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Q9Y235

- ABEC2_HUMAN

UniProt

Q9Y235 - ABEC2_HUMAN

Protein

Probable C->U-editing enzyme APOBEC-2

Gene

APOBEC2

Organism
Homo sapiens (Human)
Status
Reviewed - Annotation score: 5 out of 5- Experimental evidence at protein leveli
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    • History
      Entry version 106 (01 Oct 2014)
      Sequence version 1 (01 Nov 1999)
      Previous versions | rss
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    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.1 Publication

    Cofactori

    Zinc.By similarity

    Sites

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Metal bindingi60 – 601Zinc; catalytic
    Metal bindingi98 – 981Zinc; catalytic
    Active sitei100 – 1001Proton donor1 Publication
    Metal bindingi128 – 1281Zinc; catalytic
    Metal bindingi131 – 1311Zinc; catalytic

    GO - Molecular functioni

    1. cytidine deaminase activity Source: ProtInc
    2. RNA binding Source: ProtInc
    3. zinc ion binding Source: InterPro

    GO - Biological processi

    1. cytidine deamination Source: GOC
    2. DNA demethylation Source: UniProtKB
    3. mRNA modification Source: Ensembl
    4. mRNA processing Source: UniProtKB-KW

    Keywords - Molecular functioni

    Hydrolase

    Keywords - Biological processi

    mRNA processing

    Keywords - Ligandi

    Metal-binding, Zinc

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    Probable C->U-editing enzyme APOBEC-2 (EC:3.5.4.-)
    Gene namesi
    Name:APOBEC2
    OrganismiHomo sapiens (Human)
    Taxonomic identifieri9606 [NCBI]
    Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
    ProteomesiUP000005640: Chromosome 6

    Organism-specific databases

    HGNCiHGNC:605. APOBEC2.

    Pathology & Biotechi

    Organism-specific databases

    PharmGKBiPA24890.

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Chaini1 – 224224Probable C->U-editing enzyme APOBEC-2PRO_0000171749Add
    BLAST

    Proteomic databases

    PaxDbiQ9Y235.
    PRIDEiQ9Y235.

    PTM databases

    PhosphoSiteiQ9Y235.

    Expressioni

    Tissue specificityi

    Expressed exclusively in heart and skeletal muscle.

    Gene expression databases

    BgeeiQ9Y235.
    CleanExiHS_APOBEC2.
    GenevestigatoriQ9Y235.

    Organism-specific databases

    HPAiHPA014252.
    HPA017957.

    Interactioni

    Subunit structurei

    Homotetramer.1 Publication

    Protein-protein interaction databases

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

    Structurei

    Secondary structure

    1
    224
    Legend: HelixTurnBeta strand
    Show more details
    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Helixi48 – 536
    Turni54 – 563
    Beta strandi62 – 643
    Beta strandi68 – 7710
    Beta strandi83 – 9412
    Helixi99 – 1068
    Beta strandi116 – 12510
    Helixi129 – 14113
    Beta strandi145 – 1539
    Helixi160 – 17112
    Beta strandi175 – 1784
    Helixi181 – 19111
    Helixi208 – 22316

    3D structure databases

    Select the link destinations:
    PDBe
    RCSB PDB
    PDBj
    Links Updated
    EntryMethodResolution (Å)ChainPositionsPDBsum
    2NYTX-ray2.50A/B/C/D41-224[»]
    ProteinModelPortaliQ9Y235.
    SMRiQ9Y235. Positions 41-224.
    ModBaseiSearch...
    MobiDBiSearch...

    Miscellaneous databases

    EvolutionaryTraceiQ9Y235.

    Family & Domainsi

    Sequence similaritiesi

    Phylogenomic databases

    eggNOGiNOG44965.
    HOGENOMiHOG000033754.
    HOVERGENiHBG107155.
    InParanoidiQ9Y235.
    KOiK01500.
    OMAiCRLRIMK.
    OrthoDBiEOG7VHSZC.
    PhylomeDBiQ9Y235.
    TreeFamiTF331356.

