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Protein

C->U-editing enzyme APOBEC-2

Gene

APOBEC2

Organism
Homo sapiens (Human)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at protein leveli

Functioni

Probable C to U editing enzyme whose physiological substrate is not yet known. Does not display detectable apoB mRNA editing. Has a low intrinsic cytidine deaminase activity. May play a role in the epigenetic regulation of gene expression through the process of active DNA demethylation.2 Publications

Catalytic activityi

Cytosine(6666) in apolipoprotein B mRNA + H2O = uracil(6666) in apolipoprotein B mRNA + NH3.1 Publication

Cofactori

Zn2+1 PublicationNote: Binds 1 Zn2+ ion per subunit.1 Publication

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Metal bindingi60Zinc; catalytic1 Publication1
Metal bindingi98Zinc; catalytic1 Publication1
Active sitei100Proton donor1 Publication1
Metal bindingi128Zinc; catalytic1 Publication1
Metal bindingi131Zinc; catalytic1 Publication1

GO - Molecular functioni

  • cytidine deaminase activity Source: ProtInc
  • RNA binding Source: ProtInc
  • zinc ion binding Source: InterPro

GO - Biological processi

  • DNA demethylation Source: UniProtKB
  • mRNA modification Source: Ensembl
  • mRNA processing Source: UniProtKB-KW
Complete GO annotation...

Keywords - Molecular functioni

Hydrolase

Keywords - Biological processi

mRNA processing

Keywords - Ligandi

Metal-binding, Zinc

Enzyme and pathway databases

BioCyciZFISH:ENSG00000124701-MONOMER.
ReactomeiR-HSA-72200. mRNA Editing: C to U Conversion.
R-HSA-75094. Formation of the Editosome.

Names & Taxonomyi

Protein namesi
Recommended name:
C->U-editing enzyme APOBEC-2 (EC:3.5.4.361 Publication)
Alternative name(s):
mRNA(cytosine(6666)) deaminase 2
Gene namesi
Name:APOBEC2
OrganismiHomo sapiens (Human)
Taxonomic identifieri9606 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
Proteomesi
  • UP000005640 Componenti: Chromosome 6

Organism-specific databases

HGNCiHGNC:605. APOBEC2.

Pathology & Biotechi

Organism-specific databases

DisGeNETi10930.
OpenTargetsiENSG00000124701.
PharmGKBiPA24890.

Polymorphism and mutation databases

BioMutaiAPOBEC2.
DMDMi23396446.

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00001717491 – 224C->U-editing enzyme APOBEC-2Add BLAST224

Proteomic databases

PaxDbiQ9Y235.
PeptideAtlasiQ9Y235.
PRIDEiQ9Y235.

PTM databases

iPTMnetiQ9Y235.
PhosphoSitePlusiQ9Y235.

Expressioni

Tissue specificityi

Expressed exclusively in heart and skeletal muscle.

Gene expression databases

BgeeiENSG00000124701.
CleanExiHS_APOBEC2.
GenevisibleiQ9Y235. HS.

Organism-specific databases

HPAiHPA014252.
HPA017957.

Interactioni

Subunit structurei

Homotetramer.1 Publication

Protein-protein interaction databases

BioGridi116133. 1 interactor.
DIPiDIP-60263N.
STRINGi9606.ENSP00000244669.

Structurei

Secondary structure

1224
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Helixi48 – 53Combined sources6
Turni54 – 56Combined sources3
Beta strandi62 – 64Combined sources3
Beta strandi68 – 77Combined sources10
Beta strandi83 – 94Combined sources12
Helixi99 – 106Combined sources8
Beta strandi116 – 125Combined sources10
Helixi129 – 141Combined sources13
Beta strandi145 – 153Combined sources9
Helixi160 – 171Combined sources12
Beta strandi175 – 178Combined sources4
Helixi181 – 191Combined sources11
Helixi208 – 223Combined sources16

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
2NYTX-ray2.50A/B/C/D41-224[»]
ProteinModelPortaliQ9Y235.
SMRiQ9Y235.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiQ9Y235.

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini64 – 169CMP/dCMP-type deaminasePROSITE-ProRule annotationAdd BLAST106

Sequence similaritiesi

Contains 1 CMP/dCMP-type deaminase domain.PROSITE-ProRule annotation

Phylogenomic databases

eggNOGiENOG410IX13. Eukaryota.
ENOG4111K4B. LUCA.
GeneTreeiENSGT00530000062933.
HOGENOMiHOG000033754.
HOVERGENiHBG107155.
KOiK18772.
OMAiQSKAFEP.
OrthoDBiEOG091G0JNJ.
PhylomeDBiQ9Y235.
TreeFamiTF331356.

Family and domain databases

InterProiIPR013158. APOBEC_N.
IPR002125. CMP_dCMP_Zn-bd.
IPR016193. Cytidine_deaminase-like.
[Graphical view]
PfamiPF08210. APOBEC_N. 1 hit.
[Graphical view]
SUPFAMiSSF53927. SSF53927. 1 hit.
PROSITEiPS51747. CYT_DCMP_DEAMINASES_2. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

Q9Y235-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MAQKEEAAVA TEAASQNGED LENLDDPEKL KELIELPPFE IVTGERLPAN
60 70 80 90 100
FFKFQFRNVE YSSGRNKTFL CYVVEAQGKG GQVQASRGYL EDEHAAAHAE
110 120 130 140 150
EAFFNTILPA FDPALRYNVT WYVSSSPCAA CADRIIKTLS KTKNLRLLIL
160 170 180 190 200
VGRLFMWEEP EIQAALKKLK EAGCKLRIMK PQDFEYVWQN FVEQEEGESK
210 220
AFQPWEDIQE NFLYYEEKLA DILK
Length:224
Mass (Da):25,703
Last modified:November 1, 1999 - v1
Checksum:iCA0905AFAA8C8FA1
GO

