Reviewed, UniProtKB/Swiss-Prot P93733 (PLDB1_ARATH)

Names and origin

Protein names

Recommended name:
    Phospholipase D beta 1
      Short name=AtPLDbeta1
      Short name=PLD beta 1
      Short name=PLDbeta
    EC=3.1.4.4

Gene names

Name:	PLDBETA1
Ordered Locus Names:	At2g42010
ORF Names:	T6D20.10

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 › malvids › Brassicales › Brassicaceae › Arabidopsis

Protein attributes

Sequence length	967 AA.
Sequence status	Complete.
Protein existence	Evidence at transcript level.

General annotation (Comments)

Function	Hydrolyzes glycerol-phospholipids at the terminal phosphodiesteric bond. Plays an important role in various cellular processes, including phytohormone action, vesicular trafficking, secretion, cytoskeletal arrangement, meiosis, tumor promotion, pathogenesis, membrane deterioration and senescence. Can use phosphatidylserine or N-acylphosphatidylethanolamine as substrates.
Catalytic activity	A phosphatidylcholine + H2O = choline + a phosphatidate.
Cofactor	Calcium. Requires micromolar level (PIP2-dependent).
Enzyme regulation	Inhibited by neomycin.
Subcellular location	Cytoplasm By similarity. Membrane; Peripheral membrane protein By similarity Ref.4.
Tissue specificity	Expressed in stems, and to a lower amount in leaves, flowers and siliques.
Induction	Activated by wounding, methyl jasmonate, heavy metal, osmotic and salt stresses.
Domain	C2 domain is a calcium-binding fold, and the binding promotes the protein association with membranes. In PLD beta, 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 AAC49656.2 differs from that shown. Reason: Frameshift at position 21.

Ontologies

Keywords
Biological process	Lipid degradation
Cellular component	Cytoplasm Membrane
Domain	Repeat
Ligand	Calcium
Molecular function	Hydrolase
Technical term	Complete proteome
Gene Ontology (GO)
Biological process	defense response to bacterium, incompatible interaction Inferred from expression pattern. Source: TAIR lipid catabolic process Inferred from electronic annotation. Source: UniProtKB-KW phosphatidylcholine metabolic process Inferred from electronic annotation. Source: InterPro response to cadmium ion Inferred from expression pattern. Source: TAIR
Cellular component	cytoplasm Inferred from electronic annotation. Source: UniProtKB-SubCell extrinsic to membrane Inferred from electronic annotation. Source: UniProtKB-SubCell
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 protein binding Inferred from physical interaction. Source: TAIR
Complete GO annotation...

Sequence annotation (Features)

	Feature key	Position(s)	Length	Description	Graphical view	Feature identifier
Molecule processing
	Chain	1 – 967	967	Phospholipase D beta 1		PRO_0000218810
Regions
	Domain	143 – 260	118	C2
	Domain	478 – 513	36	PLD phosphodiesterase 1
	Domain	813 – 840	28	PLD phosphodiesterase 2
Sites
	Active site	483	1	Potential
	Active site	485	1	Potential
	Active site	490	1	Potential
	Active site	818	1	Potential
	Active site	820	1	Potential
	Active site	825	1	Potential
Experimental info
	Sequence conflict	154	1	S → L in AAB63542. Ref.3
	Sequence conflict	280	1	T → N in AAB63542. Ref.3
	Sequence conflict	356	1	F → S in AAB63542. Ref.3
	Sequence conflict	420	1	S → L in AAB63542. Ref.3
	Sequence conflict	530	1	I → K in AAB63542. Ref.3
	Sequence conflict	587 – 589	3	LPI → TSY in AAB63542. Ref.3
	Sequence conflict	697	1	D → N in AAB63542. Ref.3
	Sequence conflict	797 – 805	9	RQMQTLLRP → SNANTPQA in AAB63542. Ref.3
	Sequence conflict	885	1	N → T in AAB63542. Ref.3
	Sequence conflict	957	1	T → S in AAB63542. Ref.3