    Family and domain databases

    InterProiIPR007904. APOBEC_C.
    IPR013158. APOBEC_N.
    IPR016193. Cytidine_deaminase-like.
    [Graphical view]
    PfamiPF05240. APOBEC_C. 1 hit.
    PF08210. APOBEC_N. 1 hit.
    [Graphical view]
    SUPFAMiSSF53927. SSF53927. 1 hit.

    Sequencei

    Sequence statusi: Complete.

    Q9Y235-1 [UniParc]FASTAAdd to Basket

    « Hide

    MAQKEEAAVA TEAASQNGED LENLDDPEKL KELIELPPFE IVTGERLPAN    50
    FFKFQFRNVE YSSGRNKTFL CYVVEAQGKG GQVQASRGYL EDEHAAAHAE 100
    EAFFNTILPA FDPALRYNVT WYVSSSPCAA CADRIIKTLS KTKNLRLLIL 150
    VGRLFMWEEP EIQAALKKLK EAGCKLRIMK PQDFEYVWQN FVEQEEGESK 200
    AFQPWEDIQE NFLYYEEKLA DILK 224
    Length:224
    Mass (Da):25,703
    Last modified:November 1, 1999 - v1
    Checksum:iCA0905AFAA8C8FA1
    GO

    Natural variant

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Natural varianti136 – 1361I → T.1 Publication
    Corresponds to variant rs2076472 [ dbSNP | Ensembl ].
    VAR_024406

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    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.3. human.

    Polymorphism databases

    DMDMi23396446.

    Keywords - Coding sequence diversityi

    Polymorphism

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    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 .
    CCDSi CCDS4848.1.
    RefSeqi NP_006780.1. NM_006789.3.
    UniGenei Hs.555915.

    3D structure databases

    Select the link destinations:
    PDBe
    RCSB PDB
    PDBj
    Links Updated
    Entry Method Resolution (Å) Chain Positions PDBsum
    2NYT X-ray 2.50 A/B/C/D 41-224 [» ]
    ProteinModelPortali Q9Y235.
    SMRi Q9Y235. Positions 41-224.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    BioGridi 116133. 1 interaction.
    DIPi DIP-60263N.
    STRINGi 9606.ENSP00000244669.

    PTM databases

    PhosphoSitei Q9Y235.

    Polymorphism databases

    DMDMi 23396446.

    Proteomic databases

    PaxDbi Q9Y235.
    PRIDEi Q9Y235.

    Protocols and materials databases

    DNASUi 10930.
    Structural Biology Knowledgebase Search...

    Genome annotation databases

    Ensembli ENST00000244669 ; ENSP00000244669 ; ENSG00000124701 .
    GeneIDi 10930.
    KEGGi hsa:10930.
    UCSCi uc003opl.3. human.

    Organism-specific databases

    CTDi 10930.
    GeneCardsi GC06P041020.
    HGNCi HGNC:605. APOBEC2.
    HPAi HPA014252.
    HPA017957.
    MIMi 604797. gene.
    neXtProti NX_Q9Y235.
    PharmGKBi PA24890.
    GenAtlasi Search...

    Phylogenomic databases

    eggNOGi NOG44965.
    HOGENOMi HOG000033754.
    HOVERGENi HBG107155.
    InParanoidi Q9Y235.
    KOi K01500.
    OMAi CRLRIMK.
    OrthoDBi EOG7VHSZC.
    PhylomeDBi Q9Y235.
    TreeFami TF331356.

    Miscellaneous databases

    EvolutionaryTracei Q9Y235.
    GeneWikii APOBEC2.
    GenomeRNAii 10930.
    NextBioi 41523.
    PROi Q9Y235.
    SOURCEi Search...

    Gene expression databases

    Bgeei Q9Y235.
    CleanExi HS_APOBEC2.
    Genevestigatori Q9Y235.

