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Q06549

- CDD_YEAST

UniProt

Q06549 - CDD_YEAST

Protein

Cytidine deaminase

Gene

CDD1

Organism
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Status
Reviewed - Annotation score: 5 out of 5- Experimental evidence at protein leveli
  1. Functioni

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

    Catalytic activityi

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

    Cofactori

    Zinc.

    Sites

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Metal bindingi61 – 611Zinc; catalytic
    Active sitei63 – 631Proton donorBy similarity
    Metal bindingi96 – 961Zinc; catalytic
    Metal bindingi99 – 991Zinc; catalytic

    GO - Molecular functioni

    1. cytidine deaminase activity Source: SGD
    2. identical protein binding Source: IntAct
    3. zinc ion binding Source: InterPro

    GO - Biological processi

    1. cytidine catabolic process Source: SGD
    2. deoxycytidine catabolic process Source: SGD
    3. pyrimidine-containing compound salvage Source: SGD

    Keywords - Molecular functioni

    Hydrolase

    Keywords - Ligandi

    Metal-binding, Zinc

    Enzyme and pathway databases

    BioCyciMetaCyc:YLR245C-MONOMER.
    YEAST:YLR245C-MONOMER.

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    Cytidine deaminase (EC:3.5.4.5)
    Short name:
    CDA
    Alternative name(s):
    Cytidine aminohydrolase
    Gene namesi
    Name:CDD1
    Ordered Locus Names:YLR245C
    ORF Names:L9672.13
    OrganismiSaccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
    Taxonomic identifieri559292 [NCBI]
    Taxonomic lineageiEukaryotaFungiDikaryaAscomycotaSaccharomycotinaSaccharomycetesSaccharomycetalesSaccharomycetaceaeSaccharomyces
    ProteomesiUP000002311: Chromosome XII

    Organism-specific databases

    CYGDiYLR245c.
    SGDiS000004235. CDD1.

    Subcellular locationi

    GO - Cellular componenti

    1. cytoplasm Source: SGD
    2. nucleus Source: SGD

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Chaini1 – 142142Cytidine deaminasePRO_0000171685Add
    BLAST

    Proteomic databases

    MaxQBiQ06549.
    PaxDbiQ06549.
    PeptideAtlasiQ06549.

    Expressioni

    Gene expression databases

    GenevestigatoriQ06549.

    Interactioni

    Subunit structurei

    Homodimer.1 Publication

    Binary interactionsi

    WithEntry#Exp.IntActNotes
    itself5EBI-4455,EBI-4455

    Protein-protein interaction databases

    BioGridi31512. 17 interactions.
    DIPiDIP-1252N.
    IntActiQ06549. 10 interactions.
    MINTiMINT-398236.
    STRINGi4932.YLR245C.

    Structurei

    Secondary structure

    1
    142
    Legend: HelixTurnBeta strand
    Show more details
    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Helixi8 – 2114
    Helixi22 – 243
    Turni28 – 303
    Beta strandi34 – 396
    Beta strandi45 – 495
    Helixi56 – 583
    Helixi62 – 7211
    Beta strandi81 – 877
    Beta strandi89 – 913
    Helixi97 – 1048
    Beta strandi112 – 1165
    Beta strandi118 – 12710
    Helixi128 – 1314
    Helixi138 – 1403

    3D structure databases

    Select the link destinations:
    PDBe
    RCSB PDB
    PDBj
    Links Updated
    EntryMethodResolution (Å)ChainPositionsPDBsum
    1R5TX-ray2.00A/B/C/D1-142[»]
    ProteinModelPortaliQ06549.
    SMRiQ06549. Positions 2-142.
    ModBaseiSearch...
    MobiDBiSearch...

    Miscellaneous databases

    EvolutionaryTraceiQ06549.

    Family & Domainsi

    Domains and Repeats

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Domaini10 – 114105CMP/dCMP deaminase zinc-bindingAdd
    BLAST

    Region

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Regioni50 – 523Substrate bindingBy similarity

    Sequence similaritiesi

    Phylogenomic databases

    eggNOGiCOG0295.
    GeneTreeiENSGT00390000000911.
    HOGENOMiHOG000014707.
    KOiK01489.
    OMAiENATYGL.
    OrthoDBiEOG7NCVG0.

