1) that is produced during tRNA splicing into ADP-ribose 1"-phosphate (Appr-1"p). Acts also on nucleoside 2',3'-cyclic phosphates." name="description"/>

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Protein

Cyclic phosphodiesterase

Gene

At4g18930

Organism
Arabidopsis thaliana (Mouse-ear cress)
Status
Reviewed-Annotation score: -Experimental evidence at protein leveli

Functioni

Hydrolyzes ADP-ribose 1",2"-cyclic phosphate (Appr>1) that is produced during tRNA splicing into ADP-ribose 1"-phosphate (Appr-1"p). Acts also on nucleoside 2',3'-cyclic phosphates.

Enzyme regulationi

Inhibited by Cu2+ and Zn2+ at 0.5 mM by 93 and 87% respectively. Not inhibited by Ca2+, Mg2+, Co2+, Ni2+, and EDTA at 0.5 mM.

Kineticsi

  1. KM=1.35 mM for Appr>p
  2. KM=1.34 mM for A>p
  3. KM=2.38 mM for C>p
  4. KM=16.86 mM for G>p
  5. KM=17.67 mM for U>p

    Sites

    Feature keyPosition(s)DescriptionActionsGraphical viewLength
    Active sitei42Proton donor/acceptor1
    Binding sitei44Substrate1
    Active sitei119Proton donor/acceptor1
    Binding sitei121Substrate1
    Binding sitei124Substrate1

    GO - Molecular functioni

    GO - Biological processi

    • cyclic nucleotide metabolic process Source: GO_Central
    • tRNA splicing, via endonucleolytic cleavage and ligation Source: TAIR

    Keywordsi

    Molecular functionHydrolase

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    Cyclic phosphodiesterase (EC:3.1.4.-)
    Short name:
    CPDase
    Gene namesi
    Ordered Locus Names:At4g18930
    ORF Names:F13C5.100, F13C5_100
    OrganismiArabidopsis thaliana (Mouse-ear cress)
    Taxonomic identifieri3702 [NCBI]
    Taxonomic lineageiEukaryotaViridiplantaeStreptophytaEmbryophytaTracheophytaSpermatophytaMagnoliophytaeudicotyledonsGunneridaePentapetalaerosidsmalvidsBrassicalesBrassicaceaeCamelineaeArabidopsis
    Proteomesi
    • UP000006548 Componenti: Chromosome 4

    Organism-specific databases

    AraportiAT4G18930
    TAIRilocus:2117099 AT4G18930

    Subcellular locationi

    Keywords - Cellular componenti

    Cytoplasm

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)DescriptionActionsGraphical viewLength
    ChainiPRO_00000792851 – 181Cyclic phosphodiesteraseAdd BLAST181

    Amino acid modifications

    Feature keyPosition(s)DescriptionActionsGraphical viewLength
    Disulfide bondi64 ↔ 177
    Disulfide bondi104 ↔ 110

    Keywords - PTMi

    Disulfide bond

    Proteomic databases

    PaxDbiO04147
    PRIDEiO04147

    PTM databases

    SwissPalmiO04147

    Expressioni

    Tissue specificityi

    Expressed in leaves, stems, roots, floral buds and germinating seeds.1 Publication

    Gene expression databases

    ExpressionAtlasiO04147 baseline and differential
    GenevisibleiO04147 AT

    Interactioni

    Protein-protein interaction databases

    STRINGi3702.AT4G18930.1

    Structurei

    Secondary structure

    1181
    Legend: HelixTurnBeta strandPDB Structure known for this area
    Show more details
    Feature keyPosition(s)DescriptionActionsGraphical viewLength
    Beta strandi7 – 15Combined sources9
    Turni17 – 19Combined sources3
    Helixi20 – 34Combined sources15
    Beta strandi43 – 51Combined sources9
    Helixi53 – 65Combined sources13
    Beta strandi70 – 82Combined sources13
    Beta strandi85 – 91Combined sources7
    Helixi95 – 107Combined sources13
    Beta strandi119 – 123Combined sources5
    Helixi129 – 142Combined sources14
    Helixi144 – 146Combined sources3
    Beta strandi150 – 160Combined sources11
    Beta strandi172 – 178Combined sources7

