Reviewed, UniProtKB/Swiss-Prot Q9C5Y0 (PLDD1_ARATH)

Names and origin

Protein names

Recommended name:
    Phospholipase D delta
      Short name=AtPLDdelta
      Short name=PLD delta
    EC=3.1.4.4

Gene names

Name:	PLDDELTA
Ordered Locus Names:	At4g35790
ORF Names:	F4B14.60

Organism

Arabidopsis thaliana (Mouse-ear cress) [Complete proteome]

Taxonomic identifier

3702 [NCBI]

Taxonomic lineage

Eukaryota › Viridiplantae › Streptophyta › Embryophyta › Tracheophyta › Spermatophyta › Magnoliophyta › eudicotyledons › core eudicotyledons › rosids › eurosids II › Brassicales › Brassicaceae › Arabidopsis

Protein attributes

Sequence length	868 AA.
Sequence status	Complete.
Sequence processing	The displayed sequence is not processed.
Protein existence	Evidence at protein level.

General annotation (Comments)

Function	Hydrolyzes glycerol-phospholipids at the terminal phosphodiesteric bond. May be involved in phosphatidic acid accumulation in the dehydration stress response and in the transduction of hormonal and environmental signals to the microtubules cytoskeleton.
Catalytic activity	A phosphatidylcholine + H2O = choline + a phosphatidate.
Cofactor	Calcium. Requires millimolar level (PIP2-dependent).
Subcellular location	Membrane; Peripheral membrane protein. Note: Colocalization with cortical microtubules also occurs.
Tissue specificity	Expressed in roots, leaves, stems, siliques and flowers. Expression is higher in old leaves than in young leaves. The isoform 2 may not be present in siliques.
Induction	By salt stress or dehydration, in vascular tissues of roots, cotyledons and leaves. Not induced by ABA or cold stress.
Domain	C2 domain is a calcium-binding fold, and the binding promotes the protein association with membranes. In PLD delta, all the calcium-coordinating acidic amino-acids are conserved.
Sequence similarities	Belongs to the phospholipase D family. C2-PLD subfamily. Contains 1 C2 domain. Contains 2 PLD phosphodiesterase domains.
Sequence caution	The sequence AAL11625.1 differs from that shown. Reason: Frameshift at position 5. The sequence CAA21465.1 differs from that shown. Reason: Erroneous gene model prediction. The sequence CAB81488.1 differs from that shown. Reason: Erroneous gene model prediction.

Ontologies

Keywords
Biological process	Lipid degradation Stress response
Cellular component	Membrane
Coding sequence diversity	Alternative splicing
Domain	Repeat
Ligand	Calcium
Molecular function	Hydrolase
Technical term	Complete proteome
Gene Ontology (GO)
Biological process	lipid catabolic process Inferred from electronic annotation. Source: UniProtKB-KW phosphatidic acid metabolic process Ref.3 Inferred from mutant phenotype. Source: TAIR phosphatidylcholine metabolic process Inferred from electronic annotation. Source: InterPro programmed cell death Inferred from mutant phenotype. Source: TAIR response to cold Inferred from mutant phenotype. Source: TAIR
Cellular component	extrinsic to membrane Inferred from electronic annotation. Source: UniProtKB-SubCell plasma membrane Inferred from direct assay. Source: TAIR vacuole Inferred from direct assay. Source: TAIR
Molecular function	NAPE-specific phospholipase D activity Inferred from electronic annotation. Source: EC calcium ion binding Inferred from electronic annotation. Source: UniProtKB-KW phospholipase D activity Inferred from direct assay. Source: TAIR
Complete GO annotation...

Alternative products

This entry describes 2 isoforms produced by alternative splicing. [Align] [Select]

Isoform 1 (identifier: Q9C5Y0-1)

Also known as: PLD delta a;

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.

Isoform 2 (identifier: Q9C5Y0-2)

Also known as: PLD delta b;

The sequence of this isoform differs from the canonical sequence as follows:
     354-364: Missing.

