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Protein

Glycerophosphodiester phosphodiesterase 1

Gene

Gde1

Organism
Rattus norvegicus (Rat)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at protein leveli

Functioni

Has glycerophosphoinositol phosphodiesterase activity. Has little or no activity towards glycerophosphocholine. GDE1 activity can be modulated by G-protein signaling pathways.1 Publication

Catalytic activityi

1-(sn-glycero-3-phospho)-1D-myo-inositol + H2O = myo-inositol + sn-glycerol 3-phosphate.

Cofactori

Mg2+1 Publication

Kineticsi

Measured in the presence of 10 mM magnesium chloride at 37 degrees Celsius.

  1. KM=12 mM for glycerophosphoinositol1 Publication
  1. Vmax=3000 pmol/min/mg enzyme1 Publication

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Metal bindingi97 – 971MagnesiumSequence analysis
Metal bindingi99 – 991MagnesiumSequence analysis
Metal bindingi174 – 1741MagnesiumSequence analysis

GO - Molecular functioni

GO - Biological processi

  • G-protein coupled receptor signaling pathway Source: RGD
  • lipid metabolic process Source: InterPro
Complete GO annotation...

Keywords - Molecular functioni

Hydrolase

Keywords - Ligandi

Magnesium, Metal-binding

Enzyme and pathway databases

SABIO-RKQ9JL55.

Names & Taxonomyi

Protein namesi
Recommended name:
Glycerophosphodiester phosphodiesterase 1 (EC:3.1.4.44)
Alternative name(s):
Membrane-interacting protein of RGS16
Gene namesi
Name:Gde1
Synonyms:Mir16
OrganismiRattus norvegicus (Rat)
Taxonomic identifieri10116 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaSciurognathiMuroideaMuridaeMurinaeRattus
Proteomesi
  • UP000002494 Componenti: Unplaced

Organism-specific databases

RGDi621788. Gde1.

Subcellular locationi

Topology

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Topological domaini1 – 33CytoplasmicSequence analysis
Transmembranei4 – 2421HelicalSequence analysisAdd
BLAST
Topological domaini25 – 248224LumenalSequence analysisAdd
BLAST
Transmembranei249 – 26921HelicalSequence analysisAdd
BLAST
Topological domaini270 – 33162CytoplasmicSequence analysisAdd
BLAST

GO - Cellular componenti

  • cytoplasmic vesicle membrane Source: UniProtKB-SubCell
  • integral component of membrane Source: RGD
  • plasma membrane Source: UniProtKB-SubCell
Complete GO annotation...

Keywords - Cellular componenti

Cell membrane, Cytoplasmic vesicle, Membrane

Pathology & Biotechi

Mutagenesis

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Mutagenesisi97 – 971E → A: Strongly reduced activity; when associated with A-99. 1 Publication
Mutagenesisi99 – 991D → A: Strongly reduced activity; when associated with A-97. 1 Publication
Mutagenesisi112 – 1121H → A: Loss of activity. 1 Publication

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 331331Glycerophosphodiester phosphodiesterase 1PRO_0000251946Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Glycosylationi168 – 1681N-linked (GlcNAc...)Sequence analysis

Post-translational modificationi

N-glycosylated.1 Publication

Keywords - PTMi

Glycoprotein

Proteomic databases

PaxDbiQ9JL55.
PRIDEiQ9JL55.

Expressioni

Tissue specificityi

Detected in heart, brain, lung, liver, skeletal muscle, kidney, pituitary and testis.1 Publication

Gene expression databases

BgeeiENSRNOG00000050445.

Interactioni

Subunit structurei

Interacts with PRAF2 (By similarity). Interacts with RGS16.By similarity1 Publication

Protein-protein interaction databases

STRINGi10116.ENSRNOP00000064735.

Structurei

3D structure databases

ProteinModelPortaliQ9JL55.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini65 – 331267GP-PDEAdd
BLAST

Sequence similaritiesi

Contains 1 GP-PDE domain.Curated

Keywords - Domaini

Transmembrane, Transmembrane helix

Phylogenomic databases

eggNOGiKOG2258. Eukaryota.
COG0584. LUCA.
HOVERGENiHBG052946.
InParanoidiQ9JL55.
KOiK19179.
PhylomeDBiQ9JL55.

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.

Q9JL55-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MWLWEDQGGL LGPFSFVLVL LLVVTRSPFN ACVLTGSLYL LLRFFSFEPV
60 70 80 90 100
PSRRALQVLK PRDRVSAIAH RGGSHDAPEN TLAAIRQAAK NGATGVELDI
110 120 130 140 150
EFTSDGVPVL MHDNTVDRTT DGSGRLCDLT FEQVRKLNPA ANHRLRNEFP
160 170 180 190 200
DERIPTLREA VTECLCHNLT IFFDVKGHAD MASAALKNIY MEFPQLYNNS
210 220 230 240 250
MVCSFLPEVI YKMRQTDQKV ITALTHRPWS LSHTGDGKPR YSVFWKQSVF
260 270 280 290 300
VVLDILLDWS MHNVLWYLCG ISAFLMQKDF VSPDYLKKWS AKGIQVVSWT
310 320 330
VNTFDEKNYY ESHLGSSYIT DSMLEDCAPH F
Length:331
Mass (Da):37,634
Last modified:October 3, 2006 - v2
Checksum:iD946067B5768035F
GO

Experimental Info

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti326 – 3261D → N in AAF65233 (PubMed:10760272).Curated

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF212861 mRNA. Translation: AAF65233.1.
BC070897 mRNA. Translation: AAH70897.1.
RefSeqiNP_116004.2. NM_032615.2.
UniGeneiRn.170542.

Genome annotation databases

GeneIDi60418.
KEGGirno:60418.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF212861 mRNA. Translation: AAF65233.1.
BC070897 mRNA. Translation: AAH70897.1.
RefSeqiNP_116004.2. NM_032615.2.
UniGeneiRn.170542.

3D structure databases

ProteinModelPortaliQ9JL55.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi10116.ENSRNOP00000064735.

Proteomic databases

PaxDbiQ9JL55.
PRIDEiQ9JL55.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

GeneIDi60418.
KEGGirno:60418.

Organism-specific databases

CTDi51573.
RGDi621788. Gde1.

Phylogenomic databases

eggNOGiKOG2258. Eukaryota.
COG0584. LUCA.
HOVERGENiHBG052946.
InParanoidiQ9JL55.
KOiK19179.
PhylomeDBiQ9JL55.

Enzyme and pathway databases

SABIO-RKQ9JL55.

Miscellaneous databases

PROiQ9JL55.

Gene expression databases

BgeeiENSRNOG00000050445.

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...

Entry informationi

Entry nameiGDE1_RAT
AccessioniPrimary (citable) accession number: Q9JL55
Secondary accession number(s): Q6IRJ6
Entry historyi
Integrated into UniProtKB/Swiss-Prot: October 3, 2006
Last sequence update: October 3, 2006
Last modified: September 7, 2016
This is version 73 of the entry and version 2 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. 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.