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Protein

Diphosphoinositol polyphosphate phosphohydrolase 1

Gene

Nudt3

Organism
Rattus norvegicus (Rat)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at protein leveli

Functioni

Cleaves a beta-phosphate from the diphosphate groups in PP-InsP5 (diphosphoinositol pentakisphosphate) and [PP]2-InsP4 (bisdiphosphoinositol tetrakisphosphate), suggesting that it may play a role in signal transduction. InsP6 (inositol hexakisphophate) is not a substrate. Acts as a negative regulator of the ERK1/2 pathway. Also able to catalyze the hydrolysis of dinucleoside oligophosphates, with Ap6A and Ap5A being the preferred substrates. The major reaction products are ADP and p4a from Ap6A and ADP and ATP from Ap5A. Also able to hydrolyze 5-phosphoribose 1-diphosphate.1 Publication

Catalytic activityi

Diphospho-myo-inositol polyphosphate + H2O = myo-inositol polyphosphate + phosphate.1 Publication

Cofactori

Mg2+By similarityNote: Binds 3 Mg2+ ions per subunit.By similarity

Enzyme regulationi

Inhibited by fluoride and InsP6.1 Publication

Kineticsi

  1. KM=340 nM for PP-InsP5
  2. KM=34 nM for [PP]2-InsP4

    Sites

    Feature keyPosition(s)DescriptionActionsGraphical viewLength
    Binding sitei10SubstrateBy similarity1
    Binding sitei41SubstrateBy similarity1
    Metal bindingi50Magnesium 1; via carbonyl oxygenBy similarity1
    Metal bindingi66Magnesium 2By similarity1
    Metal bindingi66Magnesium 3By similarity1
    Active sitei69Proton acceptorBy similarity1
    Metal bindingi70Magnesium 1By similarity1

    GO - Molecular functioni

    GO - Biological processi

    Complete GO annotation...

    Keywords - Molecular functioni

    Hydrolase

    Keywords - Ligandi

    Magnesium, Metal-binding

    Enzyme and pathway databases

    ReactomeiR-RNO-1855167. Synthesis of pyrophosphates in the cytosol.

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    Diphosphoinositol polyphosphate phosphohydrolase 1 (EC:3.6.1.52)
    Short name:
    DIPP-1
    Alternative name(s):
    Diadenosine 5',5'''-P1,P6-hexaphosphate hydrolase 1 (EC:3.6.1.-)
    Nucleoside diphosphate-linked moiety X motif 3
    Short name:
    Nudix motif 3
    Gene namesi
    Name:Nudt3
    Synonyms:Dipp, Dipp1
    OrganismiRattus norvegicus (Rat)
    Taxonomic identifieri10116 [NCBI]
    Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaSciurognathiMuroideaMuridaeMurinaeRattus
    Proteomesi
    • UP000002494 Componenti: Chromosome 20

    Organism-specific databases

    RGDi1310183. Nudt3.

    Subcellular locationi

    GO - Cellular componenti

    Complete GO annotation...

    Keywords - Cellular componenti

    Cytoplasm

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)DescriptionActionsGraphical viewLength
    ChainiPRO_00000570571 – 168Diphosphoinositol polyphosphate phosphohydrolase 1Add BLAST168

    Amino acid modifications

    Feature keyPosition(s)DescriptionActionsGraphical viewLength
    Modified residuei1N-acetylmethionineBy similarity1

    Keywords - PTMi

    Acetylation

    Proteomic databases

    PaxDbiQ566C7.
    PRIDEiQ566C7.

    Expressioni

    Gene expression databases

    BgeeiENSRNOG00000000489.
    GenevisibleiQ566C7. RN.

    Interactioni

    Subunit structurei

    Monomer.1 Publication

    Protein-protein interaction databases

    STRINGi10116.ENSRNOP00000000581.

    Structurei

    3D structure databases

    ProteinModelPortaliQ566C7.
    SMRiQ566C7.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Domains and Repeats

    Feature keyPosition(s)DescriptionActionsGraphical viewLength
    Domaini17 – 142Nudix hydrolasePROSITE-ProRule annotationAdd BLAST126

    Region

    Feature keyPosition(s)DescriptionActionsGraphical viewLength
    Regioni18 – 20Substrate bindingBy similarity3
    Regioni89 – 91Substrate bindingBy similarity3

    Motif

    Feature keyPosition(s)DescriptionActionsGraphical viewLength
    Motifi51 – 72Nudix boxAdd BLAST22

    Sequence similaritiesi

    Belongs to the Nudix hydrolase family. DIPP subfamily.Curated
    Contains 1 nudix hydrolase domain.PROSITE-ProRule annotation

    Phylogenomic databases

    eggNOGiENOG410ISY6. Eukaryota.
    ENOG4111I7R. LUCA.
    GeneTreeiENSGT00390000012928.
    HOGENOMiHOG000237336.
    HOVERGENiHBG053341.
    InParanoidiQ566C7.
    KOiK07766.
    OMAiLQESCLT.
    OrthoDBiEOG091G0TH6.
    PhylomeDBiQ566C7.
    TreeFamiTF106349.

