UniProtKB - Q7L5L3 (GDPD3_HUMAN)
Protein
Lysophospholipase D GDPD3
Gene
GDPD3
Organism
Homo sapiens (Human)
Status
Functioni
Hydrolyzes lysoglycerophospholipids to produce lysophosphatidic acid (LPA) and the corresponding amines (PubMed:27637550). Shows a preference for 1-O-alkyl-sn-glycero-3-phosphocholine (lyso-PAF), lysophosphatidylcholine (lyso-PC) and N-acylethanolamine lysophospholipids (PubMed:27637550). Does not display glycerophosphodiester phosphodiesterase activity, since it cannot hydrolyze either glycerophosphoinositol or glycerophosphocholine.By similarity1 Publication
Catalytic activityi
- 1-hexadecanoyl-sn-glycero-3-phosphocholine + H2O = 1-hexadecanoyl-sn-glycero-3-phosphate + choline + H+By similarity
- 1-hexadecanoyl-sn-glycero-3-phosphocholine + H2O = H+ + hexadecanoate + sn-glycerol 3-phosphocholine1 PublicationThis reaction proceeds in the forward1 Publication direction.
- 1-O-(1Z-octadecenyl)-sn-glycero-3-phospho-(N-hexadecanoyl)-ethanolamine + H2O = 1-(1Z-octadecenyl)-sn-glycero-3-phosphate + H+ + N-hexadecanoylethanolamine1 PublicationThis reaction proceeds in the forward1 Publication direction.
- H2O + N-(5Z,8Z,11Z,14Z-eicosatetraenoyl)-1-(9Z-octadecenoyl)-sn-glycero-3-phosphoethanolamine = 1-(9Z-octadecenoyl)-sn-glycero-3-phosphate + H+ + N-(5Z,8Z,11Z,14Z-eicosatetraenoyl)-ethanolamine1 PublicationThis reaction proceeds in the forward1 Publication direction.
- H2O + N,1-di-(9Z-octadecenoyl)-sn-glycero-3-phosphoethanolamine = 1-(9Z-octadecenoyl)-sn-glycero-3-phosphate + H+ + N-(9Z-octadecenoyl) ethanolamine1 PublicationThis reaction proceeds in the forward1 Publication direction.
- H2O + N-hexadecanoyl-1-(9Z-octadecenoyl)-sn-glycero-3-phosphoethanolamine = 1-(9Z-octadecenoyl)-sn-glycero-3-phosphate + H+ + N-hexadecanoylethanolamine1 PublicationThis reaction proceeds in the forward1 Publication direction.
- 1-O-hexadecyl-sn-glycero-3-phosphocholine + H2O = 1-O-hexadecyl-sn-glycero-3-phosphate + choline + H+By similarityThis reaction proceeds in the forwardBy similarity direction.
Activity regulationi
Lysophospholipase D activity is stimulated by calcium. Loss of lysophospholipase D activity in presence of EDTA.1 Publication
Sites
Feature key | Position(s) | DescriptionActions | Graphical view | 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
- lysophospholipase activity Source: GO_Central
- metal ion binding Source: UniProtKB-KW
- phosphoric diester hydrolase activity Source: UniProtKB
GO - Biological processi
- glycerophospholipid catabolic process Source: GO_Central
- N-acylethanolamine metabolic process Source: UniProtKB
- phosphatidylcholine catabolic process Source: Ensembl
- phospholipid metabolic process Source: GO_Central
Keywordsi
Molecular function | Hydrolase |
Ligand | Metal-binding |
Enzyme and pathway databases
PathwayCommonsi | Q7L5L3 |
Reactomei | R-HSA-6814848, Glycerophospholipid catabolism |
Chemistry databases
SwissLipidsi | SLP:000001905 |