Sequence annotation (Features)

	Feature key	Position(s)	Length	Description	Graphical view	Feature identifier
Molecule processing
	Chain	1 – 868	868	Phospholipase D delta		PRO_0000218815
Regions
	Domain	30 – 138	109	C2
	Domain	368 – 403	36	PLD phosphodiesterase 1
	Domain	713 – 740	28	PLD phosphodiesterase 2
Sites
	Active site	373	1	Potential
	Active site	375	1	Potential
	Active site	380	1	Potential
	Active site	718	1	Potential
	Active site	720	1	Potential
	Active site	725	1	Potential
Natural variations
	Alternative sequence	354 – 364	11	Missing in isoform 2.		VSP_005029
Experimental info
	Mutagenesis	410	1	R → P: Total loss of activity. Ref.1
	Mutagenesis	622	1	R → D: Loss of 80% of PIP2-stimulated activity and only 50% of oleate-stimulated activity. Ref.1

Sequences

	Sequence		Length	Mass (Da)
	Isoform 1 (PLD delta a) [UniParc]. Last modified April 3, 2002. Version 2. Checksum: AC18289664685178	FASTA	868	98,917
	10 20 30 40 50 60 MAEKVSEDVM LLHGDLDLKI VKARRLPNMD MFSEHLRRLF TACNACARPT DTDDVDPRDK 70 80 90 100 110 120 GEFGDKNIRS HRKVITSDPY VTVVVPQATL ARTRVLKNSQ EPLWDEKFNI SIAHPFAYLE 130 140 150 160 170 180 FQVKDDDVFG AQIIGTAKIP VRDIASGERI SGWFPVLGAS GKPPKAETAI FIDMKFTPFD 190 200 210 220 230 240 QIHSYRCGIA GDPERRGVRR TYFPVRKGSQ VRLYQDAHVM DGTLPAIGLD NGKVYEHGKC 250 260 270 280 290 300 WEDICYAISE AHHMIYIVGW SIFHKIKLVR ETKVPRDKDM TLGELLKYKS QEGVRVLLLV 310 320 330 340 350 360 WDDKTSHDKF GIKTPGVMGT HDEETRKFFK HSSVICVLSP RYASSKLGLF KQQASPSSSI 370 380 390 400 410 420 YIMTVVGTLF THHQKCVLVD TQAVGNNRKV TAFIGGLDLC DGRYDTPEHR ILHDLDTVFK 430 440 450 460 470 480 DDFHNPTFPA GTKAPRQPWH DLHCRIDGPA AYDVLINFEQ RWRKATRWKE FSLRLKGKTH 490 500 510 520 530 540 WQDDALIRIG RISWILSPVF KFLKDGTSII PEDDPCVWVS KEDDPENWHV QIFRSIDSGS 550 560 570 580 590 600 VKGFPKYEDE AEAQHLECAK RLVVDKSIQT AYIQTIRSAQ HFIYIENQYF LGSSYAWPSY 610 620 630 640 650 660 RDAGADNLIP MELALKIVSK IRAKERFAVY VVIPLWPEGD PKSGPVQEIL YWQSQTMQMM 670 680 690 700 710 720 YDVIAKELKA VQSDAHPLDY LNFYCLGKRE QLPDDMPATN GSVVSDSYNF QRFMIYVHAK 730 740 750 760 770 780 GMIVDDEYVL MGSANINQRS MAGTKDTEIA MGAYQPNHTW AHKGRHPRGQ VYGYRMSLWA 790 800 810 820 830 840 EHLGKTGDEF VEPSDLECLK KVNTISEENW KRFIDPKFSE LQGHLIKYPL QVDVDGKVSP 850 860 LPDYETFPDV GGKIIGAHSM ALPDTLTT
	Isoform 2 (PLD delta b). Checksum: 111B50FD1E9D22A0	FASTA	857	97,779
	10 20 30 40 50 60 MAEKVSEDVM LLHGDLDLKI VKARRLPNMD MFSEHLRRLF TACNACARPT DTDDVDPRDK 70 80 90 100 110 120 GEFGDKNIRS HRKVITSDPY VTVVVPQATL ARTRVLKNSQ EPLWDEKFNI SIAHPFAYLE 130 140 150 160 170 180 FQVKDDDVFG AQIIGTAKIP VRDIASGERI SGWFPVLGAS GKPPKAETAI FIDMKFTPFD 190 200 210 220 230 240 QIHSYRCGIA GDPERRGVRR TYFPVRKGSQ VRLYQDAHVM DGTLPAIGLD NGKVYEHGKC 250 260 270 280 290 300 WEDICYAISE AHHMIYIVGW SIFHKIKLVR ETKVPRDKDM TLGELLKYKS QEGVRVLLLV 310 320 330 340 350 360 WDDKTSHDKF GIKTPGVMGT HDEETRKFFK HSSVICVLSP RYASSKLGLF KQQVVGTLFT 370 380 390 400 410 420 HHQKCVLVDT QAVGNNRKVT AFIGGLDLCD GRYDTPEHRI LHDLDTVFKD DFHNPTFPAG 430 440 450 460 470 480 TKAPRQPWHD LHCRIDGPAA YDVLINFEQR WRKATRWKEF SLRLKGKTHW QDDALIRIGR 490 500 510 520 530 540 ISWILSPVFK FLKDGTSIIP EDDPCVWVSK EDDPENWHVQ IFRSIDSGSV KGFPKYEDEA 550 560 570 580 590 600 EAQHLECAKR LVVDKSIQTA YIQTIRSAQH FIYIENQYFL GSSYAWPSYR DAGADNLIPM 610 620 630 640 650 660 ELALKIVSKI RAKERFAVYV VIPLWPEGDP KSGPVQEILY WQSQTMQMMY DVIAKELKAV 670 680 690 700 710 720 QSDAHPLDYL NFYCLGKREQ LPDDMPATNG SVVSDSYNFQ RFMIYVHAKG MIVDDEYVLM 730 740 750 760 770 780 GSANINQRSM AGTKDTEIAM GAYQPNHTWA HKGRHPRGQV YGYRMSLWAE HLGKTGDEFV 790 800 810 820 830 840 EPSDLECLKK VNTISEENWK RFIDPKFSEL QGHLIKYPLQ VDVDGKVSPL PDYETFPDVG 850 GKIIGAHSMA LPDTLTT