    Family and domain databases

    Gene3Di3.90.79.10. 1 hit.
    InterProiIPR020084. NUDIX_hydrolase_CS.
    IPR000086. NUDIX_hydrolase_dom.
    IPR015797. NUDIX_hydrolase_dom-like.
    [Graphical view]
    PfamiPF00293. NUDIX. 1 hit.
    [Graphical view]
    SUPFAMiSSF55811. SSF55811. 1 hit.
    PROSITEiPS51462. NUDIX. 1 hit.
    PS00893. NUDIX_BOX. 1 hit.
    [Graphical view]

    Sequencei

    Sequence statusi: Complete.

    Q566C7-1 [UniParc]FASTAAdd to basket

    « Hide

            10         20         30         40         50
    MMKLKSNQTR TYDGDGYKKR AACLCFRSES EEEVLLVSSS RHPDRWIVPG
    60 70 80 90 100
    GGMEPEEEPS VAAVREVCEE AGVKGTLGRL VGIFENQERK HRTYVYVLIV
    110 120 130 140 150
    TEVLEDWEDS VNIGRKREWF KIEEAVKVLQ YHKPVQASYF EALRQGYSAN
    160
    NGTPVLPTTY SSSMSGIR
    Length:168
    Mass (Da):19,096
    Last modified:May 10, 2005 - v1
    Checksum:i6743B325524B634E
    GO

    Sequence databases

    Select the link destinations:
    EMBLi
    GenBanki
    DDBJi
    Links Updated
    BC093618 mRNA. Translation: AAH93618.1.
    RefSeqiNP_001019414.1. NM_001024243.1.
    UniGeneiRn.195252.

    Genome annotation databases

    EnsembliENSRNOT00000083169; ENSRNOP00000074608; ENSRNOG00000061176.
    GeneIDi294292.
    KEGGirno:294292.
    UCSCiRGD:1310183. rat.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBLi
    GenBanki
    DDBJi
    Links Updated
    BC093618 mRNA. Translation: AAH93618.1.
    RefSeqiNP_001019414.1. NM_001024243.1.
    UniGeneiRn.195252.

    3D structure databases

    ProteinModelPortaliQ566C7.
    SMRiQ566C7.
    ModBaseiSearch...
    MobiDBiSearch...

    Protein-protein interaction databases

    STRINGi10116.ENSRNOP00000000581.

    Proteomic databases

    PaxDbiQ566C7.
    PRIDEiQ566C7.

    Protocols and materials databases

    Structural Biology KnowledgebaseSearch...

    Genome annotation databases

    EnsembliENSRNOT00000083169; ENSRNOP00000074608; ENSRNOG00000061176.
    GeneIDi294292.
    KEGGirno:294292.
    UCSCiRGD:1310183. rat.

    Organism-specific databases

    CTDi11165.
    RGDi1310183. Nudt3.

    Phylogenomic databases

    eggNOGiENOG410ISY6. Eukaryota.
    ENOG4111I7R. LUCA.
    GeneTreeiENSGT00390000012928.
    HOGENOMiHOG000237336.
    HOVERGENiHBG053341.
    InParanoidiQ566C7.
    KOiK07766.
    OMAiLQESCLT.
    OrthoDBiEOG091G0TH6.
    PhylomeDBiQ566C7.
    TreeFamiTF106349.

    Enzyme and pathway databases

    ReactomeiR-RNO-1855167. Synthesis of pyrophosphates in the cytosol.

    Miscellaneous databases

    PROiQ566C7.

    Gene expression databases

    BgeeiENSRNOG00000000489.
    GenevisibleiQ566C7. RN.

    Family and domain databases

    Gene3Di3.90.79.10. 1 hit.
    InterProiIPR020084. NUDIX_hydrolase_CS.
    IPR000086. NUDIX_hydrolase_dom.
    IPR015797. NUDIX_hydrolase_dom-like.
    [Graphical view]
    PfamiPF00293. NUDIX. 1 hit.
    [Graphical view]
    SUPFAMiSSF55811. SSF55811. 1 hit.
    PROSITEiPS51462. NUDIX. 1 hit.
    PS00893. NUDIX_BOX. 1 hit.
    [Graphical view]
    ProtoNetiSearch...

    Entry informationi

    Entry nameiNUDT3_RAT
    AccessioniPrimary (citable) accession number: Q566C7
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: July 5, 2005
    Last sequence update: May 10, 2005
    Last modified: November 2, 2016
    This is version 92 of the entry and version 1 of the sequence. [Complete history]
    Entry statusiReviewed (UniProtKB/Swiss-Prot)
    Annotation programChordata Protein Annotation Program

    Miscellaneousi

    Keywords - Technical termi

    Complete proteome, Direct protein sequencing, Reference proteome

    Documents

    1. 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.