GDPD3

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 key	Position(s)	DescriptionActions	Length
Metal bindingⁱ	71	Divalent metal cationSequence analysis	1
Metal bindingⁱ	73	Divalent metal cationSequence analysis	1
Metal bindingⁱ	86	Divalent metal cationSequence analysis	1

GO - Molecular functionⁱ

metal ion binding Source: UniProtKB-KW
phosphoric diester hydrolase activity Source: InterPro

View the complete GO annotation on QuickGO ...

GO - Biological processⁱ

phosphatidylcholine catabolic process Source: Ensembl

View the complete GO annotation on QuickGO ...

Keywordsⁱ

Molecular function	Hydrolase
Ligand	Metal-binding

Enzyme and pathway databases

Reactomeⁱ	R-HSA-6814848 Glycerophospholipid catabolism

Reactomeⁱ

R-HSA-6814848 Glycerophospholipid catabolism

Chemistry databases

SwissLipidsⁱ	SLP:000001905

SwissLipidsⁱ

SLP: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
Organismⁱ	Homo sapiens (Human)
Taxonomic identifierⁱ	9606 [NCBI]
Taxonomic lineageⁱ	cellular organisms › Eukaryota › Opisthokonta › Metazoa › Eumetazoa › Bilateria › Deuterostomia › Chordata › Craniata › Vertebrata › Gnathostomata › Teleostomi › Euteleostomi › Sarcopterygii › Dipnotetrapodomorpha › Tetrapoda › Amniota › Mammalia › Theria › Eutheria › Boreoeutheria › Euarchontoglires › Primates › Haplorrhini › Simiiformes › Catarrhini › Hominoidea › Hominidae › Homininae › Homo
Proteomesⁱ	UP000005640 Componentⁱ: Chromosome 16

Organism-specific databases

EuPathDBⁱ	HostDB:ENSG00000102886.14
Human Gene Nomenclature Database More...HGNCⁱ	HGNC:28638 GDPD3
MIMⁱ	616318 gene
neXtProtⁱ	NX_Q7L5L3

Topology

Feature key	Position(s)	DescriptionActions	Length
Topological domainⁱ	1 – 2	CytoplasmicSequence analysis	2
Transmembraneⁱ	3 – 23	HelicalSequence analysisAdd BLAST	21
Topological domainⁱ	24 – 198	ExtracellularSequence analysisAdd BLAST	175
Transmembraneⁱ	199 – 221	HelicalSequence analysisAdd BLAST	23
Topological domainⁱ	222 – 318	CytoplasmicSequence analysisAdd BLAST	97

Keywords - Cellular componentⁱ

Cytoplasm, Endoplasmic reticulum, Membrane

Pathology & Biotechⁱ

Organism-specific databases

DisGeNET More...DisGeNETⁱ	79153
Open Targets More...OpenTargetsⁱ	ENSG00000102886
PharmGKBⁱ	PA142671741

Polymorphism and mutation databases

BioMutaⁱ	GDPD3
DMDMⁱ	226694188

PTM / Processingⁱ

Molecule processing

Feature key	Position(s)	DescriptionActions	Graphical view	Length
ChainⁱPRO_0000251936	1 – 318	Lysophospholipase D GDPD3Add BLAST		318

Proteomic databases

EPDⁱ	Q7L5L3
PaxDbⁱ	Q7L5L3
PeptideAtlas More...PeptideAtlasⁱ	Q7L5L3
PRIDEⁱ	Q7L5L3
ProteomicsDBⁱ	68809 68810 [Q7L5L3-1]

PTM databases

iPTMnetⁱ	Q7L5L3
PhosphoSitePlusⁱ	Q7L5L3

Expressionⁱ

Gene expression databases

Bgeeⁱ	ENSG00000102886 Expressed in 177 organ(s), highest expression level in mucosa of transverse colon
CleanExⁱ	HS_GDPD3
ExpressionAtlasⁱ	Q7L5L3 baseline and differential
Genevisibleⁱ	Q7L5L3 HS

Organism-specific databases

Human Protein Atlas More...HPAⁱ	HPA041148 HPA041470

HPAⁱ

HPA041148
HPA041470

Interactionⁱ

Protein-protein interaction databases

BioGridⁱ	122571, 6 interactors
STRINGⁱ	9606.ENSP00000384363

Structureⁱ

3D structure databases

ProteinModelPortalⁱ	Q7L5L3
SMRⁱ	Q7L5L3
ModBaseⁱ	Search...
MobiDBⁱ	Search...

