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Q8MLZ3

- PDE5_DICDI

UniProt

Q8MLZ3 - PDE5_DICDI

Protein

cGMP-dependent 3',5'-cGMP phosphodiesterase A

Gene

pdeD

Organism
Dictyostelium discoideum (Slime mold)
Status
Reviewed - Annotation score: 5 out of 5- Experimental evidence at protein leveli
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    • History
      Entry version 67 (01 Oct 2014)
      Sequence version 1 (01 Oct 2002)
      Previous versions | rss
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    Functioni

    Phosphodiesterase specific for cGMP, which is activated by cGMP but not by cAMP. Involved in the degradation of intracellular cGMP.1 Publication

    Catalytic activityi

    Guanosine 3',5'-cyclic phosphate + H2O = guanosine 5'-phosphate.

    Cofactori

    Divalent metal cation. Can use manganese and to a lower extent magnesium and zinc. Half-maximal activation occurs between 10 and 100 µM of manganese whereas maximal activation occurs with 10 mM of zinc or magnesium.1 Publication

    Kineticsi

    cAMP/cGMP selectivity of 0.003.

    1. KM=5.2 µM for cGMP2 Publications

    Vmax=390 pmol/min/mg enzyme2 Publications

    pH dependencei

    Optimum pH is 7.0.2 Publications

    Sites

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Metal bindingi399 – 3991Divalent metal cationSequence Analysis
    Metal bindingi401 – 4011Divalent metal cationSequence Analysis
    Metal bindingi403 – 4031Divalent metal cationSequence Analysis

    Regions

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Nucleotide bindingi607 – 721115cNMP 1Add
    BLAST
    Nucleotide bindingi734 – 851118cNMP 2Add
    BLAST

    GO - Molecular functioni

    1. 3',5'-cyclic-GMP phosphodiesterase activity Source: dictyBase
    2. cGMP binding Source: UniProtKB-KW
    3. metal ion binding Source: UniProtKB-KW

    GO - Biological processi

    1. cGMP catabolic process Source: dictyBase
    2. cGMP-mediated signaling Source: dictyBase
    3. signal transduction Source: dictyBase

    Keywords - Molecular functioni

    Hydrolase

    Keywords - Ligandi

    cGMP, cGMP-binding, Magnesium, Manganese, Metal-binding, Nucleotide-binding, Zinc

    Enzyme and pathway databases

    BRENDAi3.1.4.35. 1939.

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    cGMP-dependent 3',5'-cGMP phosphodiesterase A (EC:3.1.4.35)
    Alternative name(s):
    Cyclic GMP-binding protein A
    Phosphodiesterase 5
    Short name:
    DdPDE5
    Phosphodiesterase D
    Gene namesi
    Name:pdeD
    Synonyms:gbpA, pde5
    ORF Names:DDB_G0274383
    OrganismiDictyostelium discoideum (Slime mold)
    Taxonomic identifieri44689 [NCBI]
    Taxonomic lineageiEukaryotaAmoebozoaMycetozoaDictyosteliidaDictyostelium
    ProteomesiUP000002195: Chromosome 2, UP000002195: Unassembled WGS sequence

    Organism-specific databases

    dictyBaseiDDB_G0274383. pdeD.

    Subcellular locationi

    Cytoplasmcytosol 3 Publications

    GO - Cellular componenti

    1. cytosol Source: dictyBase

    Keywords - Cellular componenti

    Cytoplasm

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Chaini1 – 867867cGMP-dependent 3',5'-cGMP phosphodiesterase APRO_0000353105Add
    BLAST

    Expressioni

    Developmental stagei

    Expressed during growth and development, with the highest level of expression during aggregation.1 Publication

    Interactioni

    Protein-protein interaction databases

    STRINGi44689.DDB_0185054.

    Structurei

    3D structure databases

    ProteinModelPortaliQ8MLZ3.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Region

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Regioni357 – 503147Phosphodiesterase activityAdd
    BLAST

    Compositional bias

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Compositional biasi124 – 1274Poly-Ser
    Compositional biasi142 – 1454Poly-Ser
    Compositional biasi151 – 1544Poly-Gln
    Compositional biasi155 – 1584Poly-Pro
    Compositional biasi178 – 1858Poly-His
    Compositional biasi189 – 1968Poly-Asn
    Compositional biasi200 – 2034Poly-Asn
    Compositional biasi209 – 22113Poly-GlnAdd
    BLAST

    Domaini

    The beta lactamase-like domain catalyzes the hydrolysis of cGMP.

    Sequence similaritiesi

    Contains 2 cyclic nucleotide-binding domains.PROSITE-ProRule annotation

    Keywords - Domaini

    Repeat

    Phylogenomic databases

    eggNOGiNOG70621.
    OMAiETIKDSM.
    PhylomeDBiQ8MLZ3.

