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Protein

Glycerophosphoryl diester phosphodiesterase

Gene

ugpQ

Organism
Escherichia coli (strain K12)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at protein leveli

Functioni

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

Catalytic activityi

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

Cofactori

Mg2+1 Publication, Co2+1 Publication, Mn2+1 Publication

Kineticsi

  1. KM=0.22 mM for glycerophosphoethanolamine1 Publication
  2. KM=0.66 mM for glycerophosphoserine1 Publication
  3. KM=0.62 mM for glycerophosphoglycerol1 Publication
  4. KM=0.39 mM for glycerophosphoinositol1 Publication
  5. KM=2.0 mM for glycerophosphocholine1 Publication

    pH dependencei

    Optimum pH is 7.5.1 Publication

    GO - Molecular functioni

    • glycerophosphocholine phosphodiesterase activity Source: EcoCyc
    • glycerophosphodiester phosphodiesterase activity Source: EcoCyc
    • glycerophosphoinositol glycerophosphodiesterase activity Source: EcoCyc
    • magnesium ion binding Source: EcoCyc

    GO - Biological processi

    Complete GO annotation...

    Keywords - Molecular functioni

    Hydrolase

    Keywords - Biological processi

    Glycerol metabolism

    Keywords - Ligandi

    Magnesium, Metal-binding

    Enzyme and pathway databases

    BioCyciEcoCyc:GLYCPDIESTER-CYTO-MONOMER.
    ECOL316407:JW3414-MONOMER.
    MetaCyc:GLYCPDIESTER-CYTO-MONOMER.
    BRENDAi3.1.4.46. 2026.

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    Glycerophosphoryl diester phosphodiesterase (EC:3.1.4.46)
    Short name:
    Glycerophosphodiester phosphodiesterase
    Gene namesi
    Name:ugpQ
    Ordered Locus Names:b3449, JW3414
    OrganismiEscherichia coli (strain K12)
    Taxonomic identifieri83333 [NCBI]
    Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaEnterobacterialesEnterobacteriaceaeEscherichia
    Proteomesi
    • UP000000318 Componenti: Chromosome
    • UP000000625 Componenti: Chromosome

    Organism-specific databases

    EcoGeneiEG11050. ugpQ.

    Subcellular locationi

    GO - Cellular componenti

    Complete GO annotation...

    Keywords - Cellular componenti

    Cytoplasm

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Chaini1 – 247247Glycerophosphoryl diester phosphodiesterasePRO_0000200574Add
    BLAST

    Proteomic databases

    EPDiP10908.
    PaxDbiP10908.
    PRIDEiP10908.

    Expressioni

    Inductioni

    Up-regulated by low levels of phosphate in the medium.1 Publication

    Interactioni

    Protein-protein interaction databases

    BioGridi4261665. 10 interactions.
    IntActiP10908. 10 interactions.
    STRINGi511145.b3449.

    Structurei

    3D structure databases

    ProteinModelPortaliP10908.
    SMRiP10908. Positions 2-246.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Domains and Repeats

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Domaini7 – 244238GP-PDEAdd
    BLAST

    Sequence similaritiesi

    Contains 1 GP-PDE domain.Curated

    Phylogenomic databases

    eggNOGiENOG4107T6V. Bacteria.
    COG0584. LUCA.
    HOGENOMiHOG000004697.
    InParanoidiP10908.
    KOiK01126.
    OMAiCAQYGMA.
    OrthoDBiEOG6ZKXQR.
    PhylomeDBiP10908.

    Family and domain databases

    Gene3Di3.20.20.190. 1 hit.
    InterProiIPR004129. GlyceroP-diester-Pdiesterase.
    IPR030395. GP_PDE_dom.
    IPR017946. PLC-like_Pdiesterase_TIM-brl.
    [Graphical view]
    PANTHERiPTHR23344. PTHR23344. 1 hit.
    PfamiPF03009. GDPD. 1 hit.
    [Graphical view]
    SUPFAMiSSF51695. SSF51695. 1 hit.
    PROSITEiPS51704. GP_PDE. 1 hit.
    [Graphical view]

    Sequencei

    Sequence statusi: Complete.

