No data available for SIGNOR curated interactions for ALKBH3 Gene

Drugs & Compounds for ALKBH3 Gene

(2) Drugs for ALKBH3 Gene - From: DrugBank and HMDB

Name Status Disease Links Group Role Mechanism of Action Clinical Trials
Vitamin C Approved Nutra Target 424,424
2-Ketobutyric acid Experimental Pharma 0

(1) Additional Compounds for ALKBH3 Gene - From: HMDB

Name Synonyms Role CAS Number PubChem IDs PubMed IDs
Fe2+
  • Armco iron
  • Carbonyl iron
  • FE
  • Ferrovac e
  • Hematite
15438-31-0
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:

Inhibitory RNA 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

Protein differential expression in normal tissues from HIPED for ALKBH3 Gene

This gene is overexpressed in Serum (61.2).

Integrated Proteomics: protein expression in normal tissues and cell lines 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 expression patterns with ALKBH3: view

Primer Products

In Situ Assay Products

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA differential expression in normal tissues and Protein tissue co-expression partners 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 36
  • 87 (a)
OneToOne
ALKBH3 35
  • 89.39 (n)
  • 87.06 (a)
dog
(Canis familiaris)
Mammalia ALKBH3 35
  • 88.85 (n)
  • 87.32 (a)
ALKBH3 36
  • 77 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Alkbh3 16
Alkbh3 35
  • 84.8 (n)
  • 85.96 (a)
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 36
  • 54 (a)
OneToOne
alkbh3 35
  • 58.06 (n)
  • 57.56 (a)
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
VAR_026631 -
rs2271815 - 43,901,546(+) AGAAC(C/T)GCATT reference, missense
rs1554315 -- 43,893,022(-) CTCCA(C/T)GTTTC intron-variant
rs1554316 -- 43,892,988(-) GTCTC(A/G)GCACT intron-variant
rs1518813 -- 43,906,747(-) CAATT(G/T)ATTTC 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

Variation tolerance for ALKBH3 Gene

Residual Variation Intolerance Score: 57.3% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 7.06; 80.32% of all genes are more intolerant (likely to be disease-causing)

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

(1) MalaCards diseases for ALKBH3 Gene - From: DISEASES, Novoseek, and GeneCards

Disorder Aliases PubMed IDs
prostate cancer
  • prostate cancer, hereditary, 5
- elite association - COSMIC cancer census association via MalaCards

Relevant External Links for ALKBH3

Genetic Association Database (GAD)
ALKBH3
Human Genome Epidemiology (HuGE) Navigator
ALKBH3
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
ALKBH3
genes like me logo Genes that share disorders with ALKBH3: view

No data available for UniProtKB/Swiss-Prot and Genatlas 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 67
  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. Drugs, their targets and the nature and number of drug targets. (PMID: 17016423) Imming P. … Meyer A. (Nat Rev Drug Discov 2006) 25 26
  4. How many drug targets are there? (PMID: 17139284) Overington J.P. … Hopkins A.L. (Nat Rev Drug Discov 2006) 25 26
  5. Differential repair of etheno-DNA adducts by bacterial and human AlkB proteins. (PMID: 25797601) ZdA1alik D. … Tudek B. (DNA Repair (Amst.) 2015) 3

Products for ALKBH3 Gene

Sources for ALKBH3 Gene

Back to Top

Content