Family & Domainsⁱ

Domains and Repeats

Feature key	Position(s)	DescriptionActions	Graphical view	Length
Domainⁱ	39 – 308	GP-PDEAdd BLAST		270

Sequence similaritiesⁱ

Belongs to the glycerophosphoryl diester phosphodiesterase family.Curated

Keywords - Domainⁱ

Transmembrane, Transmembrane helix

Phylogenomic databases

eggNOGⁱ	KOG2258 Eukaryota COG0584 LUCA
Ensembl GeneTree More...GeneTreeⁱ	ENSGT00510000046745
HOGENOMⁱ	HOG000008170
HOVERGENⁱ	HBG054611
InParanoidⁱ	Q7L5L3
KEGG Orthology (KO) More...KOⁱ	K22387
OMAⁱ	ENTMEAM
Database of Orthologous Groups More...OrthoDBⁱ	EOG091G0G89
PhylomeDBⁱ	Q7L5L3
TreeFamⁱ	TF328545

Family and domain databases

Gene3Dⁱ	3.20.20.190, 2 hits
InterProⁱ	View protein in InterPro IPR030395 GP_PDE_dom IPR017946 PLC-like_Pdiesterase_TIM-brl
Pfam protein domain database More...Pfamⁱ	View protein in Pfam PF03009 GDPD, 1 hit
SUPFAMⁱ	SSF51695 SSF51695, 1 hit
PROSITEⁱ	View protein in PROSITE PS51704 GP_PDE, 1 hit

Sequences (2+)ⁱ

Sequence statusⁱ: Complete.

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

This entry has 2 described isoforms and 2 potential isoforms that are computationally mapped.ⁱShow all

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

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

« Hide

        10         20         30         40         50
MAQRSDLLEL DCQLTRDRVV VVSHDENLCR QSGLNRDVGS LDFEDLPLYK 
        60         70         80         90        100
EKLEVYFSPG HFAHGSDRRM VRLEDLFQRF PRTPMSVEIK GKNEELIREI 
       110        120        130        140        150
AGLVRRYDRN EITIWASEKS SVMKKCKAAN PEMPLSFTIS RGFWVLLSYY 
       160        170        180        190        200
LGLLPFIPIP EKFFFCFLPN IINRTYFPFS CSCLNQLLAV VSKWLIMRKS 
       210        220        230        240        250
LIRHLEERGV QVVFWCLNEE SDFEAAFSVG ATGVITDYPT ALRHYLDNHG 

PAARTS

Show »

Length:256

Mass (Da):29,624

Checksum:ⁱ93D3C82D78A7F0CC

GO

Computationally mapped potential isoform sequencesⁱ

There are 2 potential isoforms mapped to this entry.BLAST Align Show all Add to basket

	Entry	Entry name		Protein names	Gene names	Length	Annotation
	H3BMN9	H3BMN9_HUMAN		Lysophospholipase D GDPD3 Lysophospholipase D GDPD3	GDPD3	47	Annotation score:
	H3BPX3	H3BPX3_HUMAN		Lysophospholipase D GDPD3 Lysophospholipase D GDPD3	GDPD3	41	Annotation score:

Sequence cautionⁱ

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

Alternative sequence

Feature key	Position(s)	DescriptionActions	Graphical view	Length
Alternative sequenceⁱVSP_036888	1 – 62	Missing in isoform 2. 1 PublicationAdd BLAST		62

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.
The Consensus CDS (CCDS) project More...CCDSⁱ	CCDS10671.2 [Q7L5L3-2]
NCBI Reference Sequences More...RefSeqⁱ	NP_077283.2, NM_024307.2 [Q7L5L3-2]
UniGeneⁱ	Hs.289015

Genome annotation databases

Ensemblⁱ	ENST00000406256; ENSP00000384363; ENSG00000102886 [Q7L5L3-2]
GeneIDⁱ	79153
KEGGⁱ	hsa:79153
UCSC genome browser More...UCSCⁱ	uc002dwp.4 human [Q7L5L3-2]

Keywords - Coding sequence diversityⁱ

Alternative splicing

Similar proteinsⁱ

100% Identity
90% Identity
50% Identity

Protein	Similar proteins		Species	Score	Length	Source
Q7L5L3	Isoform 2 of Lysophospholipase D GDPD3		HUMAN		256	UniRef90_Q7L5L3
GDPD3 isoform 1		PANTR		318
Glycerophosphodiester phosphodiesterase domain containing 3		PANPA		318
GDPD3 isoform 1		PONAB		318
Glycerophosphodiester phosphodiesterase domain containing 3		GORGO		318
+4

Protein	Similar proteins		Species	Score	Length	Source
Q7L5L3	Isoform 2 of Lysophospholipase D GDPD3		HUMAN		256	UniRef50_Q7L5L3
GDPD3 isoform 1		PANTR		318
Glycerophosphodiester phosphodiesterase domain containing 3		PANPA		318
Glycerophosphodiester phosphodiesterase domain containing 3		GORGO		318
GDPD3 isoform 1		PONAB		318
+60

