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Glycerophosphodiester phosphodiesterase 1 (EC 3.1.4.44) (Membrane-interacting protein of RGS16) (RGS16-interacting membrane protein)

 GDE1_HUMAN              Reviewed;         331 AA.
Q9NZC3; O43334; Q6PKF7; Q7KYR4;
03-OCT-2006, integrated into UniProtKB/Swiss-Prot.
01-OCT-2000, sequence version 1.
25-OCT-2017, entry version 125.
RecName: Full=Glycerophosphodiester phosphodiesterase 1;
EC=3.1.4.- {ECO:0007001|UniProtKB:Q9JL56};
EC=3.1.4.44 {ECO:0007001|UniProtKB:Q9JL55};
AltName: Full=Membrane-interacting protein of RGS16;
AltName: Full=RGS16-interacting membrane protein;
Name=GDE1; Synonyms=MIR16;
Homo sapiens (Human).
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi;
Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini;
Catarrhini; Hominidae; Homo.
NCBI_TaxID=9606;
[1]
NUCLEOTIDE SEQUENCE [MRNA], AND TISSUE SPECIFICITY.
PubMed=10760272; DOI=10.1073/pnas.97.8.3999;
Zheng B., Chen D., Farquhar M.G.;
"MIR16, a putative membrane glycerophosphodiester phosphodiesterase,
interacts with RGS16.";
Proc. Natl. Acad. Sci. U.S.A. 97:3999-4004(2000).
[2]
NUCLEOTIDE SEQUENCE [MRNA].
TISSUE=Brain;
Duennebier F.F., Bachmann A.S.;
"The role of GDE1/MIR16 in G protein-coupled receptor signaling.";
Submitted (NOV-2003) to the EMBL/GenBank/DDBJ databases.
[3]
NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
PubMed=10493829; DOI=10.1006/geno.1999.5927;
Loftus B.J., Kim U.-J., Sneddon V.P., Kalush F., Brandon R.,
Fuhrmann J., Mason T., Crosby M.L., Barnstead M., Cronin L.,
Mays A.D., Cao Y., Xu R.X., Kang H.-L., Mitchell S., Eichler E.E.,
Harris P.C., Venter J.C., Adams M.D.;
"Genome duplications and other features in 12 Mb of DNA sequence from
human chromosome 16p and 16q.";
Genomics 60:295-308(1999).
[4]
NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
TISSUE=B-cell, Brain, Colon, and Kidney;
PubMed=15489334; DOI=10.1101/gr.2596504;
The MGC Project Team;
"The status, quality, and expansion of the NIH full-length cDNA
project: the Mammalian Gene Collection (MGC).";
Genome Res. 14:2121-2127(2004).
[5]
3D-STRUCTURE MODELING, AND INTERACTION WITH PRAF2.
PubMed=16472945; DOI=10.1016/j.gene.2005.11.023;
Bachmann A.S., Duennebier F.F., Mocz G.;
"Genomic organization, characterization, and molecular 3D model of
GDE1, a novel mammalian glycerophosphoinositol phosphodiesterase.";
Gene 371:144-153(2006).
-!- FUNCTION: Has glycerophosphoinositol phosphodiesterase activity.
Hydrolyzes lysoglycerophospholipids to produce lysophosphatidic
acid (LPA) and the corresponding amines. Has little or no activity
towards glycerophosphocholine. GDE1 activity can be modulated by
G-protein signaling pathways (By similarity).
{ECO:0007001|UniProtKB:Q9JL55, ECO:0007001|UniProtKB:Q9JL56}.
-!- CATALYTIC ACTIVITY: 1-(sn-glycero-3-phospho)-1D-myo-inositol +
H(2)O = myo-inositol + sn-glycerol 3-phosphate.
{ECO:0007001|UniProtKB:Q9JL55}.
-!- CATALYTIC ACTIVITY: N-acyl-sn-glycero-3-phosphoethanolamine +
H(2)O = N-acylethanolamine + sn-glycerol 3-phosphate.
{ECO:0007001|UniProtKB:Q9JL56}.
