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Protein

1-phosphatidylinositol 4,5-bisphosphate phosphodiesterase delta-3

Gene

PLCD3

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

Functioni

Hydrolyzes the phosphatidylinositol 4,5-bisphosphate (PIP2) to generate 2 second messenger molecules diacylglycerol (DAG) and inositol 1,4,5-trisphosphate (IP3). DAG mediates the activation of protein kinase C (PKC), while IP3 releases Ca2+ from intracellular stores. Essential for trophoblast and placental development. May participate in cytokinesis by hydrolyzing PIP2 at the cleavage furrow.

Catalytic activityi

1-phosphatidyl-1D-myo-inositol 4,5-bisphosphate + H2O = 1D-myo-inositol 1,4,5-trisphosphate + diacylglycerol.1 Publication

Cofactori

Ca2+1 PublicationNote: Binds 3 Ca2+ ions per subunit. Two of the Ca2+ ions are bound to the C2 domain.1 Publication

Activity regulationi

Strongly activated by phosphatidic acid. Inhibited by phosphatidylethanolamine (PtdEtn), phosphatidylcholine (PtdCho), sphingomyelin and phosphatidylserine (PtdSer).2 Publications

Kineticsi

  1. KM=105.3 µM for PIP21 Publication
  1. Vmax=28.5 µmol/min/mg enzyme1 Publication

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Active sitei352PROSITE-ProRule annotation1
Metal bindingi353Calcium 1; catalyticBy similarity1
Metal bindingi382Calcium 1; catalyticBy similarity1
Metal bindingi384Calcium 1; catalyticBy similarity1
Active sitei397PROSITE-ProRule annotation1
Metal bindingi431Calcium 1; catalyticBy similarity1
Binding sitei480SubstrateBy similarity1
Binding sitei482SubstrateBy similarity1
Binding sitei557SubstrateBy similarity1
Binding sitei584SubstrateBy similarity1
Metal bindingi683Calcium 2; via carbonyl oxygenBy similarity1
Metal bindingi685Calcium 2By similarity1
Metal bindingi709Calcium 2By similarity1
Metal bindingi738Calcium 3By similarity1
Metal bindingi739Calcium 3; via carbonyl oxygenBy similarity1
Metal bindingi740Calcium 3By similarity1

Regions

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Calcium bindingi195 – 2061Sequence analysisAdd BLAST12
Calcium bindingi231 – 2422Sequence analysisAdd BLAST12

GO - Molecular functioni

GO - Biological processi

Keywordsi

Molecular functionHydrolase, Transducer
Biological processLipid degradation, Lipid metabolism
LigandCalcium, Metal-binding

Enzyme and pathway databases

ReactomeiR-HSA-1855204 Synthesis of IP3 and IP4 in the cytosol
SABIO-RKiQ8N3E9

Chemistry databases

SwissLipidsiSLP:000001067

Names & Taxonomyi

Protein namesi
Recommended name:
1-phosphatidylinositol 4,5-bisphosphate phosphodiesterase delta-3 (EC:3.1.4.11)
Alternative name(s):
Phosphoinositide phospholipase C-delta-3
Phospholipase C-delta-3
Short name:
PLC-delta-3
Gene namesi
Name:PLCD3
Synonyms:KIAA1964
OrganismiHomo sapiens (Human)
Taxonomic identifieri9606 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
Proteomesi
  • UP000005640 Componenti: Chromosome 17

Organism-specific databases

EuPathDBiHostDB:ENSG00000161714.11
HGNCiHGNC:9061 PLCD3
MIMi608795 gene
neXtProtiNX_Q8N3E9

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

Keywords - Cellular componenti

Cytoplasm, Membrane

Pathology & Biotechi

Organism-specific databases

DisGeNETi113026
OpenTargetsiENSG00000161714
PharmGKBiPA33389

Polymorphism and mutation databases

BioMutaiPLCD3
DMDMi158706388

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00003068211 – 7891-phosphatidylinositol 4,5-bisphosphate phosphodiesterase delta-3Add BLAST789

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Modified residuei105PhosphoserineCombined sources1
Modified residuei496PhosphoserineCombined sources1
Modified residuei573PhosphoserineCombined sources1

Keywords - PTMi

Phosphoprotein

Proteomic databases

EPDiQ8N3E9
MaxQBiQ8N3E9
PaxDbiQ8N3E9
PeptideAtlasiQ8N3E9
PRIDEiQ8N3E9
ProteomicsDBi71794

