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ALKBH3 alkB homolog 3, alpha-ketoglutarate dependent dioxygenase [ Homo sapiens (human) ]

Gene ID: 221120, updated on 16-Apr-2020

Summary

Official Symbol
ALKBH3provided by HGNC
Official Full Name
alkB homolog 3, alpha-ketoglutarate dependent dioxygenaseprovided by HGNC
Primary source
HGNC:HGNC:30141
See related
Ensembl:ENSG00000166199 MIM:610603
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
ABH3; PCA1; DEPC1; hABH3; DEPC-1
Summary
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]
Expression
Ubiquitous expression in testis (RPKM 6.9), prostate (RPKM 6.8) and 25 other tissues See more
Orthologs

Genomic context

See ALKBH3 in Genome Data Viewer
Location:
11p11.2
Exon count:
10
Annotation release Status Assembly Chr Location
109.20200228 current GRCh38.p13 (GCF_000001405.39) 11 NC_000011.10 (43880831..43920274)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 11 NC_000011.9 (43902357..43941825)

Chromosome 11 - NC_000011.10Genomic Context describing neighboring genes Neighboring gene hydroxysteroid 17-beta dehydrogenase 12 Neighboring gene uncharacterized LOC107984328 Neighboring gene uncharacterized LOC105376644 Neighboring gene SEC14 like 1 pseudogene 1 Neighboring gene ALKBH3 antisense RNA 1 Neighboring gene chromosome 11 open reading frame 96 Neighboring gene 1-aminocyclopropane-1-carboxylate synthase homolog (inactive) like

Genomic regions, transcripts, and products

Expression

  • Project title: HPA RNA-seq normal tissues
  • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
  • BioProject: PRJEB4337
  • Publication: PMID 24309898
  • Analysis date: Wed Apr 4 07:08:55 2018

Bibliography

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

HIV-1 interactions

Replication interactions

Interaction Pubs
Knockdown of alkB, alkylation repair homolog 3 (E. coli, ALKBH3) by siRNA inhibits the early stages of HIV-1 replication in 293T cells infected with VSV-G pseudotyped HIV-1 PubMed

Go to the HIV-1, Human Interaction Database

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Clone Names

  • FLJ43614, MGC118790, MGC118792, MGC118793

Gene Ontology Provided by GOA

Function Evidence Code Pubs
DNA-N1-methyladenine dioxygenase activity IDA
Inferred from Direct Assay
more info
PubMed 
DNA-N1-methyladenine dioxygenase activity IMP
Inferred from Mutant Phenotype
more info
PubMed 
L-ascorbic acid binding IEA
Inferred from Electronic Annotation
more info
 
RNA N1-methyladenosine dioxygenase activity IDA
Inferred from Direct Assay
more info
PubMed 
cytosine C-5 DNA demethylase activity IEA
Inferred from Electronic Annotation
more info
 
ferrous iron binding IDA
Inferred from Direct Assay
more info
PubMed 
protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
Process Evidence Code Pubs
DNA dealkylation involved in DNA repair IDA
Inferred from Direct Assay
more info
PubMed 
DNA dealkylation involved in DNA repair TAS
Traceable Author Statement
more info
 
DNA repair IDA
Inferred from Direct Assay
more info
PubMed 
cell proliferation IMP
Inferred from Mutant Phenotype
more info
PubMed 
oxidative single-stranded DNA demethylation IDA
Inferred from Direct Assay
more info
PubMed 
oxidative single-stranded DNA demethylation IMP
Inferred from Mutant Phenotype
more info
PubMed 
oxidative single-stranded RNA demethylation IDA
Inferred from Direct Assay
more info
PubMed 
Component Evidence Code Pubs
cytosol IDA
Inferred from Direct Assay
more info
 
mitochondrion IDA
Inferred from Direct Assay
more info
 
nucleoplasm IDA
Inferred from Direct Assay
more info
 
nucleoplasm TAS
Traceable Author Statement
more info
 
nucleus IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 

General protein information

Preferred Names
alpha-ketoglutarate-dependent dioxygenase alkB homolog 3
Names
alkB homolog 3, alpha-ketoglutaratedependent dioxygenase
alkB, alkylation repair homolog 3
alkylated DNA repair protein alkB homolog 3
prostate cancer antigen-1
NP_631917.1

NCBI Reference Sequences (RefSeq)

RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

  1. NM_139178.4NP_631917.1  alpha-ketoglutarate-dependent dioxygenase alkB homolog 3

    See identical proteins and their annotated locations for NP_631917.1

    Status: VALIDATED

    Source sequence(s)
    AC087521
    Consensus CDS
    CCDS7906.1
    UniProtKB/Swiss-Prot
    Q96Q83
    Related
    ENSP00000302232.4, ENST00000302708.9
    Conserved Domains (1) summary
    cl21496
    Location:90275
    2OG-FeII_Oxy; 2OG-Fe(II) oxygenase superfamily

RefSeqs of Annotated Genomes: Homo sapiens Updated Annotation Release 109.

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000011.10 Reference GRCh38.p13 Primary Assembly

    Range
    43880831..43920274
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
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