Sequences

	Sequence		Length	Mass (Da)
	P93733-1 [UniParc]. Last modified April 3, 2002. Version 3. Checksum: 027FFA3E4140597C	FASTA	967	108,414
	10 20 30 40 50 60 MVLCLLTIRI KSQLNTLHLK TKPQEPLPPP QQTQGFQEYR RQDCLSTGGT GHDNVSNSGS 70 80 90 100 110 120 SYPPVDELLG GLHISTNQPW SLSSTTILPS FELLAKRPGD LYGYPNSSFP SNSHLPQLGR 130 140 150 160 170 180 VDSSSSYYAS TESPHSADMQ MTLFGKGSLK VLLSHGNLDI WIYHAKNLPN MDMFHKTLGD 190 200 210 220 230 240 MFGRLPGKIE GQLTSKITSD PYVSVSVAGA VIGRTYVMSN SENPVWMQHF YVPVAHHAAE 250 260 270 280 290 300 VHFVVKDSDV VGSQLIGLVT IPVEQIYSGA KIEGTYPILT SNGKPCKPGA NLSLSIQYTP 310 320 330 340 350 360 MDKLSVYHHG VGAGPDYQGV PGTYFPLRKG GTVRLYQDAH VPEGMLPGIR LDNGMFYEHG 370 380 390 400 410 420 KCWHDMFDAI RQARRLIYIT GWSVWHKVKL IRDKLGPASE CTLGELLRSK SQEGVRVLLS 430 440 450 460 470 480 IWDDPTSRSI LGYKTDGVMA THDEETRRFF KHSSVQVLLC PRNAGKRHSW VKQREVGTIY 490 500 510 520 530 540 THHQKNVIVD ADAGGNRRKI IAFVGGLDLC DGRYDTPQHP LFRTLQTIHI DDFHNPTFTG 550 560 570 580 590 600 NLSGCPREPW HDLHSKIDGP AAYDVLTNFE ERWLKAAKPS GIKKFKLPID DALLRIDRIP 610 620 630 640 650 660 DILGVSDTPT VSENDPEAWH VQIFRSIDSN SVKGFPKDPK DATCKNLVCG KNVLIDMSIH 670 680 690 700 710 720 TAYVKAIRAA QHFIYIENQY FIGSSYNWNA HKDIGADNLI PMEIALKIAE KIRANERFAA 730 740 750 760 770 780 YIVIPMWPEG VPTGAATQRI LYWQHKTIQM MYETIYKALV ETGLEGAFSP QDYLNFFCLG 790 800 810 820 830 840 NREMVDGIDN SGTGSPRQMQ TLLRPLSRKS RRFMVYVHSK GMVVDDEYVV IGSANINQRS 850 860 870 880 890 900 MEGTRDTEIA MGAYQPQHTW ARKHSGPRGQ IYGYRMSLWA EHMANLDDCF TQPESIECVR 910 920 930 940 950 960 KVRTMGERNW KQFAAEEVSD MRGHLLKYPV EVDRKGKVRP LPGSETFPDV GGNIVGTFIA IQENLTI

References

	« Hide 'large scale' referencesShow 'large scale' references »
[1]	"Molecular cloning and functional analysis of polyphosphoinositide-dependent phospholipase D, PLDbeta, from Arabidopsis." Pappan K., Qin W., Dyer J.H., Zheng L., Wang X. J. Biol. Chem. 272:7055-7061(1997) [PubMed: 9054397] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [MRNA]. Strain: cv. Columbia. Tissue: Hypocotyl.
[2]	Wang X. Submitted (AUG-2001) to the EMBL/GenBank/DDBJ databases Cited for: SEQUENCE REVISION.
[3]	"Sequence and analysis of chromosome 2 of the plant Arabidopsis thaliana." Lin X., Kaul S., Rounsley S.D., Shea T.P., Benito M.-I., Town C.D., Fujii C.Y., Mason T.M., Bowman C.L., Barnstead M.E., Feldblyum T.V., Buell C.R., Ketchum K.A., Lee J.J., Ronning C.M., Koo H.L., Moffat K.S., Cronin L.A. , Shen M., Pai G., Van Aken S., Umayam L., Tallon L.J., Gill J.E., Adams M.D., Carrera A.J., Creasy T.H., Goodman H.M., Somerville C.R., Copenhaver G.P., Preuss D., Nierman W.C., White O., Eisen J.A., Salzberg S.L., Fraser C.M., Venter J.C. Nature 402:761-768(1999) [PubMed: 10617197] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: cv. Columbia.
[4]	"Subcellular distribution and tissue expression of phospholipase Dalpha, Dbeta, and Dgamma in Arabidopsis." Fan L., Zheng S., Cui D., Wang X. Plant Physiol. 119:1371-1378(1999) [PubMed: 10198096] [Abstract] Cited for: SUBCELLULAR LOCATION.
+	Additional computationally mapped references.

Cross-references

Sequence databases
EMBL GenBank DDBJ	U84568 mRNA. Translation: AAC49656.2. Frameshift. U90439 Genomic DNA. Translation: AAB63542.2.
IPI	IPI00538950.
PIR	H84848.
3D structure databases
SMR	P93733. Positions 115-287, 155-301.
ModBase	Search...
Protein-protein interaction databases
STRING	P93733.
Proteomic databases
PRIDE	P93733.
Genome annotation databases
GenomeReviews	Gene locus AT2G42010 in contig CT485783_GR.
Organism-specific databases
TAIR	At2g42010.
Phylogenomic databases
eggNOG	KOG1329.
HOGENOM	HBG748198.
InParanoid	P93733.
PhylomeDB	P93733.
Enzyme and pathway databases
BRENDA	3.1.4.4. 302.
Gene expression databases
ArrayExpress	P93733.
Genevestigator	P93733.
GermOnline	AT2G42010. Arabidopsis thaliana.
Family and domain databases
InterPro	IPR000008. C2_Ca-dep. IPR008973. C2_Ca/lipid-bd_dom_CaLB. 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

PLDB1_ARATH

Accession

Primary (citable) accession number: P93733
Secondary accession number(s): P93745

Entry history

Integrated into UniProtKB/Swiss-Prot:	April 3, 2002
Last sequence update:	April 3, 2002
Last modified:	February 9, 2010
This is version 76 of the entry and version 3 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation project

PPAP (Plant Proteome Annotation Project)