Natural variant

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Natural variantiVAR_024406136I → T.1 PublicationCorresponds to variant rs2076472dbSNPEnsembl.1

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF161698 mRNA. Translation: AAD45360.1.
AK223461 mRNA. Translation: BAD97181.1.
AK313288 mRNA. Translation: BAG36096.1.
AL031778 Genomic DNA. Translation: CAB44740.1.
CH471081 Genomic DNA. Translation: EAX04009.1.
BC047767 mRNA. Translation: AAH47767.1.
BC069688 mRNA. Translation: AAH69688.1.
BC069764 mRNA. Translation: AAH69764.1.
CCDSiCCDS4848.1.
RefSeqiNP_006780.1. NM_006789.3.
UniGeneiHs.555915.

Genome annotation databases

EnsembliENST00000244669; ENSP00000244669; ENSG00000124701.
GeneIDi10930.
KEGGihsa:10930.
UCSCiuc003opl.4. human.

Keywords - Coding sequence diversityi

Polymorphism

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF161698 mRNA. Translation: AAD45360.1.
AK223461 mRNA. Translation: BAD97181.1.
AK313288 mRNA. Translation: BAG36096.1.
AL031778 Genomic DNA. Translation: CAB44740.1.
CH471081 Genomic DNA. Translation: EAX04009.1.
BC047767 mRNA. Translation: AAH47767.1.
BC069688 mRNA. Translation: AAH69688.1.
BC069764 mRNA. Translation: AAH69764.1.
CCDSiCCDS4848.1.
RefSeqiNP_006780.1. NM_006789.3.
UniGeneiHs.555915.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
2NYTX-ray2.50A/B/C/D41-224[»]
ProteinModelPortaliQ9Y235.
SMRiQ9Y235.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi116133. 1 interactor.
DIPiDIP-60263N.
STRINGi9606.ENSP00000244669.

PTM databases

iPTMnetiQ9Y235.
PhosphoSitePlusiQ9Y235.

Polymorphism and mutation databases

BioMutaiAPOBEC2.
DMDMi23396446.

Proteomic databases

PaxDbiQ9Y235.
PeptideAtlasiQ9Y235.
PRIDEiQ9Y235.

Protocols and materials databases

DNASUi10930.
Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENST00000244669; ENSP00000244669; ENSG00000124701.
GeneIDi10930.
KEGGihsa:10930.
UCSCiuc003opl.4. human.

Organism-specific databases

CTDi10930.
DisGeNETi10930.
GeneCardsiAPOBEC2.
HGNCiHGNC:605. APOBEC2.
HPAiHPA014252.
HPA017957.
MIMi604797. gene.
neXtProtiNX_Q9Y235.
OpenTargetsiENSG00000124701.
PharmGKBiPA24890.
GenAtlasiSearch...

Phylogenomic databases

eggNOGiENOG410IX13. Eukaryota.
ENOG4111K4B. LUCA.
GeneTreeiENSGT00530000062933.
HOGENOMiHOG000033754.
HOVERGENiHBG107155.
KOiK18772.
OMAiQSKAFEP.
OrthoDBiEOG091G0JNJ.
PhylomeDBiQ9Y235.
TreeFamiTF331356.

Enzyme and pathway databases

BioCyciZFISH:ENSG00000124701-MONOMER.
ReactomeiR-HSA-72200. mRNA Editing: C to U Conversion.
R-HSA-75094. Formation of the Editosome.

Miscellaneous databases

EvolutionaryTraceiQ9Y235.
GeneWikiiAPOBEC2.
GenomeRNAii10930.
PROiQ9Y235.
SOURCEiSearch...

Gene expression databases

BgeeiENSG00000124701.
CleanExiHS_APOBEC2.
GenevisibleiQ9Y235. HS.

Family and domain databases

InterProiIPR013158. APOBEC_N.
IPR002125. CMP_dCMP_Zn-bd.
IPR016193. Cytidine_deaminase-like.
[Graphical view]
PfamiPF08210. APOBEC_N. 1 hit.
[Graphical view]
SUPFAMiSSF53927. SSF53927. 1 hit.
PROSITEiPS51747. CYT_DCMP_DEAMINASES_2. 1 hit.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiABEC2_HUMAN
AccessioniPrimary (citable) accession number: Q9Y235
Secondary accession number(s): B2R899
, Q53F28, Q5TGU5, Q5TGU6
Entry historyi
Integrated into UniProtKB/Swiss-Prot: September 19, 2002
Last sequence update: November 1, 1999
Last modified: November 30, 2016
This is version 124 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program
DisclaimerAny medical or genetic information present in this entry is provided for research, educational and informational purposes only. It is not in any way intended to be used as a substitute for professional medical advice, diagnosis, treatment or care.

Miscellaneousi

Keywords - Technical termi

3D-structure, Complete proteome, Reference proteome

Documents

  1. Human chromosome 6
    Human chromosome 6: entries, gene names and cross-references to MIM
  2. Human entries with polymorphisms or disease mutations
    List of human entries with polymorphisms or disease mutations
  3. Human polymorphisms and disease mutations
    Index of human polymorphisms and disease mutations
  4. MIM cross-references
    Online Mendelian Inheritance in Man (MIM) cross-references in UniProtKB/Swiss-Prot
  5. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  6. 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.