    P10908-1 [UniParc]FASTAAdd to basket

    « Hide

            10         20         30         40         50
    MSNWPYPRIV AHRGGGKLAP ENTLASIDVG AKYGHKMIEF DAKLSKDGEI
    60 70 80 90 100
    FLLHDDNLER TSNGWGVAGE LNWQDLLRVD AGSWYSKMFK GEPLPLLSQV
    110 120 130 140 150
    AERCREHGMM ANIEIKPTTG TGPLTGKMVA LAARELWAGM TPPLLSSFEI
    160 170 180 190 200
    DALEAAQQAA PELPRGLLLD EWRDDWRELT ARLGCVSIHL NHKLLNKARV
    210 220 230 240
    MQLKDAGLRI LVYTVNKPQR AAELLRWGVD CICTDAIDVI GPNFTAQ
    Length:247
    Mass (Da):27,410
    Last modified:July 1, 1989 - v1
    Checksum:iFF5EBFB4C6D7CC0D
    GO

    Sequence databases

    Select the link destinations:
    EMBLi
    GenBanki
    DDBJi
    Links Updated
    X14437 Genomic DNA. Translation: CAA32609.1.
    X13141 Genomic DNA. Translation: CAA31535.1.
    X56908 Genomic DNA. Translation: CAA40224.1.
    U00039 Genomic DNA. Translation: AAB18424.1.
    U00096 Genomic DNA. Translation: AAC76474.1.
    AP009048 Genomic DNA. Translation: BAE77844.1.
    PIRiJV0024. ESECGD.
    RefSeqiNP_417906.1. NC_000913.3.
    WP_000073623.1. NZ_LN832404.1.

    Genome annotation databases

    EnsemblBacteriaiAAC76474; AAC76474; b3449.
    BAE77844; BAE77844; BAE77844.
    GeneIDi947955.
    KEGGiecj:JW3414.
    eco:b3449.
    PATRICi32122338. VBIEscCol129921_3546.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBLi
    GenBanki
    DDBJi
    Links Updated
    X14437 Genomic DNA. Translation: CAA32609.1.
    X13141 Genomic DNA. Translation: CAA31535.1.
    X56908 Genomic DNA. Translation: CAA40224.1.
    U00039 Genomic DNA. Translation: AAB18424.1.
    U00096 Genomic DNA. Translation: AAC76474.1.
    AP009048 Genomic DNA. Translation: BAE77844.1.
    PIRiJV0024. ESECGD.
    RefSeqiNP_417906.1. NC_000913.3.
    WP_000073623.1. NZ_LN832404.1.

    3D structure databases

    ProteinModelPortaliP10908.
    SMRiP10908. Positions 2-246.
    ModBaseiSearch...
    MobiDBiSearch...

    Protein-protein interaction databases

    BioGridi4261665. 10 interactions.
    IntActiP10908. 10 interactions.
    STRINGi511145.b3449.

    Proteomic databases

    EPDiP10908.
    PaxDbiP10908.
    PRIDEiP10908.

    Protocols and materials databases

    DNASUi947955.
    Structural Biology KnowledgebaseSearch...

    Genome annotation databases

    EnsemblBacteriaiAAC76474; AAC76474; b3449.
    BAE77844; BAE77844; BAE77844.
    GeneIDi947955.
    KEGGiecj:JW3414.
    eco:b3449.
    PATRICi32122338. VBIEscCol129921_3546.

    Organism-specific databases

    EchoBASEiEB1043.
    EcoGeneiEG11050. ugpQ.

    Phylogenomic databases

    eggNOGiENOG4107T6V. Bacteria.
    COG0584. LUCA.
    HOGENOMiHOG000004697.
    InParanoidiP10908.
    KOiK01126.
    OMAiCAQYGMA.
    OrthoDBiEOG6ZKXQR.
    PhylomeDBiP10908.