    Family and domain databases

    InterProi IPR007904. APOBEC_C.
    IPR013158. APOBEC_N.
    IPR016193. Cytidine_deaminase-like.
    [Graphical view ]
    Pfami PF05240. APOBEC_C. 1 hit.
    PF08210. APOBEC_N. 1 hit.
    [Graphical view ]
    SUPFAMi SSF53927. SSF53927. 1 hit.
    ProtoNeti Search...

    Publicationsi

    1. "APOBEC-2, a cardiac- and skeletal muscle-specific member of the cytidine deaminase supergene family."
      Liao W., Hong S.-H., Chan B.H.-J., Rudolph F.B., Clark S.C., Chan L.
      Biochem. Biophys. Res. Commun. 260:398-404(1999) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [MRNA].
      Tissue: Heart.
    2. "Complete sequencing and characterization of 21,243 full-length human cDNAs."
      Ota T., Suzuki Y., Nishikawa T., Otsuki T., Sugiyama T., Irie R., Wakamatsu A., Hayashi K., Sato H., Nagai K., Kimura K., Makita H., Sekine M., Obayashi M., Nishi T., Shibahara T., Tanaka T., Ishii S.
      , Yamamoto J., Saito K., Kawai Y., Isono Y., Nakamura Y., Nagahari K., Murakami K., Yasuda T., Iwayanagi T., Wagatsuma M., Shiratori A., Sudo H., Hosoiri T., Kaku Y., Kodaira H., Kondo H., Sugawara M., Takahashi M., Kanda K., Yokoi T., Furuya T., Kikkawa E., Omura Y., Abe K., Kamihara K., Katsuta N., Sato K., Tanikawa M., Yamazaki M., Ninomiya K., Ishibashi T., Yamashita H., Murakawa K., Fujimori K., Tanai H., Kimata M., Watanabe M., Hiraoka S., Chiba Y., Ishida S., Ono Y., Takiguchi S., Watanabe S., Yosida M., Hotuta T., Kusano J., Kanehori K., Takahashi-Fujii A., Hara H., Tanase T.-O., Nomura Y., Togiya S., Komai F., Hara R., Takeuchi K., Arita M., Imose N., Musashino K., Yuuki H., Oshima A., Sasaki N., Aotsuka S., Yoshikawa Y., Matsunawa H., Ichihara T., Shiohata N., Sano S., Moriya S., Momiyama H., Satoh N., Takami S., Terashima Y., Suzuki O., Nakagawa S., Senoh A., Mizoguchi H., Goto Y., Shimizu F., Wakebe H., Hishigaki H., Watanabe T., Sugiyama A., Takemoto M., Kawakami B., Yamazaki M., Watanabe K., Kumagai A., Itakura S., Fukuzumi Y., Fujimori Y., Komiyama M., Tashiro H., Tanigami A., Fujiwara T., Ono T., Yamada K., Fujii Y., Ozaki K., Hirao M., Ohmori Y., Kawabata A., Hikiji T., Kobatake N., Inagaki H., Ikema Y., Okamoto S., Okitani R., Kawakami T., Noguchi S., Itoh T., Shigeta K., Senba T., Matsumura K., Nakajima Y., Mizuno T., Morinaga M., Sasaki M., Togashi T., Oyama M., Hata H., Watanabe M., Komatsu T., Mizushima-Sugano J., Satoh T., Shirai Y., Takahashi Y., Nakagawa K., Okumura K., Nagase T., Nomura N., Kikuchi H., Masuho Y., Yamashita R., Nakai K., Yada T., Nakamura Y., Ohara O., Isogai T., Sugano S.
      Nat. Genet. 36:40-45(2004) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
      Tissue: Skeletal muscle.
    3. Totoki Y., Toyoda A., Takeda T., Sakaki Y., Tanaka A., Yokoyama S.
      Submitted (APR-2005) to the EMBL/GenBank/DDBJ databases
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA], VARIANT THR-136.
      Tissue: Pancreas.
    4. "The DNA sequence and analysis of human chromosome 6."