    Family and domain databases

    InterProiIPR016192. APOBEC/CMP_deaminase_Zn-bd.
    IPR002125. CMP_dCMP_Zn-bd.
    IPR006262. Cyt_deam_tetra.
    IPR016193. Cytidine_deaminase-like.
    [Graphical view]
    PfamiPF00383. dCMP_cyt_deam_1. 1 hit.
    [Graphical view]
    SUPFAMiSSF53927. SSF53927. 1 hit.
    TIGRFAMsiTIGR01354. cyt_deam_tetra. 1 hit.
    PROSITEiPS00903. CYT_DCMP_DEAMINASES. 1 hit.
    [Graphical view]

    Sequencei

    Sequence statusi: Complete.

    Q06549-1 [UniParc]FASTAAdd to Basket

    « Hide

    MKVGGIEDRQ LEALKRAALK ACELSYSPYS HFRVGCSILT NNDVIFTGAN    50
    VENASYSNCI CAERSAMIQV LMAGHRSGWK CMVICGDSED QCVSPCGVCR 100
    QFINEFVVKD FPIVMLNSTG SRSKVMTMGE LLPMAFGPSH LN 142
    Length:142
    Mass (Da):15,536
    Last modified:November 1, 1996 - v1
    Checksum:i962BD69CCB30D51F
    GO

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AF080089 Genomic DNA. Translation: AAD04031.1.
    U20865 Genomic DNA. Translation: AAB67399.1.
    AY557930 Genomic DNA. Translation: AAS56256.1.
    BK006945 Genomic DNA. Translation: DAA09559.1.
    PIRiS59391.
    RefSeqiNP_013346.1. NM_001182132.1.

    Genome annotation databases

    EnsemblFungiiYLR245C; YLR245C; YLR245C.
    GeneIDi850946.
    KEGGisce:YLR245C.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AF080089 Genomic DNA. Translation: AAD04031.1 .
    U20865 Genomic DNA. Translation: AAB67399.1 .
    AY557930 Genomic DNA. Translation: AAS56256.1 .
    BK006945 Genomic DNA. Translation: DAA09559.1 .
    PIRi S59391.
    RefSeqi NP_013346.1. NM_001182132.1.

    3D structure databases

    Select the link destinations:
    PDBe
    RCSB PDB
    PDBj
    Links Updated
    Entry Method Resolution (Å) Chain Positions PDBsum
    1R5T X-ray 2.00 A/B/C/D 1-142 [» ]
    ProteinModelPortali Q06549.
    SMRi Q06549. Positions 2-142.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    BioGridi 31512. 17 interactions.
    DIPi DIP-1252N.
    IntActi Q06549. 10 interactions.
    MINTi MINT-398236.
    STRINGi 4932.YLR245C.

    Proteomic databases

    MaxQBi Q06549.
    PaxDbi Q06549.
    PeptideAtlasi Q06549.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblFungii YLR245C ; YLR245C ; YLR245C .
    GeneIDi 850946.
    KEGGi sce:YLR245C.

    Organism-specific databases

    CYGDi YLR245c.
    SGDi S000004235. CDD1.

    Phylogenomic databases

    eggNOGi COG0295.
    GeneTreei ENSGT00390000000911.
    HOGENOMi HOG000014707.
    KOi K01489.
    OMAi ENATYGL.
    OrthoDBi EOG7NCVG0.

    Enzyme and pathway databases

    BioCyci MetaCyc:YLR245C-MONOMER.
    YEAST:YLR245C-MONOMER.

    Miscellaneous databases

    EvolutionaryTracei Q06549.
    NextBioi 967405.
    PROi Q06549.

    Gene expression databases

    Genevestigatori Q06549.