References

	« Hide 'large scale' referencesShow 'large scale' references »
[1]	"A novel phospholipase d of Arabidopsis that is activated by oleic acid and associated with the plasma membrane." Wang C., Wang X. Plant Physiol. 127:1102-1112(2001) [PubMed: 11706190] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORM 2), MUTAGENESIS OF ARG-410 AND ARG-622. Strain: cv. Columbia.
[2]	"A 90-kD phospholipase D from tobacco binds to microtubules and the plasma membrane." Gardiner J.C., Harper J.D.I., Weerakoon N.D., Collings D.A., Ritchie S., Gilroy S., Cyr R.J., Marc J. Plant Cell 13:2143-2158(2001) [PubMed: 11549769] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORM 2).
[3]	"Involvement of a novel Arabidopsis phospholipase D, AtPLDdelta, in dehydration-inducible accumulation of phosphatidic acid in stress signalling." Katagiri T., Takahashi S., Shinozaki K. Plant J. 26:595-605(2001) [PubMed: 11489173] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORM 1).
[4]	"Sequence and analysis of chromosome 4 of the plant Arabidopsis thaliana." Mayer K.F.X., Schueller C., Wambutt R., Murphy G., Volckaert G., Pohl T., Duesterhoeft A., Stiekema W., Entian K.-D., Terryn N., Harris B., Ansorge W., Brandt P., Grivell L.A., Rieger M., Weichselgartner M., de Simone V., Obermaier B. , Mache R., Mueller M., Kreis M., Delseny M., Puigdomenech P., Watson M., Schmidtheini T., Reichert B., Portetelle D., Perez-Alonso M., Boutry M., Bancroft I., Vos P., Hoheisel J., Zimmermann W., Wedler H., Ridley P., Langham S.-A., McCullagh B., Bilham L., Robben J., van der Schueren J., Grymonprez B., Chuang Y.-J., Vandenbussche F., Braeken M., Weltjens I., Voet M., Bastiaens I., Aert R., Defoor E., Weitzenegger T., Bothe G., Ramsperger U., Hilbert H., Braun M., Holzer E., Brandt A., Peters S., van Staveren M., Dirkse W., Mooijman P., Klein Lankhorst R., Rose M., Hauf J., Koetter P., Berneiser S., Hempel S., Feldpausch M., Lamberth S., Van den Daele H., De Keyser A., Buysshaert C., Gielen J., Villarroel R., De Clercq R., van Montagu M., Rogers J., Cronin A., Quail M.A., Bray-Allen S., Clark L., Doggett J., Hall S., Kay M., Lennard N., McLay K., Mayes R., Pettett A., Rajandream M.A., Lyne M., Benes V., Rechmann S., Borkova D., Bloecker H., Scharfe M., Grimm M., Loehnert T.-H., Dose S., de Haan M., Maarse A.C., Schaefer M., Mueller-Auer S., Gabel C., Fuchs M., Fartmann B., Granderath K., Dauner D., Herzl A., Neumann S., Argiriou A., Vitale D., Liguori R., Piravandi E., Massenet O., Quigley F., Clabauld G., Muendlein A., Felber R., Schnabl S., Hiller R., Schmidt W., Lecharny A., Aubourg S., Chefdor F., Cooke R., Berger C., Monfort A., Casacuberta E., Gibbons T., Weber N., Vandenbol M., Bargues M., Terol J., Torres A., Perez-Perez A., Purnelle B., Bent E., Johnson S., Tacon D., Jesse T., Heijnen L., Schwarz S., Scholler P., Heber S., Francs P., Bielke C., Frishman D., Haase D., Lemcke K., Mewes H.