-!- CATALYTIC ACTIVITY: 1-O-(alk-1Z-enyl)-sn-glycero-3-phospho-(N-
acyl)-ethanolamine + H(2)O = 1-O-(1Z-alkenyl)-sn-glycero-3-
phosphate + N-acylethanolamine. {ECO:0007001|UniProtKB:Q9JL56}.
-!- COFACTOR:
Name=Mg(2+); Xref=ChEBI:CHEBI:18420;
Evidence={ECO:0007001|UniProtKB:Q9JL55};
-!- SUBUNIT: Interacts with PRAF2 (PubMed:16472945). Interacts with
RGS16 (By similarity). {ECO:0000269|PubMed:16472945,
ECO:0007001|UniProtKB:Q9JL55}.
-!- SUBCELLULAR LOCATION: Cell membrane
{ECO:0007001|UniProtKB:Q9JL55}; Multi-pass membrane protein
{ECO:0000270}. Cytoplasmic vesicle membrane
{ECO:0007001|UniProtKB:Q9JL55}; Multi-pass membrane protein
{ECO:0000270}. Note=Perinuclear vesicles and cell membrane.
{ECO:0007001|UniProtKB:Q9JL55}.
-!- TISSUE SPECIFICITY: Widely expressed.
{ECO:0000269|PubMed:10760272}.
-!- PTM: N-glycosylated. {ECO:0007001|UniProtKB:Q9JL55}.
-!- SIMILARITY: Belongs to the glycerophosphoryl diester
phosphodiesterase family. {ECO:0000320}.
-!- SEQUENCE CAUTION:
Sequence=AAC05440.1; Type=Erroneous gene model prediction; Evidence={ECO:0000320};
Sequence=AAC05803.1; Type=Erroneous gene model prediction; Evidence={ECO:0000320};
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EMBL; AF212862; AAF65234.1; -; mRNA.
EMBL; AY463154; AAR25624.1; -; mRNA.
EMBL; U91321; AAC05440.1; ALT_SEQ; Genomic_DNA.
EMBL; AC003108; AAC05803.1; ALT_SEQ; Genomic_DNA.
EMBL; BC014981; AAH14981.1; -; mRNA.
EMBL; BC025273; AAH25273.1; -; mRNA.
CCDS; CCDS10578.1; -.
PIR; T01371; T01371.
RefSeq; NP_057725.1; NM_016641.3.
UniGene; Hs.512607; -.
ProteinModelPortal; Q9NZC3; -.
SMR; Q9NZC3; -.
BioGrid; 119618; 21.
IntAct; Q9NZC3; 3.
STRING; 9606.ENSP00000261386; -.
iPTMnet; Q9NZC3; -.
PhosphoSitePlus; Q9NZC3; -.
BioMuta; GDE1; -.
DMDM; 74734724; -.
EPD; Q9NZC3; -.
MaxQB; Q9NZC3; -.
PaxDb; Q9NZC3; -.
PeptideAtlas; Q9NZC3; -.
PRIDE; Q9NZC3; -.
DNASU; 51573; -.
Ensembl; ENST00000353258; ENSP00000261386; ENSG00000006007.
GeneID; 51573; -.
KEGG; hsa:51573; -.
UCSC; uc002dgh.4; human.
CTD; 51573; -.
DisGeNET; 51573; -.
EuPathDB; HostDB:ENSG00000006007.11; -.
GeneCards; GDE1; -.
HGNC; HGNC:29644; GDE1.
HPA; HPA074747; -.
MIM; 605943; gene.
neXtProt; NX_Q9NZC3; -.
OpenTargets; ENSG00000006007; -.
PharmGKB; PA162389327; -.
eggNOG; KOG2258; Eukaryota.
eggNOG; COG0584; LUCA.
GeneTree; ENSGT00510000047820; -.
HOGENOM; HOG000006722; -.
HOVERGEN; HBG052946; -.
InParanoid; Q9NZC3; -.
KO; K19179; -.
OMA; RSPFNAC; -.
OrthoDB; EOG091G0ALO; -.
PhylomeDB; Q9NZC3; -.
TreeFam; TF313692; -.
BRENDA; 3.1.4.44; 2681.
Reactome; R-HSA-6814848; Glycerophospholipid catabolism.
ChiTaRS; GDE1; human.