    Family and domain databases

    InterProi IPR016192. APOBEC/CMP_deaminase_Zn-bd.
    IPR002125. CMP_dCMP_Zn-bd.
    IPR006262. Cyt_deam_tetra.
    IPR016193. Cytidine_deaminase-like.
    [Graphical view ]
    Pfami PF00383. dCMP_cyt_deam_1. 1 hit.
    [Graphical view ]
    SUPFAMi SSF53927. SSF53927. 1 hit.
    TIGRFAMsi TIGR01354. cyt_deam_tetra. 1 hit.
    PROSITEi PS00903. CYT_DCMP_DEAMINASES. 1 hit.
    [Graphical view ]
    ProtoNeti Search...

    Publicationsi

    1. "New insights into the pyrimidine salvage pathway of Saccharomyces cerevisiae: requirement of six genes for cytidine metabolism."
      Kurtz J.-E., Exinger F., Erbs P., Jund R.
      Curr. Genet. 36:130-136(1999) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA], CHARACTERIZATION.
      Strain: ATCC 28383 / FL100 / VTT C-80102.
    2. "The nucleotide sequence of Saccharomyces cerevisiae chromosome XII."
      Johnston M., Hillier L.W., Riles L., Albermann K., Andre B., Ansorge W., Benes V., Brueckner M., Delius H., Dubois E., Duesterhoeft A., Entian K.-D., Floeth M., Goffeau A., Hebling U., Heumann K., Heuss-Neitzel D., Hilbert H.
      , Hilger F., Kleine K., Koetter P., Louis E.J., Messenguy F., Mewes H.-W., Miosga T., Moestl D., Mueller-Auer S., Nentwich U., Obermaier B., Piravandi E., Pohl T.M., Portetelle D., Purnelle B., Rechmann S., Rieger M., Rinke M., Rose M., Scharfe M., Scherens B., Scholler P., Schwager C., Schwarz S., Underwood A.P., Urrestarazu L.A., Vandenbol M., Verhasselt P., Vierendeels F., Voet M., Volckaert G., Voss H., Wambutt R., Wedler E., Wedler H., Zimmermann F.K., Zollner A., Hani J., Hoheisel J.D.
      Nature 387:87-90(1997) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: ATCC 204508 / S288c.
    3. Cited for: GENOME REANNOTATION.
      Strain: ATCC 204508 / S288c.
    4. Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
      Strain: ATCC 204508 / S288c.
    5. Cited for: LEVEL OF PROTEIN EXPRESSION [LARGE SCALE ANALYSIS].
    6. Cited for: IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
    7. "The structure of a yeast RNA-editing deaminase provides insight into the fold and function of activation-induced deaminase and APOBEC-1."
      Xie K., Sowden M.P., Dance G.S., Torelli A.T., Smith H.C., Wedekind J.E.
      Proc. Natl. Acad. Sci. U.S.A. 101:8114-8119(2004) [PubMed] [Europe PMC] [Abstract]
      Cited for: X-RAY CRYSTALLOGRAPHY (2.0 ANGSTROMS) IN COMPLEX WITH ZINC IONS, SUBUNIT.

    Entry informationi

    Entry nameiCDD_YEAST
    AccessioniPrimary (citable) accession number: Q06549
    Secondary accession number(s): D6VYP3
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: November 1, 1997
    Last sequence update: November 1, 1996
    Last modified: October 1, 2014
    This is version 134 of the entry and version 1 of the sequence. [Complete history]
    Entry statusiReviewed (UniProtKB/Swiss-Prot)
    Annotation programFungal Protein Annotation Program

    Miscellaneousi

    Miscellaneous

    Present with 3120 molecules/cell in log phase SD medium.1 Publication

    Keywords - Technical termi

    3D-structure, Complete proteome, Reference proteome

    Documents

    1. PDB cross-references
      Index of Protein Data Bank (PDB) cross-references
    2. SIMILARITY comments
      Index of protein domains and families
    3. Yeast
      Yeast (Saccharomyces cerevisiae): entries, gene names and cross-references to SGD
    4. Yeast chromosome XII
      Yeast (Saccharomyces cerevisiae) chromosome XII: entries and gene names

    External Data

    Dasty 3