    Family and domain databases

    Gene3Di2.60.120.10. 2 hits.
    3.60.15.10. 1 hit.
    InterProiIPR001279. Beta-lactamas-like.
    IPR018490. cNMP-bd-like.
    IPR018488. cNMP-bd_CS.
    IPR000595. cNMP-bd_dom.
    IPR014710. RmlC-like_jellyroll.
    [Graphical view]
    PfamiPF00027. cNMP_binding. 2 hits.
    PF00753. Lactamase_B. 1 hit.
    [Graphical view]
    SMARTiSM00100. cNMP. 2 hits.
    SM00849. Lactamase_B. 1 hit.
    [Graphical view]
    SUPFAMiSSF51206. SSF51206. 2 hits.
    SSF56281. SSF56281. 1 hit.
    PROSITEiPS00889. CNMP_BINDING_2. 1 hit.
    PS50042. CNMP_BINDING_3. 2 hits.
    [Graphical view]

    Sequencei

    Sequence statusi: Complete.

    Q8MLZ3-1 [UniParc]FASTAAdd to Basket

    « Hide

    MMFSKRKSIR FNPEGDYTEL PRGGYVVPSK LGGIQFGVPP ETIKDSMALK    50
    IDVPTIYVFP EELWDRKTGI NAAEAEFPAY FNYFILKRKV SFVCTKEQEQ 100
    RIRIVFQETL LGPPEFNTGI IINSSSSTTD TSKTSPIKKQ TSSSSPPLSP 150
    QQQQPPPPLV KQPSQQQLEE LATMDTCHYH HHHHHQEVND NDNNNNTTTN 200
    NNNIEILEQQ QQQQQQQQQQ QDEDSTDVDE EFQKEFSSTF PRSEIPNLEK 250
    ECKYLRTFNS VDELFDFILF DDNGIAKLSD DVEIHFQEDQ SLFKVLQFEE 300
    TGKGNKVQTL VATIPSKILF PDMINSISTI NDNKIFDPPT FGITIIGSSH 350
    GFDPKKSTTG FVLWINKRGI MVDPPLNSSS FLQSQGVPTR MVDHIILTHC 400
    HADHDSGTFQ KLLEEYQITV VTTPTILGSF LRKYGALSNL STDLLRRLFI 450
    FRPVMIGEPM IISGAEFRFF YTIHTIPTIS FEVFYGGKSI FYSGDTCYDP 500
    NRIKDMNKRG IMKTSRMKFF LRPWNHTVVL HEAGVPPIHT PVSVLRALPD 550
    EVKNRLYLVH ISEHTLPAGS GLKIAKEGVA HTLSLDVMKS SHSEAVDILK 600
    LVESVDIFRS IPLTQACEIL QTATKRKYSQ GSVIIARDTE PDAFYVVASG 650
    VVCVNIGELK KNLIVGDYFG EMSLVMGGLR SANVQAVTDV EVLSFNKEDF 700
    LSITRNSTES IQFITRLWEM RNEKSWETMS LNSVFSRCTN SQKTAIQSIL 750
    VRELIKKDET LWCKGEEALF GCLVAEGSFV FKEDDSLESF SQGSFLGDIN 800
    AMTTQPPSIH KTTVVAKEES VIYKVLSQDL IKFFSNNPGI QLAFLDTIFV 850
    DALRDQVQQL VNSKLTY 867
    Length:867
    Mass (Da):97,992
    Last modified:October 1, 2002 - v1
    Checksum:iE203EED614E6F386
    GO

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AF481921 Genomic DNA. Translation: AAM34039.1.
    AY047363 Genomic DNA. Translation: AAL06059.1.
    AAFI02000012 Genomic DNA. Translation: EAL70084.1.
    RefSeqiXP_644314.1. XM_639222.1.

    Genome annotation databases

    EnsemblProtistsiDDB0185054; DDB0185054; DDB_G0274383.
    GeneIDi8619742.
    KEGGiddi:DDB_G0274383.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AF481921 Genomic DNA. Translation: AAM34039.1 .
    AY047363 Genomic DNA. Translation: AAL06059.1 .
    AAFI02000012 Genomic DNA. Translation: EAL70084.1 .
    RefSeqi XP_644314.1. XM_639222.1.

    3D structure databases

    ProteinModelPortali Q8MLZ3.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    STRINGi 44689.DDB_0185054.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblProtistsi DDB0185054 ; DDB0185054 ; DDB_G0274383 .
    GeneIDi 8619742.
    KEGGi ddi:DDB_G0274383.

    Organism-specific databases

    dictyBasei DDB_G0274383. pdeD.

    Phylogenomic databases

    eggNOGi NOG70621.
    OMAi ETIKDSM.
    PhylomeDBi Q8MLZ3.

    Enzyme and pathway databases

    BRENDAi 3.1.4.35. 1939.

