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Protein

Nudix hydrolase DR_0079

Gene

DR_0079

Organism
Deinococcus radiodurans (strain ATCC 13939 / DSM 20539 / JCM 16871 / LMG 4051 / NBRC 15346 / NCIMB 9279 / R1 / VKM B-1422)
Status
Reviewed-Annotation score: -Experimental evidence at protein leveli

Functioni

Hydrolase that converts various nucleotide triphosphates (NTPs) to the corresponding nucleotide monophosphates and diphosphate, and nucleotide diphosphates to nucleotide monophosphates and inorganic phosphate. Has a marked preference for cytosine ribonucleoside 5'-diphosphate (CDP) and cytosine ribonucleoside 5'-triphosphate (CTP). Has lower activity towards the deoxyribose nucleotides dCDP and dCTP, and towards dGDP, TDP and UDP.2 Publications

Cofactori

Mg2+2 Publications

Enzyme regulationi

Inhibited by zinc, calcium or copper ions.1 Publication

Kineticsi

  1. KM=0.082 mM for CDP1 Publication
  2. KM=0.034 mM for CTP1 Publication
  3. KM=0.092 mM for dCDP1 Publication
  4. KM=0.105 mM for TDP1 Publication
  5. KM=0.137 mM for UDP1 Publication
  6. KM=0.092 mM for GDP1 Publication
  7. KM=0.051 mM for dGDP1 Publication
  8. KM=0.046 mM for IDP1 Publication

    pH dependencei

    Optimum pH is 9.0-9.5.1 Publication

    Sites

    Feature keyPosition(s)DescriptionActionsGraphical viewLength
    Metal bindingi85MagnesiumCurated1
    Metal bindingi89MagnesiumCurated1

    GO - Molecular functioni

    • hydrolase activity Source: CACAO
    • metal ion binding Source: UniProtKB-KW
    • nucleotide binding Source: UniProtKB-KW

    Keywordsi

    Molecular functionHydrolase
    LigandMagnesium, Metal-binding, Nucleotide-binding

    Enzyme and pathway databases

    BioCyciDRAD243230:GH46-84-MONOMER

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    Nudix hydrolase DR_0079 (EC:3.6.1.-)
    Gene namesi
    Ordered Locus Names:DR_0079
    OrganismiDeinococcus radiodurans (strain ATCC 13939 / DSM 20539 / JCM 16871 / LMG 4051 / NBRC 15346 / NCIMB 9279 / R1 / VKM B-1422)
    Taxonomic identifieri243230 [NCBI]
    Taxonomic lineageiBacteriaDeinococcus-ThermusDeinococciDeinococcalesDeinococcaceaeDeinococcus
    Proteomesi
    • UP000002524 Componenti: Chromosome I

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)DescriptionActionsGraphical viewLength
    ChainiPRO_00000570761 – 171Nudix hydrolase DR_0079Add BLAST171

    Interactioni

    Subunit structurei

    Monomer.1 Publication

    Protein-protein interaction databases

    STRINGi243230.DR_0079

    Structurei

    Secondary structure

    1171
    Legend: HelixTurnBeta strandPDB Structure known for this area
    Show more details
    Feature keyPosition(s)DescriptionActionsGraphical viewLength
    Beta strandi8 – 12Combined sources5
    Beta strandi18 – 23Combined sources6
    Helixi31 – 33Combined sources3
    Beta strandi34 – 42Combined sources9
    Turni44 – 46Combined sources3
    Beta strandi48 – 52Combined sources5
    Beta strandi58 – 60Combined sources3
    Beta strandi67 – 71Combined sources5
    Beta strandi73 – 76Combined sources4
    Helixi78 – 90Combined sources13
    Helixi94 – 96Combined sources3
    Beta strandi97 – 105Combined sources9
    Turni107 – 109Combined sources3
    Beta strandi113 – 122Combined sources10
    Turni131 – 133Combined sources3
    Beta strandi135 – 140Combined sources6
    Helixi142 – 151Combined sources10
    Helixi159 – 166Combined sources8

    3D structure databases

    Select the link destinations:
    PDBei
    RCSB PDBi
    PDBji
    Links Updated
    PDB entryMethodResolution (Å)ChainPositionsPDBsum
    1Q27NMR-A1-171[»]
    2O5FX-ray1.90A/B1-171[»]
    ProteinModelPortaliQ9RY71
    SMRiQ9RY71
    ModBaseiSearch...
    MobiDBiSearch...