PTM databases

iPTMnetiQ8N3E9
PhosphoSitePlusiQ8N3E9
SwissPalmiQ8N3E9

Expressioni

Tissue specificityi

Present in corneal epithelial cells (at protein level).1 Publication

Inductioni

Down-regulated by Ca2+ and cAMP.1 Publication

Gene expression databases

BgeeiENSG00000161714 Expressed in 153 organ(s), highest expression level in mucosa of transverse colon
CleanExiHS_PLCD3
ExpressionAtlasiQ8N3E9 baseline and differential
GenevisibleiQ8N3E9 HS

Organism-specific databases

HPAiHPA025711
HPA053665

Interactioni

Protein-protein interaction databases

BioGridi125222, 17 interactors
IntActiQ8N3E9, 3 interactors
MINTiQ8N3E9
STRINGi9606.ENSP00000313731

Structurei

3D structure databases

ProteinModelPortaliQ8N3E9
SMRiQ8N3E9
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini63 – 172PHAdd BLAST110
Domaini182 – 217EF-hand 1Add BLAST36
Domaini218 – 253EF-hand 2Add BLAST36
Domaini250 – 285EF-hand 3Add BLAST36
Domaini337 – 482PI-PLC X-boxPROSITE-ProRule annotationAdd BLAST146
Domaini528 – 644PI-PLC Y-boxPROSITE-ProRule annotationAdd BLAST117
Domaini647 – 752C2PROSITE-ProRule annotationAdd BLAST106

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Regioni73 – 101Substrate bindingBy similarityAdd BLAST29

Domaini

The C2 domain is a Ca2+-dependent membrane-targeting module.
The PH domain mediates interaction with the surface membrane by binding to PIP2.

Keywords - Domaini

Repeat

Phylogenomic databases

eggNOGiKOG0169 Eukaryota
ENOG410XPSW LUCA
GeneTreeiENSGT00760000118936
HOGENOMiHOG000006871
HOVERGENiHBG053610
InParanoidiQ8N3E9
KOiK05857
OMAiHELMTLD
OrthoDBiEOG091G02KH
PhylomeDBiQ8N3E9
TreeFamiTF313216

Family and domain databases

CDDicd16218 EFh_PI-PLCdelta3, 1 hit
Gene3Di2.30.29.30, 1 hit
2.60.40.150, 1 hit
3.20.20.190, 1 hit
InterProiView protein in InterPro
IPR000008 C2_dom
IPR035892 C2_domain_sf
IPR011992 EF-hand-dom_pair
IPR018247 EF_Hand_1_Ca_BS
IPR011993 PH-like_dom_sf
IPR001849 PH_domain
IPR001192 PI-PLC_fam
IPR028406 PLC-delta3
IPR039504 PLC-delta3_EF-hand
IPR017946 PLC-like_Pdiesterase_TIM-brl
IPR000909 PLipase_C_PInositol-sp_X_dom
IPR001711 PLipase_C_Pinositol-sp_Y
PANTHERiPTHR10336 PTHR10336, 1 hit
PTHR10336:SF33 PTHR10336:SF33, 1 hit
PfamiView protein in Pfam
PF00168 C2, 1 hit
PF14788 EF-hand_10, 1 hit
PF00388 PI-PLC-X, 1 hit
PF00387 PI-PLC-Y, 1 hit
PRINTSiPR00390 PHPHLIPASEC
SMARTiView protein in SMART
SM00239 C2, 1 hit
SM00233 PH, 1 hit
SM00148 PLCXc, 1 hit
SM00149 PLCYc, 1 hit
SUPFAMiSSF47473 SSF47473, 1 hit
SSF51695 SSF51695, 1 hit
PROSITEiView protein in PROSITE
PS50004 C2, 1 hit
PS00018 EF_HAND_1, 1 hit
PS50007 PIPLC_X_DOMAIN, 1 hit
PS50008 PIPLC_Y_DOMAIN, 1 hit

Sequence (1+)i

Sequence statusi: Complete.

