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Protein

Lysophospholipase D GDPD3

Gene

GDPD3

Organism
Homo sapiens (Human)
Status
Reviewed-Annotation score: -Experimental evidence at transcript leveli

Functioni

Hydrolyzes lysoglycerophospholipids to produce lysophosphatidic acid (LPA) and the corresponding amines. Shows a preference for 1-O-alkyl-sn-glycero-3-phosphocholine (lyso-PAF) and lysophosphatidylcholine (lyso-PC), and to a lesser extent for lysophosphatidylethanolamine (lyso-PE). Does not display glycerophosphodiester phosphodiesterase activity, since it cannot hydrolyze either glycerophosphoinositol or glycerophosphocholine.By similarity

Catalytic activityi

1-acyl-sn-glycero-3-phosphoethanolamine + H2O = 1-acyl-sn-glycero-3-phosphate + ethanolamine.By similarity
1-acyl-sn-glycero-3-phosphocholine + H2O = 1-acyl-sn-glycero-3-phosphate + choline.By similarity
1-O-alkyl-sn-glycero-3-phosphocholine + H2O = 1-O-alkyl-sn-glycero-3-phosphate + choline.By similarity
1-hexadecanoyl-sn-glycero-3-phosphocholine + H2O = 1-hexadecanoyl-sn-glycero-3-phosphate + choline.By similarity

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Metal bindingi71Divalent metal cationSequence analysis1
Metal bindingi73Divalent metal cationSequence analysis1
Metal bindingi86Divalent metal cationSequence analysis1

GO - Molecular functioni

GO - Biological processi

Keywordsi

Molecular functionHydrolase
LigandMetal-binding

Enzyme and pathway databases

ReactomeiR-HSA-6814848 Glycerophospholipid catabolism

Chemistry databases

SwissLipidsiSLP:000001905

Names & Taxonomyi

Protein namesi
Recommended name:
Lysophospholipase D GDPD3Curated (EC:3.1.4.-By similarity)
Alternative name(s):
Glycerophosphodiester phosphodiesterase 7By similarity
Glycerophosphodiester phosphodiesterase domain-containing protein 3
Gene namesi
Name:GDPD3Imported
Synonyms:GDE7
OrganismiHomo sapiens (Human)
Taxonomic identifieri9606 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
Proteomesi
  • UP000005640 Componenti: Chromosome 16

Organism-specific databases

EuPathDBiHostDB:ENSG00000102886.14
HGNCiHGNC:28638 GDPD3
MIMi616318 gene
neXtProtiNX_Q7L5L3

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 – 2CytoplasmicSequence analysis2
Transmembranei3 – 23HelicalSequence analysisAdd BLAST21
Topological domaini24 – 198ExtracellularSequence analysisAdd BLAST175
Transmembranei199 – 221HelicalSequence analysisAdd BLAST23
Topological domaini222 – 318CytoplasmicSequence analysisAdd BLAST97

Keywords - Cellular componenti

Cytoplasm, Endoplasmic reticulum, Membrane

Pathology & Biotechi

Organism-specific databases

DisGeNETi79153
OpenTargetsiENSG00000102886
PharmGKBiPA142671741

Polymorphism and mutation databases

BioMutaiGDPD3
DMDMi226694188

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00002519361 – 318Lysophospholipase D GDPD3Add BLAST318

Proteomic databases

PaxDbiQ7L5L3
PeptideAtlasiQ7L5L3
PRIDEiQ7L5L3
ProteomicsDBi68809
68810 [Q7L5L3-1]

PTM databases

iPTMnetiQ7L5L3
PhosphoSitePlusiQ7L5L3

Expressioni

Gene expression databases

BgeeiENSG00000102886
CleanExiHS_GDPD3
ExpressionAtlasiQ7L5L3 baseline and differential
GenevisibleiQ7L5L3 HS

