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A5D6R3

- PLD3A_DANRE

UniProt

A5D6R3 - PLD3A_DANRE

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Protein

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

Gene

plcd3a

Organism
Danio rerio (Zebrafish) (Brachydanio rerio)
Status
Reviewed - Annotation score: 4 out of 5- Experimental evidence at transcript 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 (By similarity).By similarity

Catalytic activityi

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

Cofactori

Ca2+By similarityNote: Binds 3 Ca(2+) ions per subunit. Two of the Ca(2+) ions are bound to the C2 domain.By similarity

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Active sitei328 – 3281PROSITE-ProRule annotation
Metal bindingi329 – 3291Calcium 1; catalyticBy similarity
Metal bindingi358 – 3581Calcium 1; catalyticBy similarity
Metal bindingi360 – 3601Calcium 1; catalyticBy similarity
Active sitei373 – 3731PROSITE-ProRule annotation
Metal bindingi407 – 4071Calcium 1; catalyticBy similarity
Binding sitei456 – 4561SubstrateBy similarity
Binding sitei458 – 4581SubstrateBy similarity
Binding sitei534 – 5341SubstrateBy similarity
Binding sitei561 – 5611SubstrateBy similarity
Metal bindingi664 – 6641Calcium 2; via carbonyl oxygenBy similarity
Metal bindingi666 – 6661Calcium 2By similarity
Metal bindingi690 – 6901Calcium 2By similarity
Metal bindingi719 – 7191Calcium 3By similarity
Metal bindingi721 – 7211Calcium 3By similarity

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Calcium bindingi172 – 183121PROSITE-ProRule annotationAdd
BLAST
Calcium bindingi208 – 219122PROSITE-ProRule annotationAdd
BLAST

GO - Molecular functioni

  1. calcium ion binding Source: InterPro
  2. phosphatidylinositol phospholipase C activity Source: UniProtKB-EC
  3. signal transducer activity Source: UniProtKB-KW

GO - Biological processi

  1. angiogenesis Source: InterPro
  2. intracellular signal transduction Source: InterPro
  3. lipid catabolic process Source: UniProtKB-KW
  4. regulation of cell proliferation Source: InterPro
Complete GO annotation...

Keywords - Molecular functioni

Hydrolase, Transducer

Keywords - Biological processi

Lipid degradation, Lipid metabolism

Keywords - Ligandi

Calcium, Metal-binding

Enzyme and pathway databases

ReactomeiREACT_202687. Synthesis of IP3 and IP4 in the cytosol.

Names & Taxonomyi

Protein namesi
Recommended name:
1-phosphatidylinositol 4,5-bisphosphate phosphodiesterase delta-3-A (EC:3.1.4.11)
Alternative name(s):
Phosphoinositide phospholipase C-delta-3-A
Phospholipase C-delta-3-A
Short name:
PLC-delta-3-A
Gene namesi
Name:plcd3a
ORF Names:zgc:158396
OrganismiDanio rerio (Zebrafish) (Brachydanio rerio)
Taxonomic identifieri7955 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiActinopterygiiNeopterygiiTeleosteiOstariophysiCypriniformesCyprinidaeDanio
ProteomesiUP000000437: Chromosome 3

Organism-specific databases

ZFINiZDB-GENE-070620-1. plcd3a.

Subcellular locationi

Membrane By similarity; Peripheral membrane protein By similarity. Cytoplasm By similarity

GO - Cellular componenti

  1. cytoplasm Source: UniProtKB-KW
  2. membrane Source: UniProtKB-KW
Complete GO annotation...

Keywords - Cellular componenti

Cytoplasm, Membrane

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 7847841-phosphatidylinositol 4,5-bisphosphate phosphodiesterase delta-3-APRO_0000306823Add
BLAST

Keywords - PTMi

Phosphoprotein

Expressioni

Gene expression databases

BgeeiA5D6R3.

Interactioni

Protein-protein interaction databases

STRINGi7955.ENSDARP00000093449.

Structurei

3D structure databases

ProteinModelPortaliA5D6R3.
SMRiA5D6R3. Positions 219-768.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini38 – 149112PHPROSITE-ProRule annotationAdd
BLAST
Domaini159 – 19436EF-hand 1PROSITE-ProRule annotationAdd
BLAST
Domaini195 – 23036EF-hand 2PROSITE-ProRule annotationAdd
BLAST
Domaini227 – 26236EF-hand 3PROSITE-ProRule annotationAdd
BLAST
Domaini313 – 458146PI-PLC X-boxPROSITE-ProRule annotationAdd
BLAST
Domaini506 – 621116PI-PLC Y-boxPROSITE-ProRule annotationAdd
BLAST
Domaini628 – 733106C2PROSITE-ProRule annotationAdd
BLAST

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni48 – 7831Substrate bindingBy similarityAdd
BLAST

