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Protein

Lysophospholipase D GDPD1

Gene

Gdpd1

Organism
Mus musculus (Mouse)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at protein leveli

Functioni

Hydrolyzes lysoglycerophospholipids to produce lysophosphatidic acid (LPA) and the corresponding amines (PubMed:25528375, PubMed:25596343). Shows a preference for 1-O-alkyl-sn-glycero-3-phosphocholine (lyso-PAF), lysophosphatidylethanolamine (lyso-PE) and lysophosphatidylcholine (lyso-PC) (PubMed:25528375, PubMed:25596343). May be involved in bioactive N-acylethanolamine biosynthesis (PubMed:25596343). Does not display glycerophosphodiester phosphodiesterase activity, since it cannot hydrolyze either glycerophosphoinositol or glycerophosphocholine (PubMed:25528375).2 Publications

Catalytic activityi

1-alkyl-sn-glycero-3-phosphoethanolamine + H2O = 1-alkyl-sn-glycerol 3-phosphate + ethanolamine.1 Publication
1-acyl-sn-glycero-3-phospho-(N-acyl)-ethanolamine + H2O = 1-acyl-sn-glycero-3-phosphate + N-acylethanolamine.1 Publication
1-acyl-sn-glycero-3-phosphoethanolamine + H2O = 1-acyl-sn-glycero-3-phosphate + ethanolamine.1 Publication
1-O-(alk-1Z-enyl)-sn-glycero-3-phospho-(N-acyl)-ethanolamine + H2O = 1-O-(1Z-alkenyl)-sn-glycero-3-phosphate + N-acylethanolamine.1 Publication
1-acyl-sn-glycero-3-phosphocholine + H2O = 1-acyl-sn-glycero-3-phosphate + choline.2 Publications
1-O-alkyl-sn-glycero-3-phosphocholine + H2O = 1-O-alkyl-sn-glycero-3-phosphate + choline.1 Publication
1-hexadecanoyl-sn-glycero-3-phosphocholine + H2O 1-hexadecanoyl-sn-glycero-3-phosphate + choline.1 Publication

Kineticsi

kcat is 0.032 sec(-1) with lysophosphatidylcholine as substrate. kcat is 0.077 sec(-1) with 1-O-alkyl-sn-glycero-3-phosphocholine as substrate.1 Publication
  1. KM=1.0 mM for lysophosphatidylcholine (lyso-PC)1 Publication
  2. KM=0.32 mM for 1-O-alkyl-sn-glycero-3-phosphocholine (lyso-PAF)1 Publication

    Sites

    Feature keyPosition(s)DescriptionActionsGraphical viewLength
    Metal bindingi72Divalent metal cationSequence analysis1
    Metal bindingi74Divalent metal cationSequence analysis1
    Metal bindingi87Divalent metal cationSequence analysis1

    GO - Molecular functioni

    • alkylglycerophosphoethanolamine phosphodiesterase activity Source: UniProtKB-EC
    • lysophospholipase activity Source: MGI
    • metal ion binding Source: UniProtKB-KW
    • phosphoric diester hydrolase activity Source: MGI

    GO - Biological processi

    • glycerophospholipid catabolic process Source: Reactome
    • N-acylethanolamine metabolic process Source: MGI
    • phospholipid metabolic process Source: MGI

    Keywordsi

    Molecular functionHydrolase
    LigandMetal-binding

    Chemistry databases

    SwissLipidsiSLP:000001717.

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    Lysophospholipase D GDPD1Curated (EC:3.1.4.391 Publication)
    Alternative name(s):
    Glycerophosphodiester phosphodiesterase 41 Publication
    Glycerophosphodiester phosphodiesterase domain-containing protein 1
    Gene namesi
    Name:Gdpd1
    Synonyms:Gde41 Publication
    OrganismiMus musculus (Mouse)
    Taxonomic identifieri10090 [NCBI]
    Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaMyomorphaMuroideaMuridaeMurinaeMusMus
    Proteomesi
    • UP000000589 Componenti: Chromosome 11

    Organism-specific databases

    MGIiMGI:1913819. Gdpd1.

    Subcellular locationi

    Extracellular region or secreted Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi apparatus Nucleus Mitochondrion Manual annotation Automatic computational assertionGraphics by Christian Stolte; Source: COMPARTMENTS

    Topology

    Feature keyPosition(s)DescriptionActionsGraphical viewLength
    Topological domaini1 – 3ExtracellularSequence analysis3
    Transmembranei4 – 24HelicalSequence analysisAdd BLAST21
    Topological domaini25 – 195CytoplasmicSequence analysisAdd BLAST171
    Transmembranei196 – 216HelicalSequence analysisAdd BLAST21
    Topological domaini217 – 314ExtracellularSequence analysisAdd BLAST98

    Keywords - Cellular componenti

    Cytoplasm, Membrane

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)DescriptionActionsGraphical viewLength
    ChainiPRO_00002519321 – 314Lysophospholipase D GDPD1Add BLAST314

    Proteomic databases

    MaxQBiQ9CRY7.
    PaxDbiQ9CRY7.
    PeptideAtlasiQ9CRY7.
    PRIDEiQ9CRY7.