Entry informationⁱ

Entry nameⁱ	GDPD3_HUMAN
Accessionⁱ	Q7L5L3Primary (citable) accession number: Q7L5L3 Secondary accession number(s): Q9H652
Entry historyⁱ	Integrated into UniProtKB/Swiss-Prot:	October 3, 2006
	Last sequence update:	April 14, 2009
	Last modified:	September 12, 2018
	This is version 116 of the entry and version 3 of the sequence. See complete history.
Entry statusⁱ	Reviewed (UniProtKB/Swiss-Prot)
Annotation program	Chordata Protein Annotation Program
Disclaimer	Any 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

UniProtKB

UniParc

Help

UniRef

Proteomes

Annotation systems

Supporting data

UniProtKB - Q7L5L3 (GDPD3_HUMAN)

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Lysophospholipase D GDPD3

Select a section on the left to see content.

<p>This section provides any useful information about the protein, mostly biological knowledge.<p><a href='/help/function_section' target='_top'>More...</a></p>Functioni

Sites

<p>The <a href="http://www.geneontology.org/">Gene Ontology (GO)</a> project provides a set of hierarchical controlled vocabulary split into 3 categories:<p><a href='/help/gene_ontology' target='_top'>More...</a></p>GO - Molecular functioni

GO - Biological processi

Enzyme and pathway databases

Chemistry databases

<p>This section provides information about the protein and gene name(s) and synonym(s) and about the organism that is the source of the protein sequence.<p><a href='/help/names_and_taxonomy_section' target='_top'>More...</a></p>Names & Taxonomyi

Organism-specific databases

<p>This section provides information on the location and the topology of the mature protein in the cell.<p><a href='/help/subcellular_location_section' target='_top'>More...</a></p>Subcellular locationi

Endoplasmic reticulum

Other locations

Endoplasmic reticulum

Extracellular region or secreted

Other locations

Topology

Keywords - Cellular componenti

<p>This section provides information on the disease(s) and phenotype(s) associated with a protein.<p><a href='/help/pathology_and_biotech_section' target='_top'>More...</a></p>Pathology & Biotechi

Organism-specific databases

Polymorphism and mutation databases

<p>This section describes post-translational modifications (PTMs) and/or processing events.<p><a href='/help/ptm_processing_section' target='_top'>More...</a></p>PTM / Processingi

Molecule processing

Proteomic databases

PTM databases

<p>This section provides information on the expression of a gene at the mRNA or protein level in cells or in tissues of multicellular organisms.<p><a href='/help/expression_section' target='_top'>More...</a></p>Expressioni

Gene expression databases

Organism-specific databases

<p>This section provides information on the quaternary structure of a protein and on interaction(s) with other proteins or protein complexes.<p><a href='/help/interaction_section' target='_top'>More...</a></p>Interactioni

Protein-protein interaction databases

<p>This section provides information on the tertiary and secondary structure of a protein.<p><a href='/help/structure_section' target='_top'>More...</a></p>Structurei

3D structure databases

<p>This section provides information on sequence similarities with other proteins and the domain(s) present in a protein.<p><a href='/help/family_and_domains_section' target='_top'>More...</a></p>Family & Domainsi

Domains and Repeats

<p>This subsection of the ‘Family and domains’ section provides information about the sequence similarity with other proteins.<p><a href='/help/sequence_similarities' target='_top'>More...</a></p>Sequence similaritiesi

Keywords - Domaini

Phylogenomic databases

Family and domain databases

Computationally mapped potential isoform sequencesi

<p>This subsection of the ‘Sequence’ section reports difference(s) between the protein sequence shown in the UniProtKB entry and other available protein sequences derived from the same gene.<p><a href='/help/sequence_caution' target='_top'>More...</a></p>Sequence cautioni

Alternative sequence

Sequence databases

Genome annotation databases

Keywords - Coding sequence diversityi

<p>This section provides general information on the entry.<p><a href='/help/entry_information_section' target='_top'>More...</a></p>Entry informationi

<p>This section contains any relevant information that doesn’t fit in any other defined sections<p><a href='/help/miscellaneous_section' target='_top'>More...</a></p>Miscellaneousi

Keywords - Technical termi

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Functionⁱ

GO - Molecular functionⁱ

GO - Biological processⁱ

Names & Taxonomyⁱ

Subcellular locationⁱ

Keywords - Cellular componentⁱ

Pathology & Biotechⁱ

PTM / Processingⁱ

Expressionⁱ

Interactionⁱ

Structureⁱ

Family & Domainsⁱ

Sequence similaritiesⁱ

Keywords - Domainⁱ

Computationally mapped potential isoform sequencesⁱ

Sequence cautionⁱ

Keywords - Coding sequence diversityⁱ

Entry informationⁱ

Miscellaneousⁱ

Keywords - Technical termⁱ