    Miscellaneous databases

    EvolutionaryTraceiQ9RY71

    Family & Domainsi

    Domains and Repeats

    Feature keyPosition(s)DescriptionActionsGraphical viewLength
    Domaini32 – 162Nudix hydrolasePROSITE-ProRule annotationAdd BLAST131

    Motif

    Feature keyPosition(s)DescriptionActionsGraphical viewLength
    Motifi69 – 91Nudix boxAdd BLAST23

    Sequence similaritiesi

    Belongs to the Nudix hydrolase family.Curated

    Phylogenomic databases

    eggNOGiCOG0494 LUCA
    HOGENOMiHOG000099699
    InParanoidiQ9RY71
    OMAiSREELTC
    OrthoDBiPOG091H0F74

    Family and domain databases

    InterProiView protein in InterPro
    IPR015797 NUDIX_hydrolase-like_dom_sf
    IPR020084 NUDIX_hydrolase_CS
    IPR000086 NUDIX_hydrolase_dom
    PfamiView protein in Pfam
    PF00293 NUDIX, 1 hit
    SUPFAMiSSF55811 SSF55811, 1 hit
    PROSITEiView protein in PROSITE
    PS51462 NUDIX, 1 hit
    PS00893 NUDIX_BOX, 1 hit

    Sequencei

    Sequence statusi: Complete.

    Q9RY71-1 [UniParc]FASTAAdd to basket

    « Hide

            10         20         30         40         50
    MGGVSDERLD LVNERDEVVG QILRTDPALR WERVRVVNAF LRNSQGQLWI
    60 70 80 90 100
    PRRSPSKSLF PNALDVSVGG AVQSGETYEE AFRREAREEL NVEIDALSWR
    110 120 130 140 150
    PLASFSPFQT TLSSFMCVYE LRSDATPIFN PNDISGGEWL TPEHLLARIA
    160 170
    AGEAAKGDLA ELVRRCYREE E
    Length:171
    Mass (Da):19,283
    Last modified:May 1, 2000 - v1
    Checksum:i254C737BB2A0276E
    GO

    Sequence databases

    Select the link destinations:
    EMBLi
    GenBanki
    DDBJi
    Links Updated
    AE000513 Genomic DNA Translation: AAF09672.1
    PIRiE75562
    RefSeqiNP_293805.1, NC_001263.1
    WP_010886727.1, NZ_CP015081.1

    Genome annotation databases

    EnsemblBacteriaiAAF09672; AAF09672; DR_0079
    GeneIDi1797409
    KEGGidra:DR_0079
    PATRICifig|243230.17.peg.242

    Similar proteinsi

    Entry informationi

    Entry nameiY079_DEIRA
    AccessioniPrimary (citable) accession number: Q9RY71
    Entry historyiIntegrated into UniProtKB/Swiss-Prot: January 10, 2003
    Last sequence update: May 1, 2000
    Last modified: March 28, 2018
    This is version 104 of the entry and version 1 of the sequence. See complete history.
    Entry statusiReviewed (UniProtKB/Swiss-Prot)
    Annotation programProkaryotic Protein Annotation Program

    Miscellaneousi

    Keywords - Technical termi

    3D-structure, Complete proteome, Reference proteome
    UniProt is an ELIXIR core data resource
    Main funding by: National Institutes of Health