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Protein

Glycerophosphodiester phosphodiesterase, periplasmic

Gene

glpQ

Organism
Escherichia coli (strain K12)
Status
Reviewed-Annotation score: -Experimental evidence at protein leveli

Functioni

Glycerophosphoryl diester phosphodiesterase hydrolyzes deacylated phospholipids to G3P and the corresponding alcohols.

Miscellaneous

There are 2 isozymes of glycerophosphoryl diester phosphodiesterase in E.coli: a periplasmic isozyme (GlpQ) and a cytosolic isozyme (UgpQ).

Catalytic activityi

A glycerophosphodiester + H2O = an alcohol + sn-glycerol 3-phosphate.1 Publication

Cofactori

Ca2+1 PublicationNote: Binds 1 Ca2+ ion per subunit.1 Publication

Kineticsi

  1. KM=0.28 mM for glycerophosphocholine1 Publication
  2. KM=0.24 mM for glycerophosphoethanolamine1 Publication
  3. KM=0.35 mM for glycerophosphoglycerol1 Publication
  4. KM=0.59 mM for glycerophosphoserine1 Publication
  5. KM=1.0 mM for glycerophosphoinositol1 Publication

    pH dependencei

    Optimum pH is 7.8.1 Publication

    Sites

    Feature keyPosition(s)DescriptionActionsGraphical viewLength
    Metal bindingi63Calcium1
    Metal bindingi65Calcium1
    Metal bindingi171Calcium1

    GO - Molecular functioni

    • calcium ion binding Source: EcoCyc
    • glycerophosphodiester phosphodiesterase activity Source: EcoCyc
    • metal ion binding Source: EcoCyc

    GO - Biological processi

    Keywordsi

    Molecular functionHydrolase
    Biological processGlycerol metabolism
    LigandCalcium, Metal-binding

    Enzyme and pathway databases

    BioCyciEcoCyc:GLYCPDIESTER-PERI-MONOMER
    MetaCyc:GLYCPDIESTER-PERI-MONOMER
    BRENDAi3.1.4.46 2026
    SABIO-RKP09394

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    Glycerophosphodiester phosphodiesterase, periplasmic (EC:3.1.4.46)
    Short name:
    Glycerophosphoryl diester phosphodiesterase, periplasmic
    Gene namesi
    Name:glpQ
    Ordered Locus Names:b2239, JW2233
    OrganismiEscherichia coli (strain K12)
    Taxonomic identifieri83333 [NCBI]
    Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaEnterobacteralesEnterobacteriaceaeEscherichia
    Proteomesi
    • UP000000318 Componenti: Chromosome
    • UP000000625 Componenti: Chromosome

    Organism-specific databases

    EcoGeneiEG10399 glpQ

    Subcellular locationi

    GO - Cellular componenti

    • periplasmic space Source: EcoCyc

    Keywords - Cellular componenti

    Periplasm

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)DescriptionActionsGraphical viewLength
    Signal peptidei1 – 252 PublicationsAdd BLAST25
    ChainiPRO_000001259426 – 358Glycerophosphodiester phosphodiesterase, periplasmicAdd BLAST333

    Proteomic databases

    EPDiP09394
    PaxDbiP09394
    PRIDEiP09394

    Interactioni

    Subunit structurei

    Homodimer.3 Publications

    Protein-protein interaction databases

    BioGridi4260486, 185 interactors
    IntActiP09394, 11 interactors
    STRINGi316385.ECDH10B_2398

    Structurei

    Secondary structure

    1358
    Legend: HelixTurnBeta strandPDB Structure known for this area
    Show more details
    Feature keyPosition(s)DescriptionActionsGraphical viewLength
    Beta strandi32 – 35Combined sources4
    Turni36 – 42Combined sources7
    Helixi48 – 56Combined sources9
    Beta strandi60 – 68Combined sources9
    Beta strandi74 – 76Combined sources3
    Beta strandi78 – 81Combined sources4
    Turni83 – 85Combined sources3
    Helixi88 – 91Combined sources4
    Helixi104 – 106Combined sources3
    Helixi109 – 114Combined sources6
    Beta strandi121 – 124Combined sources4
    Beta strandi127 – 132Combined sources6
    Helixi148 – 162Combined sources15
    Beta strandi167 – 172Combined sources6
    Helixi175 – 180Combined sources6
    Helixi185 – 195Combined sources11
    Beta strandi203 – 210Combined sources8
    Helixi212 – 220Combined sources9
    Helixi222 – 226Combined sources5
    Beta strandi231 – 236Combined sources6
    Helixi239 – 241Combined sources3
    Beta strandi245 – 247Combined sources3
    Beta strandi253 – 255Combined sources3
    Helixi259 – 262Combined sources4
    Helixi266 – 270Combined sources5
    Turni271 – 273Combined sources3
    Beta strandi275 – 280Combined sources6
    Helixi281 – 283Combined sources3
    Helixi299 – 305Combined sources7
    Helixi327 – 335Combined sources9
    Beta strandi341 – 346Combined sources6
    Helixi348 – 355Combined sources8