    PTM databases

    PhosphoSitePlusiQ9CRY7.

    Expressioni

    Tissue specificityi

    Widely expressed (PubMed:25528375, PubMed:25596343).2 Publications

    Inductioni

    Up-regulated in white adipose tissue of obese mice.1 Publication

    Gene expression databases

    BgeeiENSMUSG00000061666.
    GenevisibleiQ9CRY7. MM.

    Interactioni

    Protein-protein interaction databases

    STRINGi10090.ENSMUSP00000020804.

    Structurei

    3D structure databases

    ProteinModelPortaliQ9CRY7.
    SMRiQ9CRY7.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Domains and Repeats

    Feature keyPosition(s)DescriptionActionsGraphical viewLength
    Domaini40 – 309GP-PDEAdd BLAST270

    Sequence similaritiesi

    Keywords - Domaini

    Transmembrane, Transmembrane helix

    Phylogenomic databases

    eggNOGiKOG2258. Eukaryota.
    COG0584. LUCA.
    GeneTreeiENSGT00510000046745.
    HOGENOMiHOG000008170.
    HOVERGENiHBG054611.
    InParanoidiQ9CRY7.
    OMAiRVCVGSF.
    OrthoDBiEOG091G0G89.
    PhylomeDBiQ9CRY7.
    TreeFamiTF328545.

    Family and domain databases

    Gene3Di3.20.20.190. 1 hit.
    InterProiView protein in InterPro
    IPR030395. GP_PDE_dom.
    IPR017946. PLC-like_Pdiesterase_TIM-brl.
    PfamiView protein in Pfam
    PF03009. GDPD. 1 hit.
    SUPFAMiSSF51695. SSF51695. 1 hit.
    PROSITEiView protein in PROSITE
    PS51704. GP_PDE. 1 hit.

    Sequencei

    Sequence statusi: Complete.

    Q9CRY7-1 [UniParc]FASTAAdd to basket

    « Hide

            10         20         30         40         50
    MSSTAAFCLL STLGGYLVTS FLLLKYPALL HQRKKQRFLS RHISHRGGAG
    60 70 80 90 100
    ENLENTMAAF QHAVTIGTDM LELDCHITKD EQVVVSHDAN LKRSTGVNVN
    110 120 130 140 150
    VSDLKYCELP PYLCKLDVPF QRACKCEGKD TRIPLLKEVF EAFPETPINI
    160 170 180 190 200
    DIKVNNNVLI KKVSELVKQY KREHLTVWGN ANSEIVDKCY KENSDIPILF
    210 220 230 240 250
    SLQRVLLILG LFFTGLLPFV PIREQFFEIP MPSIILKLKE PHTISKGHKF
    260 270 280 290 300
    LIWLSDTLLM RKALFDHLTA RGIQVYVWVL NEEYEYKRAF DLGATGVMTD
    310
    YPTKLKDFLN NFSA
    Length:314
    Mass (Da):35,867
    Last modified:June 1, 2001 - v1
    Checksum:iAEDB140CB872A00C
    GO

    Sequence cautioni

    The sequence BAB27650 differs from that shown. Reason: Frameshift at position 55.Curated

    Experimental Info

    Feature keyPosition(s)DescriptionActionsGraphical viewLength
    Sequence conflicti109L → I in BAB27650 (PubMed:16141072).Curated1
    Sequence conflicti296G → R in BAB30083 (PubMed:16141072).Curated1

    Sequence databases

    Select the link destinations:
    EMBLi
    GenBanki
    DDBJi
    Links Updated
    AK011487 mRNA. Translation: BAB27650.1. Frameshift.
    AK013864 mRNA. Translation: BAB29022.1.
    AK016023 mRNA. Translation: BAB30083.1.
    AK167812 mRNA. Translation: BAE39839.1.
    AL713917 Genomic DNA. Translation: CAI25312.1.
    BC016541 mRNA. Translation: AAH16541.1.
    CCDSiCCDS25206.1.
    RefSeqiNP_079914.1. NM_025638.2.
    UniGeneiMm.281887.
    Mm.475327.
    Mm.491118.

    Genome annotation databases

    EnsembliENSMUST00000020804; ENSMUSP00000020804; ENSMUSG00000061666.
    GeneIDi66569.
    KEGGimmu:66569.
    UCSCiuc007kte.2. mouse.

    Similar proteinsi

    Entry informationi

    Entry nameiGDPD1_MOUSE
    AccessioniPrimary (citable) accession number: Q9CRY7
    Secondary accession number(s): Q9CT14, Q9D4X7
    Entry historyiIntegrated into UniProtKB/Swiss-Prot: October 3, 2006
    Last sequence update: June 1, 2001
    Last modified: November 22, 2017
    This is version 114 of the entry and version 1 of the sequence. See complete history.
    Entry statusiReviewed (UniProtKB/Swiss-Prot)
    Annotation programChordata Protein Annotation Program

    Miscellaneousi

    Keywords - Technical termi

    Complete proteome, Reference proteome

    Documents

    1. MGD cross-references
      Mouse Genome Database (MGD) cross-references in UniProtKB/Swiss-Prot
    2. SIMILARITY comments
      Index of protein domains and families