Names & Taxonomyi
Protein namesi | Recommended name: Lysophospholipase D GDPD3Curated (EC:3.1.4.-1 Publication)Alternative name(s): Glycerophosphodiester phosphodiesterase 7By similarity Glycerophosphodiester phosphodiesterase domain-containing protein 3 |
Gene namesi | |
Organismi | Homo sapiens (Human) |
Taxonomic identifieri | 9606 [NCBI] |
Taxonomic lineagei | Eukaryota › Metazoa › Chordata › Craniata › Vertebrata › Euteleostomi › Mammalia › Eutheria › Euarchontoglires › Primates › Haplorrhini › Catarrhini › Hominidae › Homo |
Proteomesi |
|
Organism-specific databases
EuPathDBi | HostDB:ENSG00000102886.14 |
HGNCi | HGNC:28638, GDPD3 |
MIMi | 616318, gene |
neXtProti | NX_Q7L5L3 |
Subcellular locationi
Endoplasmic reticulum
- Endoplasmic reticulum 1 Publication
Other locations
- Membrane By similarity; Multi-pass membrane protein By similarity
- perinuclear region By similarity
Note: Partially co-localized with CANX.By similarity
Endoplasmic reticulum
- endoplasmic reticulum Source: UniProtKB
- endoplasmic reticulum membrane Source: UniProtKB
Extracellular region or secreted
- extracellular exosome Source: UniProtKB
Other locations
- integral component of membrane Source: UniProtKB-KW
- perinuclear region of cytoplasm Source: UniProtKB
Topology
Feature key | Position(s) | DescriptionActions | Graphical view | 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, MembranePathology & Biotechi
Organism-specific databases
DisGeNETi | 79153 |
OpenTargetsi | ENSG00000102886 |
PharmGKBi | PA142671741 |
Miscellaneous databases
Pharosi | Q7L5L3, Tdark |
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 |
jPOSTi | Q7L5L3 |
MassIVEi | Q7L5L3 |
PaxDbi | Q7L5L3 |
PeptideAtlasi | Q7L5L3 |
PRIDEi | Q7L5L3 |
ProteomicsDBi | 68809 [Q7L5L3-2] 68810 [Q7L5L3-1] |
PTM databases
iPTMneti | Q7L5L3 |
PhosphoSitePlusi | Q7L5L3 |
Expressioni
Tissue specificityi
Widely expressed, with high level in kidney and ovary.1 Publication
Gene expression databases
Bgeei | ENSG00000102886, Expressed in mucosa of transverse colon and 190 other tissues |
ExpressionAtlasi | Q7L5L3, baseline and differential |
Genevisiblei | Q7L5L3, HS |
Organism-specific databases
HPAi | ENSG00000102886, Tissue enhanced (esophagus, lymphoid tissue, tongue) |
Interactioni
Protein-protein interaction databases
BioGRIDi | 122571, 6 interactors |
IntActi | Q7L5L3, 6 interactors |
STRINGi | 9606.ENSP00000384363 |
Miscellaneous databases
RNActi | Q7L5L3, protein |
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 helixPhylogenomic databases
eggNOGi | KOG2258, Eukaryota |
GeneTreei | ENSGT00940000160759 |
HOGENOMi | CLU_030006_5_1_1 |
InParanoidi | Q7L5L3 |
OMAi | FPFSCSG |
OrthoDBi | 1218115at2759 |
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 |
Pfami | View protein in Pfam PF03009, GDPD, 1 hit |
SUPFAMi | SSF51695, SSF51695, 1 hit |
PROSITEi | View protein in PROSITE PS51704, GP_PDE, 1 hit |
s (2+)i Sequence
Sequence statusi: Complete.