    3D structure databases

    Select the link destinations:
    PDBei
    RCSB PDBi
    PDBji
    Links Updated
    PDB entryMethodResolution (Å)ChainPositionsPDBsum
    1FSIX-ray2.50A/B/C1-181[»]
    1JH6X-ray1.80A/B1-181[»]
    1JH7X-ray2.40A1-181[»]
    ProteinModelPortaliO04147
    SMRiO04147
    ModBaseiSearch...
    MobiDBiSearch...

    Miscellaneous databases

    EvolutionaryTraceiO04147

    Family & Domainsi

    Sequence similaritiesi

    Phylogenomic databases

    eggNOGiENOG410IW8V Eukaryota
    ENOG41128FD LUCA
    HOGENOMiHOG000241544
    InParanoidiO04147
    OMAiRPHITIL
    OrthoDBiEOG09360MZ4
    PhylomeDBiO04147

    Family and domain databases

    InterProiView protein in InterPro
    IPR009097 cNuc_Pdiesterase
    IPR012386 Cyclic-nucl_3Pdiesterase
    PANTHERiPTHR28141 PTHR28141, 1 hit
    PfamiView protein in Pfam
    PF07823 CPDase, 1 hit
    PIRSFiPIRSF017903 CPDase_plant, 1 hit
    SUPFAMiSSF55144 SSF55144, 1 hit

    Sequencei

    Sequence statusi: Complete.

    O04147-1 [UniParc]FASTAAdd to basket

    « Hide

            10         20         30         40         50
    MEEVKKDVYS VWALPDEESE PRFKKLMEAL RSEFTGPRFV PHVTVAVSAY
    60 70 80 90 100
    LTADEAKKMF ESACDGLKAY TATVDRVSTG TFFFQCVFLL LQTTPEVMEA
    110 120 130 140 150
    GEHCKNHFNC STTTPYMPHL SLLYAELTEE EKKNAQEKAY TLDSSLDGLS
    160 170 180
    FRLNRLALCK TDTEDKTLET WETVAVCNLN P
    Length:181
    Mass (Da):20,514
    Last modified:July 1, 1997 - v1
    Checksum:i5FFDFC57213BEE34
    GO

    Sequence databases

    Select the link destinations:
    EMBLi
    GenBanki
    DDBJi
    Links Updated
    Y11650 mRNA Translation: CAA72363.1
    AL021711 Genomic DNA Translation: CAA16750.1
    AL161549 Genomic DNA Translation: CAB78895.1
    CP002687 Genomic DNA Translation: AEE84108.1
    AY062822 mRNA Translation: AAL32900.1
    AY081630 mRNA Translation: AAM10192.1
    PIRiT05030
    RefSeqiNP_193628.1, NM_118010.5
    UniGeneiAt.29

    Genome annotation databases

    EnsemblPlantsiAT4G18930.1; AT4G18930.1; AT4G18930
    GeneIDi827628
    GrameneiAT4G18930.1; AT4G18930.1; AT4G18930
    KEGGiath:AT4G18930

    Similar proteinsi

    Entry informationi

    Entry nameiCPD_ARATH
    AccessioniPrimary (citable) accession number: O04147
    Entry historyiIntegrated into UniProtKB/Swiss-Prot: August 16, 2004
    Last sequence update: July 1, 1997
    Last modified: May 23, 2018
    This is version 129 of the entry and version 1 of the sequence. See complete history.
    Entry statusiReviewed (UniProtKB/Swiss-Prot)
    Annotation programPlant Protein Annotation Program

    Miscellaneousi

    Keywords - Technical termi

    3D-structure, Complete proteome, Reference proteome

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