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Protein

Alpha-ketoglutarate-dependent dioxygenase alkB homolog 3

Gene

Alkbh3

Organism
Rattus norvegicus (Rat)
Status
Reviewed-Annotation score: Annotation score: 4 out of 5-Experimental evidence at transcript leveli

Functioni

Dioxygenase that mediates demethylation of DNA and RNA containing 1-methyladenosine (m1A). Repairs alkylated DNA containing 1-methyladenosine (m1A) and 3-methylcytosine (m3C) by oxidative demethylation. Has a strong preference for single-stranded DNA. Able to process alkylated m3C within double-stranded regions via its interaction with ASCC3, which promotes DNA unwinding to generate single-stranded substrate needed for ALKHB3. Also acts on RNA. Demethylates N(1)-methyladenosine (m1A) RNA, an epigenetic internal modification of messenger RNAs (mRNAs) highly enriched within 5'-untranslated regions (UTRs) and in the vicinity of start codons. Requires molecular oxygen, alpha-ketoglutarate and iron.By similarity

Catalytic activityi

N(1)-methyladenosine in mRNA + 2-oxoglutarate + O2 = adenosine in mRNA + formaldehyde + succinate + CO2.By similarity

Cofactori

Fe2+By similarityNote: Binds 1 Fe2+ ion per subunit.By similarity

Enzyme regulationi

Activated by ascorbate.By similarity

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Binding sitei115 – 1151SubstrateBy similarity
Metal bindingi191 – 1911Iron; catalyticPROSITE-ProRule annotation
Metal bindingi193 – 1931Iron; catalyticPROSITE-ProRule annotation
Binding sitei194 – 1941SubstrateBy similarity
Metal bindingi257 – 2571Iron; catalyticPROSITE-ProRule annotation

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

Dioxygenase, Oxidoreductase

Keywords - Biological processi

DNA damage, DNA repair

Keywords - Ligandi

Iron, Metal-binding

Names & Taxonomyi

Protein namesi
Recommended name:
Alpha-ketoglutarate-dependent dioxygenase alkB homolog 3By similarity (EC:1.14.11.-By similarity)
Alternative name(s):
Alkylated DNA repair protein alkB homolog 3By similarity
Gene namesi
Name:Alkbh3By similarity
Synonyms:Abh3By similarity
OrganismiRattus norvegicus (Rat)
Taxonomic identifieri10116 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaSciurognathiMuroideaMuridaeMurinaeRattus
Proteomesi
  • UP000002494 Componenti: Chromosome 3

Organism-specific databases

RGDi1359731. Alkbh3.

Subcellular locationi

  • Nucleus By similarity
  • Cytoplasm By similarity

  • Note: Predominantly localizes to the nucleus.By similarity

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Cytoplasm, Nucleus

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 295295Alpha-ketoglutarate-dependent dioxygenase alkB homolog 3PRO_0000239280Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Modified residuei177 – 1771(4R)-5-hydroxyleucine; alternateBy similarity
Modified residuei177 – 1771(4R)-5-oxoleucine; alternateBy similarity

Keywords - PTMi

Hydroxylation, Oxidation

Proteomic databases

PaxDbiQ5XIC8.
PRIDEiQ5XIC8.

Expressioni

Gene expression databases

GenevisibleiQ5XIC8. RN.

Interactioni

Subunit structurei

Interacts with the TRIP4 complex, notably composed of ASCC3.By similarity

Protein-protein interaction databases

STRINGi10116.ENSRNOP00000030278.

Structurei

3D structure databases

ProteinModelPortaliQ5XIC8.
SMRiQ5XIC8. Positions 70-279.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini172 – 278107Fe2OG dioxygenasePROSITE-ProRule annotationAdd
BLAST

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni141 – 1433Substrate bindingBy similarity
Regioni179 – 1813Alpha-ketoglutarate bindingBy similarity
Regioni269 – 2757Alpha-ketoglutarate bindingBy similarity

Sequence similaritiesi

Belongs to the alkB family.Curated
Contains 1 Fe2OG dioxygenase domain.PROSITE-ProRule annotation

Phylogenomic databases

eggNOGiENOG410IETS. Eukaryota.
COG3145. LUCA.
GeneTreeiENSGT00530000063618.
HOGENOMiHOG000207105.
HOVERGENiHBG056732.
InParanoidiQ5XIC8.
KOiK10860.
OMAiHWHPVLS.
OrthoDBiEOG7KQ22J.
PhylomeDBiQ5XIC8.
TreeFamiTF331732.