This entry has 1 described isoform and 3 potential isoforms that are computationally mapped.Show allAlign All

Q8N3E9-1 [UniParc]FASTAAdd to basket
« Hide
        10         20         30         40         50
MLCGRWRRCR RPPEEPPVAA QVAAQVAAPV ALPSPPTPSD GGTKRPGLRA
60 70 80 90 100
LKKMGLTEDE DVRAMLRGSR LRKIRSRTWH KERLYRLQED GLSVWFQRRI
110 120 130 140 150
PRAPSQHIFF VQHIEAVREG HQSEGLRRFG GAFAPARCLT IAFKGRRKNL
160 170 180 190 200
DLAAPTAEEA QRWVRGLTKL RARLDAMSQR ERLDHWIHSY LHRADSNQDS
210 220 230 240 250
KMSFKEIKSL LRMVNVDMND MYAYLLFKEC DHSNNDRLEG AEIEEFLRRL
260 270 280 290 300
LKRPELEEIF HQYSGEDRVL SAPELLEFLE DQGEEGATLA RAQQLIQTYE
310 320 330 340 350
LNETAKQHEL MTLDGFMMYL LSPEGAALDN THTCVFQDMN QPLAHYFISS
360 370 380 390 400
SHNTYLTDSQ IGGPSSTEAY VRAFAQGCRC VELDCWEGPG GEPVIYHGHT
410 420 430 440 450
LTSKILFRDV VQAVRDHAFT LSPYPVILSL ENHCGLEQQA AMARHLCTIL
460 470 480 490 500
GDMLVTQALD SPNPEELPSP EQLKGRVLVK GKKLPAARSE DGRALSDREE
510 520 530 540 550
EEEDDEEEEE EVEAAAQRRL AKQISPELSA LAVYCHATRL RTLHPAPNAP
560 570 580 590 600
QPCQVSSLSE RKAKKLIREA GNSFVRHNAR QLTRVYPLGL RMNSANYSPQ
610 620 630 640 650
EMWNSGCQLV ALNFQTPGYE MDLNAGRFLV NGQCGYVLKP ACLRQPDSTF
660 670 680 690 700
DPEYPGPPRT TLSIQVLTAQ QLPKLNAEKP HSIVDPLVRI EIHGVPADCA
710 720 730 740 750
RQETDYVLNN GFNPRWGQTL QFQLRAPELA LVRFVVEDYD ATSPNDFVGQ
760 770 780
FTLPLSSLKQ GYRHIHLLSK DGASLSPATL FIQIRIQRS
Length:789
Mass (Da):89,258
Last modified:October 2, 2007 - v3
Checksum:iC6901404D2C9D070
GO

Computationally mapped potential isoform sequencesi

There are 3 potential isoforms mapped to this entry.BLASTAlignShow allAdd to basket
EntryEntry nameProtein names
Gene namesLengthAnnotation
H0YGF8H0YGF8_HUMAN
1-phosphatidylinositol 4,5-bisphosp...
PLCD3
111Annotation score:
K7EQF2K7EQF2_HUMAN
1-phosphatidylinositol 4,5-bisphosp...
PLCD3
195Annotation score:
F5GXC1F5GXC1_HUMAN
1-phosphatidylinositol 4,5-bisphosp...
PLCD3
127Annotation score:

Experimental Info

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Sequence conflicti207I → T in CAD39054 (PubMed:17974005).Curated1

Natural variant

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Natural variantiVAR_035316652P → L. Corresponds to variant dbSNP:rs734921Ensembl.1

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AK074240 mRNA Translation: BAB85029.1
BC010668 mRNA Translation: AAH10668.2
BC072384 mRNA Translation: AAH72384.1
AL834392 mRNA Translation: CAD39054.2
AB075844 mRNA Translation: BAB85550.1
CCDSiCCDS74077.1
RefSeqiNP_588614.1, NM_133373.4
UniGeneiHs.380094

Genome annotation databases

EnsembliENST00000619929; ENSP00000479636; ENSG00000161714
GeneIDi113026
KEGGihsa:113026
UCSCiuc032fjs.2 human

Keywords - Coding sequence diversityi

Polymorphism

Similar proteinsi

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AK074240 mRNA Translation: BAB85029.1
BC010668 mRNA Translation: AAH10668.2
BC072384 mRNA Translation: AAH72384.1
AL834392 mRNA Translation: CAD39054.2
AB075844 mRNA Translation: BAB85550.1
CCDSiCCDS74077.1
RefSeqiNP_588614.1, NM_133373.4
UniGeneiHs.380094

3D structure databases

ProteinModelPortaliQ8N3E9
SMRiQ8N3E9
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi125222, 17 interactors
IntActiQ8N3E9, 3 interactors
MINTiQ8N3E9
STRINGi9606.ENSP00000313731

Chemistry databases

SwissLipidsiSLP:000001067

PTM databases

iPTMnetiQ8N3E9
PhosphoSitePlusiQ8N3E9
SwissPalmiQ8N3E9

Polymorphism and mutation databases

BioMutaiPLCD3
DMDMi158706388

Proteomic databases

EPDiQ8N3E9
MaxQBiQ8N3E9
PaxDbiQ8N3E9
PeptideAtlasiQ8N3E9
PRIDEiQ8N3E9
ProteomicsDBi71794

