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B5FEN2

- CDD_VIBFM

UniProt

B5FEN2 - CDD_VIBFM

Protein

Cytidine deaminase

Gene

cdd

Organism
Vibrio fischeri (strain MJ11)
Status
Reviewed - Annotation score: 3 out of 5- Protein inferred from homologyi
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    • History
      Entry version 41 (01 Oct 2014)
      Sequence version 1 (14 Oct 2008)
      Previous versions | rss
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    Functioni

    This enzyme scavenges exogenous and endogenous cytidine and 2'-deoxycytidine for UMP synthesis.UniRule annotation

    Catalytic activityi

    Cytidine + H2O = uridine + NH3.UniRule annotation
    2'deoxycytidine + H2O = 2'-deoxyuridine + NH3.UniRule annotation

    Cofactori

    Binds 1 zinc ion.UniRule annotation

    Sites

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Metal bindingi104 – 1041Zinc; catalyticUniRule annotation
    Active sitei106 – 1061Proton donorUniRule annotation
    Metal bindingi131 – 1311Zinc; catalyticUniRule annotation
    Metal bindingi134 – 1341Zinc; catalyticUniRule annotation

    GO - Molecular functioni

    1. cytidine deaminase activity Source: UniProtKB-HAMAP
    2. zinc ion binding Source: UniProtKB-HAMAP

    Keywords - Molecular functioni

    Hydrolase

    Keywords - Ligandi

    Metal-binding, Zinc

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    Cytidine deaminaseUniRule annotation (EC:3.5.4.5UniRule annotation)
    Alternative name(s):
    Cytidine aminohydrolaseUniRule annotation
    Short name:
    CDAUniRule annotation
    Gene namesi
    Name:cddUniRule annotation
    Ordered Locus Names:VFMJ11_1578
    OrganismiVibrio fischeri (strain MJ11)
    Taxonomic identifieri388396 [NCBI]
    Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaVibrionalesVibrionaceaeAliivibrio
    ProteomesiUP000001857: Chromosome I

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Chaini1 – 297297Cytidine deaminasePRO_1000147118Add
    BLAST

    Interactioni

    Subunit structurei

    Homodimer.UniRule annotation

    Protein-protein interaction databases

    STRINGi388396.VFMJ11_1578.

    Structurei

    3D structure databases

    ProteinModelPortaliB5FEN2.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Domains and Repeats

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Domaini62 – 14483CMP/dCMP deaminase zinc-bindingAdd
    BLAST

    Region

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Regioni91 – 933Substrate bindingUniRule annotation

    Sequence similaritiesi

    Belongs to the cytidine and deoxycytidylate deaminase family.UniRule annotation

    Phylogenomic databases

    eggNOGiCOG0295.
    HOGENOMiHOG000218617.
    KOiK01489.
    OMAiNRSHAPY.
    OrthoDBiEOG6XDH25.

    Family and domain databases

    HAMAPiMF_01558. Cyt_deam.
    InterProiIPR016192. APOBEC/CMP_deaminase_Zn-bd.
    IPR002125. CMP_dCMP_Zn-bd.
    IPR013171. Cyd/dCyd_deaminase_Zn-bd.
    IPR006263. Cyt_deam_dimer.
    IPR016193. Cytidine_deaminase-like.
    IPR020797. Cytidine_deaminase_bacteria.
    [Graphical view]
    PfamiPF00383. dCMP_cyt_deam_1. 1 hit.
    PF08211. dCMP_cyt_deam_2. 1 hit.
    [Graphical view]
    PIRSFiPIRSF006334. Cdd_plus_pseudo. 1 hit.
    SUPFAMiSSF53927. SSF53927. 2 hits.
    TIGRFAMsiTIGR01355. cyt_deam_dimer. 1 hit.
    PROSITEiPS00903. CYT_DCMP_DEAMINASES. 1 hit.
    [Graphical view]

    Sequencei

    Sequence statusi: Complete.