    Family and domain databases

    Gene3Di 2.60.120.10. 2 hits.
    3.60.15.10. 1 hit.
    InterProi IPR001279. Beta-lactamas-like.
    IPR018490. cNMP-bd-like.
    IPR018488. cNMP-bd_CS.
    IPR000595. cNMP-bd_dom.
    IPR014710. RmlC-like_jellyroll.
    [Graphical view ]
    Pfami PF00027. cNMP_binding. 2 hits.
    PF00753. Lactamase_B. 1 hit.
    [Graphical view ]
    SMARTi SM00100. cNMP. 2 hits.
    SM00849. Lactamase_B. 1 hit.
    [Graphical view ]
    SUPFAMi SSF51206. SSF51206. 2 hits.
    SSF56281. SSF56281. 1 hit.
    PROSITEi PS00889. CNMP_BINDING_2. 1 hit.
    PS50042. CNMP_BINDING_3. 2 hits.
    [Graphical view ]
    ProtoNeti Search...

    Publicationsi

    1. "A novel cGMP signalling pathway mediating myosin phosphorylation and chemotaxis in Dictyostelium."
      Bosgraaf L., Russcher H., Smith J.L., Wessels D., Soll D.R., Van Haastert P.J.M.
      EMBO J. 21:4560-4570(2002) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
    2. "Identification of a novel type of cGMP phosphodiesterase that is defective in the chemotactic stmF mutants."
      Meima M.E., Biondi R.M., Schaap P.
      Mol. Biol. Cell 13:3870-3877(2002) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA], SUBCELLULAR LOCATION, COFACTOR, DEVELOPMENTAL STAGE.
    3. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: AX4.
    4. "The genome of the social amoeba Dictyostelium discoideum."
      Eichinger L., Pachebat J.A., Gloeckner G., Rajandream M.A., Sucgang R., Berriman M., Song J., Olsen R., Szafranski K., Xu Q., Tunggal B., Kummerfeld S., Madera M., Konfortov B.A., Rivero F., Bankier A.T., Lehmann R., Hamlin N.
      , Davies R., Gaudet P., Fey P., Pilcher K., Chen G., Saunders D., Sodergren E.J., Davis P., Kerhornou A., Nie X., Hall N., Anjard C., Hemphill L., Bason N., Farbrother P., Desany B., Just E., Morio T., Rost R., Churcher C.M., Cooper J., Haydock S., van Driessche N., Cronin A., Goodhead I., Muzny D.M., Mourier T., Pain A., Lu M., Harper D., Lindsay R., Hauser H., James K.D., Quiles M., Madan Babu M., Saito T., Buchrieser C., Wardroper A., Felder M., Thangavelu M., Johnson D., Knights A., Loulseged H., Mungall K.L., Oliver K., Price C., Quail M.A., Urushihara H., Hernandez J., Rabbinowitsch E., Steffen D., Sanders M., Ma J., Kohara Y., Sharp S., Simmonds M.N., Spiegler S., Tivey A., Sugano S., White B., Walker D., Woodward J.R., Winckler T., Tanaka Y., Shaulsky G., Schleicher M., Weinstock G.M., Rosenthal A., Cox E.C., Chisholm R.L., Gibbs R.A., Loomis W.F., Platzer M., Kay R.R., Williams J.G., Dear P.H., Noegel A.A., Barrell B.G., Kuspa A.
      Nature 435:43-57(2005) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: AX4.
    5. "Identification and characterization of two unusual cGMP-stimulated phoshodiesterases in dictyostelium."
      Bosgraaf L., Russcher H., Snippe H., Bader S., Wind J., Van Haastert P.J.M.
      Mol. Biol. Cell 13:3878-3889(2002) [PubMed] [Europe PMC] [Abstract]
      Cited for: FUNCTION, SUBCELLULAR LOCATION, BIOPHYSICOCHEMICAL PROPERTIES.
    6. Cited for: IDENTIFICATION.
    7. "Characterization of a cAMP-stimulated cAMP phosphodiesterase in Dictyostelium discoideum."
      Meima M.E., Weening K.E., Schaap P.
      J. Biol. Chem. 278:14356-14362(2003) [PubMed] [Europe PMC] [Abstract]
      Cited for: BIOPHYSICOCHEMICAL PROPERTIES.
    8. "Seven Dictyostelium discoideum phosphodiesterases degrade three pools of cAMP and cGMP."
      Bader S., Kortholt A., Van Haastert P.J.M.
      Biochem. J. 402:153-161(2007) [PubMed] [Europe PMC] [Abstract]
      Cited for: SUBCELLULAR LOCATION.

    Entry informationi

    Entry nameiPDE5_DICDI
    AccessioniPrimary (citable) accession number: Q8MLZ3
    Secondary accession number(s): Q554K9
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: November 25, 2008
    Last sequence update: October 1, 2002
    Last modified: October 1, 2014
    This is version 67 of the entry and version 1 of the sequence. [Complete history]
    Entry statusiReviewed (UniProtKB/Swiss-Prot)

    Miscellaneousi

    Keywords - Technical termi

    Complete proteome, Reference proteome

    Documents

    1. Dictyostelium discoideum
      Dictyostelium discoideum: entries, gene names and cross-references to dictyBase
    2. SIMILARITY comments
      Index of protein domains and families

    External Data

    Dasty 3