GenomeRNAi; 51573; -.
PRO; PR:Q9NZC3; -.
Proteomes; UP000005640; Chromosome 16.
Bgee; ENSG00000006007; -.
CleanEx; HS_GDE1; -.
ExpressionAtlas; Q9NZC3; baseline and differential.
Genevisible; Q9NZC3; HS.
GO; GO:0030659; C:cytoplasmic vesicle membrane; RCA:UniProtKB-SubCell.
GO; GO:0016021; C:integral component of membrane; IBA:UniProtKB.
GO; GO:0005886; C:plasma membrane; IBA:Reactome.
GO; GO:0008889; F:glycerophosphodiester phosphodiesterase activity; IBA:UniProtKB.
GO; GO:0047395; F:glycerophosphoinositol glycerophosphodiesterase activity; IBA:Reactome.
GO; GO:0004622; F:lysophospholipase activity; HMP:UniProtKB.
GO; GO:0046872; F:metal ion binding; RCA:UniProtKB-KW.
GO; GO:0046475; P:glycerophospholipid catabolic process; IBA:Reactome.
GO; GO:0006629; P:lipid metabolic process; IBA:UniProtKB.
GO; GO:0070291; P:N-acylethanolamine metabolic process; HMP:UniProtKB.
GO; GO:0006644; P:phospholipid metabolic process; HMP:UniProtKB.
Gene3D; 3.20.20.190; -; 1.
InterPro; IPR004129; GlyceroP-diester-Pdiesterase.
InterPro; IPR030395; GP_PDE_dom.
InterPro; IPR017946; PLC-like_Pdiesterase_TIM-brl.
PANTHER; PTHR23344; PTHR23344; 1.
Pfam; PF03009; GDPD; 1.
SUPFAM; SSF51695; SSF51695; 1.
PROSITE; PS51704; GP_PDE; 1.
1: Evidence at protein level;
Cell membrane; Complete proteome; Cytoplasmic vesicle; Glycoprotein;
Hydrolase; Magnesium; Membrane; Metal-binding; Polymorphism;
Reference proteome; Transmembrane; Transmembrane helix.
CHAIN 1 331 Glycerophosphodiester phosphodiesterase
1.
/FTId=PRO_0000251944.
TOPO_DOM 1 3 Cytoplasmic. {ECO:0000270}.
TRANSMEM 4 24 Helical. {ECO:0000270}.
TOPO_DOM 25 247 Lumenal. {ECO:0000270}.
TRANSMEM 248 268 Helical. {ECO:0000270}.
TOPO_DOM 269 331 Cytoplasmic. {ECO:0000270}.
DOMAIN 65 331 GP-PDE.
METAL 97 97 Magnesium. {ECO:0000270}.
METAL 99 99 Magnesium. {ECO:0000270}.
METAL 174 174 Magnesium. {ECO:0000270}.
CARBOHYD 168 168 N-linked (GlcNAc...) asparagine.
{ECO:0000270}.
CARBOHYD 198 198 N-linked (GlcNAc...) asparagine.
{ECO:0000270}.
VARIANT 218 218 R -> Q (in dbSNP:rs2072086).
/FTId=VAR_044018.
VARIANT 328 328 E -> K (in dbSNP:rs34137361).
/FTId=VAR_044019.
SEQUENCE 331 AA; 37718 MW; EFE567E71DBD4AC5 CRC64;
MWLWEDQGGL LGPFSFLLLV LLLVTRSPVN ACLLTGSLFV LLRVFSFEPV PSCRALQVLK
PRDRISAIAH RGGSHDAPEN TLAAIRQAAK NGATGVELDI EFTSDGIPVL MHDNTVDRTT
DGTGRLCDLT FEQIRKLNPA ANHRLRNDFP DEKIPTLREA VAECLNHNLT IFFDVKGHAH
KATEALKKMY MEFPQLYNNS VVCSFLPEVI YKMRQTDRDV ITALTHRPWS LSHTGDGKPR
YDTFWKHFIF VMMDILLDWS MHNILWYLCG ISAFLMQKDF VSPAYLKKWS AKGIQVVGWT
VNTFDEKSYY ESHLGSSYIT DSMVEDCEPH F


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