-W., Stocker S., Zaccaria P., Bevan M., Wilson R.K., de la Bastide M., Habermann K., Parnell L., Dedhia N., Gnoj L., Schutz K., Huang E., Spiegel L., Sekhon M., Murray J., Sheet P., Cordes M., Abu-Threideh J., Stoneking T., Kalicki J., Graves T., Harmon G., Edwards J., Latreille P., Courtney L., Cloud J., Abbott A., Scott K., Johnson D., Minx P., Bentley D., Fulton B., Miller N., Greco T., Kemp K., Kramer J., Fulton L., Mardis E., Dante M., Pepin K., Hillier L.W., Nelson J., Spieth J., Ryan E., Andrews S., Geisel C., Layman D., Du H., Ali J., Berghoff A., Jones K., Drone K., Cotton M., Joshu C., Antonoiu B., Zidanic M., Strong C., Sun H., Lamar B., Yordan C., Ma P., Zhong J., Preston R., Vil D., Shekher M., Matero A., Shah R., Swaby I.K., O'Shaughnessy A., Rodriguez M., Hoffman J., Till S., Granat S., Shohdy N., Hasegawa A., Hameed A., Lodhi M., Johnson A., Chen E., Marra M.A., Martienssen R., McCombie W.R. Nature 402:769-777(1999) [PubMed: 10617198] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: cv. Columbia.
[5]	"Empirical analysis of transcriptional activity in the Arabidopsis genome." Yamada K., Lim J., Dale J.M., Chen H., Shinn P., Palm C.J., Southwick A.M., Wu H.C., Kim C.J., Nguyen M., Pham P.K., Cheuk R.F., Karlin-Newmann G., Liu S.X., Lam B., Sakano H., Wu T., Yu G. , Miranda M., Quach H.L., Tripp M., Chang C.H., Lee J.M., Toriumi M.J., Chan M.M., Tang C.C., Onodera C.S., Deng J.M., Akiyama K., Ansari Y., Arakawa T., Banh J., Banno F., Bowser L., Brooks S.Y., Carninci P., Chao Q., Choy N., Enju A., Goldsmith A.D., Gurjal M., Hansen N.F., Hayashizaki Y., Johnson-Hopson C., Hsuan V.W., Iida K., Karnes M., Khan S., Koesema E., Ishida J., Jiang P.X., Jones T., Kawai J., Kamiya A., Meyers C., Nakajima M., Narusaka M., Seki M., Sakurai T., Satou M., Tamse R., Vaysberg M., Wallender E.K., Wong C., Yamamura Y., Yuan S., Shinozaki K., Davis R.W., Theologis A., Ecker J.R. Science 302:842-846(2003) [PubMed: 14593172] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 2). Strain: cv. Columbia.
[6]	"Large-scale analysis of RIKEN Arabidopsis full-length (RAFL) cDNAs." Totoki Y., Seki M., Ishida J., Nakajima M., Enju A., Kamiya A., Narusaka M., Shin-i T., Nakagawa M., Sakamoto N., Oishi K., Kohara Y., Kobayashi M., Toyoda A., Sakaki Y., Sakurai T., Iida K., Akiyama K. , Satou M., Toyoda T., Konagaya A., Carninci P., Kawai J., Hayashizaki Y., Shinozaki K. Submitted (JUL-2006) to the EMBL/GenBank/DDBJ databases Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 2). Strain: cv. Columbia.
+	Additional computationally mapped references.