This entry describes 2 produced by isoformsialternative splicing. AlignAdd to basketThis entry has 2 described isoforms and 2 potential isoforms that are computationally mapped.Show allAlign All
Isoform 1 (identifier: Q7L5L3-2) [UniParc]FASTAAdd to basket
This isoform has been chosen as the sequence. All positional information in this entry refers to it. This is also the sequence that appears in the downloadable versions of the entry. canonicali
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
Computationally mapped potential isoform sequencesi
There are 2 potential isoforms mapped to this entry.BLASTAlignShow allAdd to basketH3BMN9 | H3BMN9_HUMAN | Lysophospholipase D GDPD3 | GDPD3 | 47 | Annotation score: | ||
H3BPX3 | H3BPX3_HUMAN | 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. |
CCDSi | CCDS10671.2 [Q7L5L3-2] |
RefSeqi | NP_077283.2, NM_024307.2 [Q7L5L3-2] |
Genome annotation databases
Ensembli | ENST00000406256; ENSP00000384363; ENSG00000102886 [Q7L5L3-2] |
GeneIDi | 79153 |
KEGGi | hsa:79153 |
UCSCi | uc002dwp.4, human [Q7L5L3-2] |
Keywords - Coding sequence diversityi
Alternative splicingSimilar proteinsi
Cross-referencesi
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. |
CCDSi | CCDS10671.2 [Q7L5L3-2] |
RefSeqi | NP_077283.2, NM_024307.2 [Q7L5L3-2] |
3D structure databases
SMRi | Q7L5L3 |
ModBasei | Search... |
Protein-protein interaction databases
BioGRIDi | 122571, 6 interactors |
IntActi | Q7L5L3, 6 interactors |
STRINGi | 9606.ENSP00000384363 |
Chemistry databases
SwissLipidsi | SLP:000001905 |
PTM databases
iPTMneti | Q7L5L3 |
PhosphoSitePlusi | Q7L5L3 |
Polymorphism and mutation databases
BioMutai | GDPD3 |
DMDMi | 226694188 |
Proteomic databases
EPDi | Q7L5L3 |
jPOSTi | Q7L5L3 |
MassIVEi | Q7L5L3 |
PaxDbi | Q7L5L3 |
PeptideAtlasi | Q7L5L3 |
PRIDEi | Q7L5L3 |
ProteomicsDBi | 68809 [Q7L5L3-2] 68810 [Q7L5L3-1] |
Protocols and materials databases
Antibodypediai | 51979, 106 antibodies |
DNASUi | 79153 |
Genome annotation databases
Ensembli | ENST00000406256; ENSP00000384363; ENSG00000102886 [Q7L5L3-2] |
GeneIDi | 79153 |
KEGGi | hsa:79153 |
UCSCi | uc002dwp.4, human [Q7L5L3-2] |
Organism-specific databases
CTDi | 79153 |
DisGeNETi | 79153 |
EuPathDBi | HostDB:ENSG00000102886.14 |
GeneCardsi | GDPD3 |
HGNCi | HGNC:28638, GDPD3 |
HPAi | ENSG00000102886, Tissue enhanced (esophagus, lymphoid tissue, tongue) |
MIMi | 616318, gene |
neXtProti | NX_Q7L5L3 |
OpenTargetsi | ENSG00000102886 |
PharmGKBi | PA142671741 |
GenAtlasi | Search... |
Phylogenomic databases
eggNOGi | KOG2258, Eukaryota |
GeneTreei | ENSGT00940000160759 |
HOGENOMi | CLU_030006_5_1_1 |
InParanoidi | Q7L5L3 |
OMAi | FPFSCSG |
OrthoDBi | 1218115at2759 |
PhylomeDBi | Q7L5L3 |
TreeFami | TF328545 |
Enzyme and pathway databases
PathwayCommonsi | Q7L5L3 |
Reactomei | R-HSA-6814848, Glycerophospholipid catabolism |
Miscellaneous databases
BioGRID-ORCSi | 79153, 6 hits in 845 CRISPR screens |
GenomeRNAii | 79153 |
Pharosi | Q7L5L3, Tdark |
PROi | PR:Q7L5L3 |
RNActi | Q7L5L3, protein |
SOURCEi | Search... |
Gene expression databases
Bgeei | ENSG00000102886, Expressed in mucosa of transverse colon and 190 other tissues |
ExpressionAtlasi | Q7L5L3, baseline and differential |
Genevisiblei | Q7L5L3, HS |
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 |
Pfami | View protein in Pfam PF03009, GDPD, 1 hit |
SUPFAMi | SSF51695, SSF51695, 1 hit |
PROSITEi | View protein in PROSITE PS51704, GP_PDE, 1 hit |
ProtoNeti | Search... |
MobiDBi | Search... |
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: | December 2, 2020 | |
This is version 130 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
Reference proteomeDocuments
- MIM cross-references
Online Mendelian Inheritance in Man (MIM) cross-references in UniProtKB/Swiss-Prot - SIMILARITY comments
Index of protein domains and families - Human chromosome 16
Human chromosome 16: entries, gene names and cross-references to MIM