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENST00000619929; ENSP00000479636; ENSG00000161714
GeneIDi113026
KEGGihsa:113026
UCSCiuc032fjs.2 human

Organism-specific databases

CTDi113026
DisGeNETi113026
EuPathDBiHostDB:ENSG00000161714.11
GeneCardsiPLCD3
HGNCiHGNC:9061 PLCD3
HPAiHPA025711
HPA053665
MIMi608795 gene
neXtProtiNX_Q8N3E9
OpenTargetsiENSG00000161714
PharmGKBiPA33389
HUGEiSearch...
GenAtlasiSearch...

Phylogenomic databases

eggNOGiKOG0169 Eukaryota
ENOG410XPSW LUCA
GeneTreeiENSGT00760000118936
HOGENOMiHOG000006871
HOVERGENiHBG053610
InParanoidiQ8N3E9
KOiK05857
OMAiHELMTLD
OrthoDBiEOG091G02KH
PhylomeDBiQ8N3E9
TreeFamiTF313216

Enzyme and pathway databases

ReactomeiR-HSA-1855204 Synthesis of IP3 and IP4 in the cytosol
SABIO-RKiQ8N3E9

Miscellaneous databases

ChiTaRSiPLCD3 human
GeneWikiiPLCD3
GenomeRNAii113026
PROiPR:Q8N3E9
SOURCEiSearch...

Gene expression databases

BgeeiENSG00000161714 Expressed in 153 organ(s), highest expression level in mucosa of transverse colon
CleanExiHS_PLCD3
ExpressionAtlasiQ8N3E9 baseline and differential
GenevisibleiQ8N3E9 HS

Family and domain databases

CDDicd16218 EFh_PI-PLCdelta3, 1 hit
Gene3Di2.30.29.30, 1 hit
2.60.40.150, 1 hit
3.20.20.190, 1 hit
InterProiView protein in InterPro
IPR000008 C2_dom
IPR035892 C2_domain_sf
IPR011992 EF-hand-dom_pair
IPR018247 EF_Hand_1_Ca_BS
IPR011993 PH-like_dom_sf
IPR001849 PH_domain
IPR001192 PI-PLC_fam
IPR028406 PLC-delta3
IPR039504 PLC-delta3_EF-hand
IPR017946 PLC-like_Pdiesterase_TIM-brl
IPR000909 PLipase_C_PInositol-sp_X_dom
IPR001711 PLipase_C_Pinositol-sp_Y
PANTHERiPTHR10336 PTHR10336, 1 hit
PTHR10336:SF33 PTHR10336:SF33, 1 hit
PfamiView protein in Pfam
PF00168 C2, 1 hit
PF14788 EF-hand_10, 1 hit
PF00388 PI-PLC-X, 1 hit
PF00387 PI-PLC-Y, 1 hit
PRINTSiPR00390 PHPHLIPASEC
SMARTiView protein in SMART
SM00239 C2, 1 hit
SM00233 PH, 1 hit
SM00148 PLCXc, 1 hit
SM00149 PLCYc, 1 hit
SUPFAMiSSF47473 SSF47473, 1 hit
SSF51695 SSF51695, 1 hit
PROSITEiView protein in PROSITE
PS50004 C2, 1 hit
PS00018 EF_HAND_1, 1 hit
PS50007 PIPLC_X_DOMAIN, 1 hit
PS50008 PIPLC_Y_DOMAIN, 1 hit
ProtoNetiSearch...

Entry informationi

Entry nameiPLCD3_HUMAN
AccessioniPrimary (citable) accession number: Q8N3E9
Secondary accession number(s): Q8TEC1, Q8TF37, Q96FL6
Entry historyiIntegrated into UniProtKB/Swiss-Prot: October 2, 2007
Last sequence update: October 2, 2007
Last modified: October 10, 2018
This is version 158 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

Documents

  1. Human entries with polymorphisms or disease mutations
    List of human entries with polymorphisms or disease mutations
  2. Human chromosome 17
    Human chromosome 17: entries, gene names and cross-references to MIM
  3. Human polymorphisms and disease mutations
    Index of human polymorphisms and disease mutations
  4. MIM cross-references
    Online Mendelian Inheritance in Man (MIM) cross-references in UniProtKB/Swiss-Prot
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