Cross-references

Sequence databases
EMBLGenBankDDBJ	AF322228 mRNA. Translation: AAG53975.1. AF274239 mRNA. Translation: AAL02150.1. AF306345 mRNA. Translation: AAL11978.1. AB031047 mRNA. Translation: BAB19130.1. AL031986 Genomic DNA. Translation: CAA21465.1. Sequence problems. AL161588 Genomic DNA. Translation: CAB81488.1. Sequence problems. AF424632 mRNA. Translation: AAL11625.1. Frameshift. AK227213 mRNA. Translation: BAE99251.1.
IPI	IPI00520107. IPI00541650.
RefSeq	NP_567989.1. NP_849501.1.
UniGene	At.22959
3D structure databases
HSSP	HSSP built from PDB template 1RLW based on UniProtKB P47712.
ModBase	Search...
Proteomic databases
PRIDE	Q9C5Y0.
Genome annotation databases
GeneID	829733.
GenomeReviews	Gene locus AT4G35790 in contig CT486007_GR.
KEGG	ath:AT4G35790.
NMPDR	fig|3702.1.peg.21668.
Organism-specific databases
TAIR	At4g35790.
Phylogenomic databases
OMA	DKFGIKT.
Enzyme and pathway databases
BRENDA	3.1.4.4. 302.
Gene expression databases
ArrayExpress	Q9C5Y0.
Genevestigator	Q9C5Y0.
Family and domain databases
InterPro	IPR000008. C2_Ca-dep. IPR018029. C2_membr_targeting. IPR015679. Phospholipase_D. IPR011402. PLD_pln. IPR001736. PLipase_D/transphosphatidylase. [Graphical view]
PANTHER	PTHR18896. Phospholipase_D. 1 hit.
Pfam	PF00168. C2. 1 hit. PF00614. PLDc. 2 hits. [Graphical view]
PIRSF	PIRSF036470. PLD_plant. 1 hit.
SMART	SM00239. C2. 1 hit. SM00155. PLDc. 2 hits. [Graphical view]
PROSITE	PS50004. C2. 1 hit. PS50035. PLD. 2 hits. [Graphical view]
ProtoNet	Search...

Entry information

Entry name

PLDD1_ARATH

Accession

Primary (citable) accession number: Q9C5Y0
Secondary accession number(s): Q0WUE7 , Q944P8, Q947R2, Q9FS18, Q9SZS7

Entry history

Integrated into UniProtKB/Swiss-Prot:	April 3, 2002
Last sequence update:	April 3, 2002
Last modified:	November 3, 2009
This is version 77 of the entry and version 2 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation project

PPAP (Plant Proteome Annotation Project)