Domaini

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

Sequence similaritiesi

Contains 1 C2 domain.PROSITE-ProRule annotation
Contains 3 EF-hand domains.PROSITE-ProRule annotation
Contains 1 PH domain.PROSITE-ProRule annotation
Contains 1 PI-PLC X-box domain.PROSITE-ProRule annotation
Contains 1 PI-PLC Y-box domain.PROSITE-ProRule annotation

Keywords - Domaini

Repeat

Phylogenomic databases

eggNOGiNOG149692.
GeneTreeiENSGT00760000118936.
HOGENOMiHOG000006871.
InParanoidiA5D6R3.
KOiK05857.
OrthoDBiEOG7V49XT.
PhylomeDBiA5D6R3.
TreeFamiTF313216.

Family and domain databases

Gene3Di1.10.238.10. 2 hits.
2.30.29.30. 1 hit.
2.60.40.150. 1 hit.
3.20.20.190. 2 hits.
InterProiIPR000008. C2_dom.
IPR011992. EF-hand-dom_pair.
IPR018247. EF_Hand_1_Ca_BS.
IPR002048. EF_hand_dom.
IPR001849. PH_domain.
IPR011993. PH_like_dom.
IPR001192. PI-PLC_fam.
IPR028406. PLC-delta3.
IPR017946. PLC-like_Pdiesterase_TIM-brl.
IPR015359. PLipase_C_EF-hand-like.
IPR000909. PLipase_C_PInositol-sp_X_dom.
IPR001711. PLipase_C_Pinositol-sp_Y.
[Graphical view]
PANTHERiPTHR10336. PTHR10336. 1 hit.
PTHR10336:SF33. PTHR10336:SF33. 1 hit.
PfamiPF00168. C2. 1 hit.
PF09279. EF-hand_like. 1 hit.
PF00169. PH. 1 hit.
PF00388. PI-PLC-X. 1 hit.
PF00387. PI-PLC-Y. 1 hit.
[Graphical view]
PRINTSiPR00390. PHPHLIPASEC.
SMARTiSM00239. C2. 1 hit.
SM00054. EFh. 2 hits.
SM00233. PH. 1 hit.
SM00148. PLCXc. 1 hit.
SM00149. PLCYc. 1 hit.
[Graphical view]
SUPFAMiSSF49562. SSF49562. 1 hit.
SSF51695. SSF51695. 1 hit.
PROSITEiPS50004. C2. 1 hit.
PS00018. EF_HAND_1. 2 hits.
PS50222. EF_HAND_2. 2 hits.
PS50003. PH_DOMAIN. 1 hit.
PS50007. PIPLC_X_DOMAIN. 1 hit.
PS50008. PIPLC_Y_DOMAIN. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

A5D6R3-1 [UniParc]FASTAAdd to Basket

« Hide

        10         20         30         40         50
MLGRKKNPET VQTESKSVES KTHDPLRRLG VLDDEDVLLM LQGSKMMKVR
60 70 80 90 100
SQRWRKDRRL KLLEDCVTVW CESSKTSRKS NRQQTFSVTE VECVREGCQS
110 120 130 140 150
ECLRRMTDLV PEKNCFTVVF RGGRKSLDLC CHTQEEAERW VRGIRTLKDR
160 170 180 190 200
VSNMSQKEKL DHWIRGYLRR ADQNQDGKMS YDEVKHLLQL INIDLNEQYA
210 220 230 240 250
RTLFKKCDRS CDGRLDHVEI EEFCREMMRR PELDAVFRHY SGNGCVLTTL
260 270 280 290 300
ELRDFLGDQG EDASLVHAKS LIQTFELNDW AQKNLFMTQN GFTMYMLSKE
310 320 330 340 350
NDVFNPDHTH VYQDMSKPLA HYYISSSHNT YLTKDQVTSA SSTEPYIRAL
360 370 380 390 400
NQGCRCVELD CWDGDKGEPI IYHGHTLTSK VLFKEVIETI AQYAFKASPY
410 420 430 440 450
PLILSLENHC SVEQQAIMAQ QLQSILGKKL LAKPLSDLPL KQLPSPEELK
460 470 480 490 500
GRILLKGKKL NGLLGKTESW TSFTNSSDEE SVAGGNKKES KKDLARSAST
510 520 530 540 550
KLSPELSDLV VYCQSVPFSG FETANQRPPS VITSFSENEA LKLIKDSGKL
560 570 580 590 600
FVRNNSRQLS RIYPSAQRLQ SSNFDPQDMW NAGCQMVALN FQTPGEQMDL
610 620 630 640 650
NQGRFLPNGR CGYVLKPEFL CDPKSDFDPE NTGGGPGHIP TQLTIRVISA
660 670 680 690 700
QQLPKINTDK PNSIVDPQVW VEIHGVSIDK ARAKTQRIDN NGFNPRWDCT
710 720 730 740 750
VSFQLQLPEL ALVRFMVEDH DHKSKNDFIG QFTLPFTSLR TGYRHVHLLK
760 770 780
ADGSTLSPAT LFIHVKVVRR GVHIKTVSER IGKA
Length:784
Mass (Da):89,381
Last modified:June 12, 2007 - v1
Checksum:i4078823F379343C6
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
BC139849 mRNA. Translation: AAI39850.1.
RefSeqiNP_001092893.1. NM_001099423.1.
UniGeneiDr.50929.