    3D structure databases

    Select the link destinations:
    PDBei
    RCSB PDBi
    PDBji
    Links Updated
    PDB entryMethodResolution (Å)ChainPositionsPDBsum
    1T8QX-ray2.00A/B/C/D25-358[»]
    1YDYX-ray1.70A/B1-356[»]
    ProteinModelPortaliP09394
    SMRiP09394
    ModBaseiSearch...
    MobiDBiSearch...

    Miscellaneous databases

    EvolutionaryTraceiP09394

    Family & Domainsi

    Domains and Repeats

    Feature keyPosition(s)DescriptionActionsGraphical viewLength
    Domaini31 – 355GP-PDEAdd BLAST325

    Sequence similaritiesi

    Keywords - Domaini

    Signal

    Phylogenomic databases

    eggNOGiENOG4106MZZ Bacteria
    COG0584 LUCA
    HOGENOMiHOG000004696
    InParanoidiP09394
    KOiK01126
    OMAiGRFYAID
    PhylomeDBiP09394

    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.

    Sequence processingi: The displayed sequence is further processed into a mature form.

    P09394-1 [UniParc]FASTAAdd to basket

    « Hide

            10         20         30         40         50
    MKLTLKNLSM AIMMSTIVMG SSAMAADSNE KIVIAHRGAS GYLPEHTLPA
    60 70 80 90 100
    KAMAYAQGAD YLEQDLVMTK DDNLVVLHDH YLDRVTDVAD RFPDRARKDG
    110 120 130 140 150
    RYYAIDFTLD EIKSLKFTEG FDIENGKKVQ TYPGRFPMGK SDFRVHTFEE
    160 170 180 190 200
    EIEFVQGLNH STGKNIGIYP EIKAPWFHHQ EGKDIAAKTL EVLKKYGYTG
    210 220 230 240 250
    KDDKVYLQCF DADELKRIKN ELEPKMGMEL NLVQLIAYTD WNETQQKQPD
    260 270 280 290 300
    GSWVNYNYDW MFKPGAMKQV AEYADGIGPD YHMLIEETSQ PGNIKLTGMV
    310 320 330 340 350
    QDAQQNKLVV HPYTVRSDKL PEYTPDVNQL YDALYNKAGV NGLFTDFPDK

    AVKFLNKE
    Length:358
    Mass (Da):40,843
    Last modified:November 1, 1991 - v2
    Checksum:iB08FD27399641616
    GO

    Experimental Info

    Feature keyPosition(s)DescriptionActionsGraphical viewLength
    Sequence conflicti27D → I AA sequence (PubMed:8899705).Curated1

    Sequence databases

    Select the link destinations:
    EMBLi
    GenBanki
    DDBJi
    Links Updated
    X56907 Genomic DNA Translation: CAA40223.1
    U00096 Genomic DNA Translation: AAC75299.1
    AP009048 Genomic DNA Translation: BAA16058.1
    Y00536 Genomic DNA Translation: CAA68599.1
    PIRiS15945
    RefSeqiNP_416742.1, NC_000913.3
    WP_000779105.1, NZ_LN832404.1

    Genome annotation databases

    EnsemblBacteriaiAAC75299; AAC75299; b2239
    BAA16058; BAA16058; BAA16058
    GeneIDi946725
    KEGGiecj:JW2233
    eco:b2239
    PATRICifig|511145.12.peg.2328

    Similar proteinsi

    Entry informationi

    Entry nameiGLPQ_ECOLI
    AccessioniPrimary (citable) accession number: P09394
    Entry historyiIntegrated into UniProtKB/Swiss-Prot: July 1, 1989
    Last sequence update: November 1, 1991
    Last modified: March 28, 2018
    This is version 153 of the entry and version 2 of the sequence. See complete history.
    Entry statusiReviewed (UniProtKB/Swiss-Prot)
    Annotation programProkaryotic Protein Annotation Program

    Miscellaneousi

    Keywords - Technical termi

    3D-structure, Complete proteome, Direct protein sequencing, Reference proteome

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