      Mungall A.J., Palmer S.A., Sims S.K., Edwards C.A., Ashurst J.L., Wilming L., Jones M.C., Horton R., Hunt S.E., Scott C.E., Gilbert J.G.R., Clamp M.E., Bethel G., Milne S., Ainscough R., Almeida J.P., Ambrose K.D., Andrews T.D.
      , Ashwell R.I.S., Babbage A.K., Bagguley C.L., Bailey J., Banerjee R., Barker D.J., Barlow K.F., Bates K., Beare D.M., Beasley H., Beasley O., Bird C.P., Blakey S.E., Bray-Allen S., Brook J., Brown A.J., Brown J.Y., Burford D.C., Burrill W., Burton J., Carder C., Carter N.P., Chapman J.C., Clark S.Y., Clark G., Clee C.M., Clegg S., Cobley V., Collier R.E., Collins J.E., Colman L.K., Corby N.R., Coville G.J., Culley K.M., Dhami P., Davies J., Dunn M., Earthrowl M.E., Ellington A.E., Evans K.A., Faulkner L., Francis M.D., Frankish A., Frankland J., French L., Garner P., Garnett J., Ghori M.J., Gilby L.M., Gillson C.J., Glithero R.J., Grafham D.V., Grant M., Gribble S., Griffiths C., Griffiths M.N.D., Hall R., Halls K.S., Hammond S., Harley J.L., Hart E.A., Heath P.D., Heathcott R., Holmes S.J., Howden P.J., Howe K.L., Howell G.R., Huckle E., Humphray S.J., Humphries M.D., Hunt A.R., Johnson C.M., Joy A.A., Kay M., Keenan S.J., Kimberley A.M., King A., Laird G.K., Langford C., Lawlor S., Leongamornlert D.A., Leversha M., Lloyd C.R., Lloyd D.M., Loveland J.E., Lovell J., Martin S., Mashreghi-Mohammadi M., Maslen G.L., Matthews L., McCann O.T., McLaren S.J., McLay K., McMurray A., Moore M.J.F., Mullikin J.C., Niblett D., Nickerson T., Novik K.L., Oliver K., Overton-Larty E.K., Parker A., Patel R., Pearce A.V., Peck A.I., Phillimore B.J.C.T., Phillips S., Plumb R.W., Porter K.M., Ramsey Y., Ranby S.A., Rice C.M., Ross M.T., Searle S.M., Sehra H.K., Sheridan E., Skuce C.D., Smith S., Smith M., Spraggon L., Squares S.L., Steward C.A., Sycamore N., Tamlyn-Hall G., Tester J., Theaker A.J., Thomas D.W., Thorpe A., Tracey A., Tromans A., Tubby B., Wall M., Wallis J.M., West A.P., White S.S., Whitehead S.L., Whittaker H., Wild A., Willey D.J., Wilmer T.E., Wood J.M., Wray P.W., Wyatt J.C., Young L., Younger R.M., Bentley D.R., Coulson A., Durbin R.M., Hubbard T., Sulston J.E., Dunham I., Rogers J., Beck S.
      Nature 425:805-811(2003) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    5. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    6. "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: PNS.
    7. "Hydroxylation of 5-methylcytosine by TET1 promotes active DNA demethylation in the adult brain."
      Guo J.U., Su Y., Zhong C., Ming G.L., Song H.
      Cell 145:423-434(2011) [PubMed] [Europe PMC] [Abstract]
      Cited for: FUNCTION IN DNA DEMETHYLATION.
    8. "The APOBEC-2 crystal structure and functional implications for the deaminase AID."
      Prochnow C., Bransteitter R., Klein M.G., Goodman M.F., Chen X.S.
      Nature 445:447-451(2007) [PubMed] [Europe PMC] [Abstract]
      Cited for: X-RAY CRYSTALLOGRAPHY (2.5 ANGSTROMS) OF 41-224, SUBUNIT, COFACTOR, ACTIVE SITE, ZINC-BINDING SITES.

    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: October 1, 2014
    This is version 106 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

    External Data

    Dasty 3