Genome annotation databases

EnsembliENSDART00000102674; ENSDARP00000093449; ENSDARG00000052957.
GeneIDi569040.
KEGGidre:569040.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
BC139849 mRNA. Translation: AAI39850.1 .
RefSeqi NP_001092893.1. NM_001099423.1.
UniGenei Dr.50929.

3D structure databases

ProteinModelPortali A5D6R3.
SMRi A5D6R3. Positions 219-768.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

STRINGi 7955.ENSDARP00000093449.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

Ensembli ENSDART00000102674 ; ENSDARP00000093449 ; ENSDARG00000052957 .
GeneIDi 569040.
KEGGi dre:569040.

Organism-specific databases

CTDi 569040.
ZFINi ZDB-GENE-070620-1. plcd3a.

Phylogenomic databases

eggNOGi NOG149692.
GeneTreei ENSGT00760000118936.
HOGENOMi HOG000006871.
InParanoidi A5D6R3.
KOi K05857.
OrthoDBi EOG7V49XT.
PhylomeDBi A5D6R3.
TreeFami TF313216.

Enzyme and pathway databases

Reactomei REACT_202687. Synthesis of IP3 and IP4 in the cytosol.

Miscellaneous databases

NextBioi 20889471.
PROi A5D6R3.

Gene expression databases

Bgeei A5D6R3.

Family and domain databases

Gene3Di 1.10.238.10. 2 hits.
2.30.29.30. 1 hit.
2.60.40.150. 1 hit.
3.20.20.190. 2 hits.
InterProi IPR000008. C2_dom.
IPR011992. EF-hand-dom_pair.
IPR018247. EF_Hand_1_Ca_BS.
IPR002048. EF_hand_dom.
IPR001849. PH_domain.
IPR011993. PH_like_dom.
IPR001192. PI-PLC_fam.
IPR028406. PLC-delta3.
IPR017946. PLC-like_Pdiesterase_TIM-brl.
IPR015359. PLipase_C_EF-hand-like.
IPR000909. PLipase_C_PInositol-sp_X_dom.
IPR001711. PLipase_C_Pinositol-sp_Y.
[Graphical view ]
PANTHERi PTHR10336. PTHR10336. 1 hit.
PTHR10336:SF33. PTHR10336:SF33. 1 hit.
Pfami PF00168. C2. 1 hit.
PF09279. EF-hand_like. 1 hit.
PF00169. PH. 1 hit.
PF00388. PI-PLC-X. 1 hit.
PF00387. PI-PLC-Y. 1 hit.
[Graphical view ]
PRINTSi PR00390. PHPHLIPASEC.
SMARTi SM00239. C2. 1 hit.
SM00054. EFh. 2 hits.
SM00233. PH. 1 hit.
SM00148. PLCXc. 1 hit.
SM00149. PLCYc. 1 hit.
[Graphical view ]
SUPFAMi SSF49562. SSF49562. 1 hit.
SSF51695. SSF51695. 1 hit.
PROSITEi PS50004. C2. 1 hit.
PS00018. EF_HAND_1. 2 hits.
PS50222. EF_HAND_2. 2 hits.
PS50003. PH_DOMAIN. 1 hit.
PS50007. PIPLC_X_DOMAIN. 1 hit.
PS50008. PIPLC_Y_DOMAIN. 1 hit.
[Graphical view ]
ProtoNeti Search...

Publicationsi

« Hide 'large scale' publications
  1. NIH - Zebrafish Gene Collection (ZGC) project
    Submitted (APR-2007) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
    Tissue: Kidney.
  2. "Duplication of phospholipase C-delta gene family in fish genomes."
    Kim M.S., Seo J.S., Ahn S.J., Kim N.Y., Je J.E., Sung J.H., Lee H.H., Chung J.K.
    Genomics 92:366-371(2008) [PubMed] [Europe PMC] [Abstract]
    Cited for: GENE DUPLICATION.

Entry informationi

Entry nameiPLD3A_DANRE
AccessioniPrimary (citable) accession number: A5D6R3
Entry historyi
Integrated into UniProtKB/Swiss-Prot: October 2, 2007
Last sequence update: June 12, 2007
Last modified: November 26, 2014
This is version 72 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. SIMILARITY comments
    Index of protein domains and families

External Data

Dasty 3