Family and domain databases

Gene3Di2.60.120.590. 1 hit.
InterProiIPR027450. AlkB-like.
IPR032854. ALKBH3.
IPR005123. Oxoglu/Fe-dep_dioxygenase.
[Graphical view]
PANTHERiPTHR31212. PTHR31212. 1 hit.
PfamiPF13532. 2OG-FeII_Oxy_2. 1 hit.
[Graphical view]
PROSITEiPS51471. FE2OG_OXY. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

Q5XIC8-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MGDKRQRARV QGAWATPTKS QSAARPATPA RSRPSQTPGP SWRSKEQQQC
60 70 80 90 100
DRRFVFKEPQ LVVRAAPEPR VIDREGVYEI SLSPTGVSRV CLYPGFVDLK
110 120 130 140 150
EADWILERLC QDVPWKQRMG IREDITYPQP RLTAWYGELP YTYSRVTMEP
160 170 180 190 200
NPHWLPVLWT LKSRIEENTG HTFNSLLCNF YRDEKDSVDW HSDDEPSLGS
210 220 230 240 250
CPVIASLSFG ATRTFEMRKK PPPEENGDYT YVERVKIPLD HGTLLIMEGA
260 270 280 290
TQADWQHRVP KEYHSRERRV NLTFRTVYPD PRGAPGDTSA ELPLR
Length:295
Mass (Da):34,011
Last modified:November 23, 2004 - v1
Checksum:iC4D1A094CF9A3293
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
BC083756 mRNA. Translation: AAH83756.1.
RefSeqiNP_001014202.1. NM_001014180.1.
XP_006234647.1. XM_006234585.2.
UniGeneiRn.30490.

Genome annotation databases

EnsembliENSRNOT00000030784; ENSRNOP00000030278; ENSRNOG00000021678.
GeneIDi362169.
KEGGirno:362169.
UCSCiRGD:1359731. rat.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
BC083756 mRNA. Translation: AAH83756.1.
RefSeqiNP_001014202.1. NM_001014180.1.
XP_006234647.1. XM_006234585.2.
UniGeneiRn.30490.

3D structure databases

ProteinModelPortaliQ5XIC8.
SMRiQ5XIC8. Positions 70-279.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi10116.ENSRNOP00000030278.

Proteomic databases

PaxDbiQ5XIC8.
PRIDEiQ5XIC8.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENSRNOT00000030784; ENSRNOP00000030278; ENSRNOG00000021678.
GeneIDi362169.
KEGGirno:362169.
UCSCiRGD:1359731. rat.

Organism-specific databases

CTDi221120.
RGDi1359731. Alkbh3.

Phylogenomic databases

eggNOGiENOG410IETS. Eukaryota.
COG3145. LUCA.
GeneTreeiENSGT00530000063618.
HOGENOMiHOG000207105.
HOVERGENiHBG056732.
InParanoidiQ5XIC8.
KOiK10860.
OMAiHWHPVLS.
OrthoDBiEOG7KQ22J.
PhylomeDBiQ5XIC8.
TreeFamiTF331732.

Miscellaneous databases

PROiQ5XIC8.

Gene expression databases

GenevisibleiQ5XIC8. RN.

Family and domain databases

Gene3Di2.60.120.590. 1 hit.
InterProiIPR027450. AlkB-like.
IPR032854. ALKBH3.
IPR005123. Oxoglu/Fe-dep_dioxygenase.
[Graphical view]
PANTHERiPTHR31212. PTHR31212. 1 hit.
PfamiPF13532. 2OG-FeII_Oxy_2. 1 hit.
[Graphical view]
PROSITEiPS51471. FE2OG_OXY. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

  1. "The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC)."
    The MGC Project Team
    Genome Res. 14:2121-2127(2004) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
    Tissue: Heart.

Entry informationi

Entry nameiALKB3_RAT
AccessioniPrimary (citable) accession number: Q5XIC8
Entry historyi
Integrated into UniProtKB/Swiss-Prot: May 30, 2006
Last sequence update: November 23, 2004
Last modified: July 6, 2016
This is version 87 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. SIMILARITY comments
    Index of protein domains and families

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into one UniRef entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.