    B5FEN2-1 [UniParc]FASTAAdd to Basket

    « Hide

    MTRLQQRLEE ALANLPDALR TSLTPIINAE FKGVISKEQF QSLQADSELS    50
    DKELRLALLP LAAAFSVAPI SNFYVGAIAR GLTGNLYFGA NMEYNDVQLG 100
    QTIHAEQSAI SHAWIQGETG ISDITINFSP CGHCRQFMNE LTTADSLMVQ 150
    LPERNEKSLQ EYLPESFGPK DLGIEGGLLA PLSHNLALET DSPLLRKALE 200
    AANRSHAPYS HNLSGIALEM ESGEVYYGMY AENAAFNPSL PPLQVALVHA 250
    NMSREDILTV KSAALVEDHK GAISHLAITQ STLEALNPDV TLEYASL 297
    Length:297
    Mass (Da):32,305
    Last modified:October 14, 2008 - v1
    Checksum:i9AE3EFF4FB9EBC18
    GO

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    CP001139 Genomic DNA. Translation: ACH66513.1.
    RefSeqiWP_012533783.1. NC_011184.1.
    YP_002156297.1. NC_011184.1.

    Genome annotation databases

    EnsemblBacteriaiACH66513; ACH66513; VFMJ11_1578.
    GeneIDi6806252.
    KEGGivfm:VFMJ11_1578.
    PATRICi20121616. VBIVibFis37164_1523.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    CP001139 Genomic DNA. Translation: ACH66513.1 .
    RefSeqi WP_012533783.1. NC_011184.1.
    YP_002156297.1. NC_011184.1.

    3D structure databases

    ProteinModelPortali B5FEN2.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    STRINGi 388396.VFMJ11_1578.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblBacteriai ACH66513 ; ACH66513 ; VFMJ11_1578 .
    GeneIDi 6806252.
    KEGGi vfm:VFMJ11_1578.
    PATRICi 20121616. VBIVibFis37164_1523.

    Phylogenomic databases

    eggNOGi COG0295.
    HOGENOMi HOG000218617.
    KOi K01489.
    OMAi NRSHAPY.
    OrthoDBi EOG6XDH25.

    Family and domain databases

    HAMAPi MF_01558. Cyt_deam.
    InterProi IPR016192. APOBEC/CMP_deaminase_Zn-bd.
    IPR002125. CMP_dCMP_Zn-bd.
    IPR013171. Cyd/dCyd_deaminase_Zn-bd.
    IPR006263. Cyt_deam_dimer.
    IPR016193. Cytidine_deaminase-like.
    IPR020797. Cytidine_deaminase_bacteria.
    [Graphical view ]
    Pfami PF00383. dCMP_cyt_deam_1. 1 hit.
    PF08211. dCMP_cyt_deam_2. 1 hit.
    [Graphical view ]
    PIRSFi PIRSF006334. Cdd_plus_pseudo. 1 hit.
    SUPFAMi SSF53927. SSF53927. 2 hits.
    TIGRFAMsi TIGR01355. cyt_deam_dimer. 1 hit.
    PROSITEi PS00903. CYT_DCMP_DEAMINASES. 1 hit.
    [Graphical view ]
    ProtoNeti Search...

    Publicationsi

    1. "Complete sequence of Vibrio fischeri strain MJ11."
      Mandel M.J., Stabb E.V., Ruby E.G., Ferriera S., Johnson J., Kravitz S., Beeson K., Sutton G., Rogers Y.-H., Friedman R., Frazier M., Venter J.C.
      Submitted (AUG-2008) to the EMBL/GenBank/DDBJ databases
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: MJ11.

    Entry informationi

    Entry nameiCDD_VIBFM
    AccessioniPrimary (citable) accession number: B5FEN2
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: April 14, 2009
    Last sequence update: October 14, 2008
    Last modified: October 1, 2014
    This is version 41 of the entry and version 1 of the sequence. [Complete history]
    Entry statusiReviewed (UniProtKB/Swiss-Prot)
    Annotation programProkaryotic Protein Annotation Program

    Miscellaneousi

    Keywords - Technical termi

    Complete proteome

    Documents

    1. SIMILARITY comments
      Index of protein domains and families

    External Data

    Dasty 3