Organism-specific databases

HPAiHPA041148
HPA041470

Interactioni

Protein-protein interaction databases

BioGridi122571, 6 interactors
STRINGi9606.ENSP00000384363

Structurei

3D structure databases

ProteinModelPortaliQ7L5L3
SMRiQ7L5L3
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini39 – 308GP-PDEAdd BLAST270

Sequence similaritiesi

Keywords - Domaini

Transmembrane, Transmembrane helix

Phylogenomic databases

eggNOGiKOG2258 Eukaryota
COG0584 LUCA
GeneTreeiENSGT00510000046745
HOGENOMiHOG000008170
HOVERGENiHBG054611
InParanoidiQ7L5L3
KOiK22387
OMAiENTMEAM
OrthoDBiEOG091G0G89
PhylomeDBiQ7L5L3
TreeFamiTF328545

Family and domain databases

Gene3Di3.20.20.190, 2 hits
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

Sequences (2)i

Sequence statusi: Complete.

This entry describes 2 isoformsi produced by alternative splicing. AlignAdd to basket

Isoform 1 (identifier: Q7L5L3-2) [UniParc]FASTAAdd to basket

This isoform has been chosen as the 'canonical' sequence. All positional information in this entry refers to it. This is also the sequence that appears in the downloadable versions of the entry.

« Hide

        10         20         30         40         50
MSLLLYYALP ALGSYAMLSI FFLRRPHLLH TPRAPTFRIR LGAHRGGSGE
60 70 80 90 100
LLENTMEAME NSMAQRSDLL ELDCQLTRDR VVVVSHDENL CRQSGLNRDV
110 120 130 140 150
GSLDFEDLPL YKEKLEVYFS PGHFAHGSDR RMVRLEDLFQ RFPRTPMSVE
160 170 180 190 200
IKGKNEELIR EIAGLVRRYD RNEITIWASE KSSVMKKCKA ANPEMPLSFT
210 220 230 240 250
ISRGFWVLLS YYLGLLPFIP IPEKFFFCFL PNIINRTYFP FSCSCLNQLL
260 270 280 290 300
AVVSKWLIMR KSLIRHLEER GVQVVFWCLN EESDFEAAFS VGATGVITDY
310
PTALRHYLDN HGPAARTS
Length:318
Mass (Da):36,596
Last modified:April 14, 2009 - v3
Checksum:i4BD2FF25CF0CA22E
GO
Isoform 2 (identifier: Q7L5L3-1) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     1-62: Missing.

Show »
Length:256
Mass (Da):29,624
Checksum:i93D3C82D78A7F0CC
GO

Sequence cautioni

The sequence AAH02714 differs from that shown. Reason: Erroneous initiation.Curated

Alternative sequence

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Alternative sequenceiVSP_0368881 – 62Missing in isoform 2. 1 PublicationAdd BLAST62

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AK026256 mRNA Translation: BAB15414.1
AC012645 Genomic DNA No translation available.
BC002714 mRNA Translation: AAH02714.2 Different initiation.
CCDSiCCDS10671.2 [Q7L5L3-2]
RefSeqiNP_077283.2, NM_024307.2 [Q7L5L3-2]
UniGeneiHs.289015

Genome annotation databases

EnsembliENST00000406256; ENSP00000384363; ENSG00000102886 [Q7L5L3-2]
GeneIDi79153
KEGGihsa:79153
UCSCiuc002dwp.4 human [Q7L5L3-2]

Keywords - Coding sequence diversityi

Alternative splicing

Similar proteinsi

Entry informationi

Entry nameiGDPD3_HUMAN
AccessioniPrimary (citable) accession number: Q7L5L3
Secondary accession number(s): Q9H652
Entry historyiIntegrated into UniProtKB/Swiss-Prot: October 3, 2006
Last sequence update: April 14, 2009
Last modified: June 20, 2018
This is version 114 of the entry and version 3 of the sequence. See complete history.
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program
DisclaimerAny medical or genetic information present in this entry is provided for research, educational and informational purposes only. It is not in any way intended to be used as a substitute for professional medical advice, diagnosis, treatment or care.

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

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