    Enzyme and pathway databases

    BioCyciEcoCyc:GLYCPDIESTER-CYTO-MONOMER.
    ECOL316407:JW3414-MONOMER.
    MetaCyc:GLYCPDIESTER-CYTO-MONOMER.
    BRENDAi3.1.4.46. 2026.

    Miscellaneous databases

    PROiP10908.

    Family and domain databases

    Gene3Di3.20.20.190. 1 hit.
    InterProiIPR004129. GlyceroP-diester-Pdiesterase.
    IPR030395. GP_PDE_dom.
    IPR017946. PLC-like_Pdiesterase_TIM-brl.
    [Graphical view]
    PANTHERiPTHR23344. PTHR23344. 1 hit.
    PfamiPF03009. GDPD. 1 hit.
    [Graphical view]
    SUPFAMiSSF51695. SSF51695. 1 hit.
    PROSITEiPS51704. GP_PDE. 1 hit.
    [Graphical view]
    ProtoNetiSearch...

    Publicationsi

    « Hide 'large scale' publications
    1. "Nucleotide sequence of the ugpQ gene encoding glycerophosphoryl diester phosphodiesterase of Escherichia coli K-12."
      Kasahara M., Makino K., Amemura M., Nakata A.
      Nucleic Acids Res. 17:2854-2854(1989) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
      Strain: K12.
    2. "Characterization of two genes, glpQ and ugpQ, encoding glycerophosphoryl diester phosphodiesterases of Escherichia coli."
      Tommassen J., Eiglmeier K., Cole S.T., Overduin P., Larson T.J., Boos W.
      Mol. Gen. Genet. 226:321-327(1991) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
    3. "Analysis of the Escherichia coli genome. V. DNA sequence of the region from 76.0 to 81.5 minutes."
      Sofia H.J., Burland V., Daniels D.L., Plunkett G. III, Blattner F.R.
      Nucleic Acids Res. 22:2576-2586(1994) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: K12 / MG1655 / ATCC 47076.
    4. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: K12 / MG1655 / ATCC 47076.
    5. "Highly accurate genome sequences of Escherichia coli K-12 strains MG1655 and W3110."
      Hayashi K., Morooka N., Yamamoto Y., Fujita K., Isono K., Choi S., Ohtsubo E., Baba T., Wanner B.L., Mori H., Horiuchi T.
      Mol. Syst. Biol. 2:E1-E5(2006) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: K12 / W3110 / ATCC 27325 / DSM 5911.
    6. "Nucleotide sequence of the ugp genes of Escherichia coli K-12: homology to the maltose system."
      Overduin P., Boos W., Tommassen J.
      Mol. Microbiol. 2:767-775(1988) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA] OF 1-50.
      Strain: K12.
    7. "Escherichia coli cytosolic glycerophosphodiester phosphodiesterase (UgpQ) requires Mg2+, Co2+, or Mn2+ for its enzyme activity."
      Ohshima N., Yamashita S., Takahashi N., Kuroishi C., Shiro Y., Takio K.
      J. Bacteriol. 190:1219-1223(2008) [PubMed] [Europe PMC] [Abstract]
      Cited for: CATALYTIC ACTIVITY, COFACTOR, BIOPHYSICOCHEMICAL PROPERTIES, SUBCELLULAR LOCATION, INDUCTION.
      Strain: K12.

    Entry informationi

    Entry nameiUGPQ_ECOLI
    AccessioniPrimary (citable) accession number: P10908
    Secondary accession number(s): P22633, Q2M7B2
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: July 1, 1989
    Last sequence update: July 1, 1989
    Last modified: March 16, 2016
    This is version 125 of the entry and version 1 of the sequence. [Complete history]
    Entry statusiReviewed (UniProtKB/Swiss-Prot)
    Annotation programProkaryotic Protein Annotation Program

    Miscellaneousi

    Miscellaneous

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

    Keywords - Technical termi

    Complete proteome, Reference proteome

    Documents

    1. Escherichia coli
      Escherichia coli (strain K12): entries and cross-references to EcoGene
    2. 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.