P93733 (PLDB1_ARATH) Reviewed, UniProtKB/Swiss-Prot

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)

Taxonomic identifier

3702 [NCBI]

Taxonomic lineage

Eukaryota › Viridiplantae › Streptophyta › Embryophyta › Tracheophyta › Spermatophyta › Magnoliophyta › eudicotyledons › core eudicotyledons › rosids › malvids › Brassicales › Brassicaceae › Camelineae › Arabidopsis

Protein attributes

Sequence length	1083 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.5.
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 AAB63542.2 differs from that shown. Reason: Erroneous initiation. Translation N-terminally extended. The sequence AAC49656.2 differs from that shown. Reason: Sequencing errors.

Ontologies

Keywords
Biological process	Lipid degradation
Cellular component	Cytoplasm Membrane
Domain	Repeat
Ligand	Calcium
Molecular function	Hydrolase
Technical term	Complete proteome Reference 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 membrane Inferred from electronic annotation. Source: UniProtKB-SubCell plasmodesma 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: InterPro phosphatidylinositol-4,5-bisphosphate binding Inferred from direct assay. Source: TAIR 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 – 1083	1083	Phospholipase D beta 1		PRO_0000218810
Regions
	Domain	260 – 377	118	C2
	Domain	595 – 630	36	PLD phosphodiesterase 1
	Domain	929 – 956	28	PLD phosphodiesterase 2
	Compositional bias	6 – 147	142	Pro-rich
Sites
	Active site	600	1	Potential
	Active site	602	1	Potential
	Active site	607	1	Potential
	Active site	934	1	Potential
	Active site	936	1	Potential
	Active site	941	1	Potential

Sequences

	Sequence		Length	Mass (Da)
	P93733 [UniParc]. Last modified January 25, 2012. Version 4. Checksum: 4A3558560FF8CFEB	FASTA	1,083	121,101
	10 20 30 40 50 60 MDNHGPRYPY PYGQYPYPYP YPAPYRPPSS EPYPPPPTNQ YSAPYYPYPP PPYATPPPYA 70 80 90 100 110 120 SPPPPHQHTS GSHSGPLDYS HNPQPSSLAA APPEYHRHSF DYQPSPYPYQ PQGNFGAYGP 130 140 150 160 170 180 PPPHYSYQEP AQYPPPETKP QEPLPPPQQT QGFQEYRRQD CLSTGGTGHD NVSNSGSSYP 190 200 210 220 230 240 PVDELLGGLH ISTNQPGPSV PQLSSLPSNS WQSRPGDLYG YPNSSFPSNS HLPQLGRVDS 250 260 270 280 290 300 SSSYYASTES PHSADMQMTL FGKGSLKVLL LHGNLDIWIY HAKNLPNMDM FHKTLGDMFG 310 320 330 340 350 360 RLPGKIEGQL TSKITSDPYV SVSVAGAVIG RTYVMSNSEN PVWMQHFYVP VAHHAAEVHF 370 380 390 400 410 420 VVKDSDVVGS QLIGLVTIPV EQIYSGAKIE GTYPILNSNG KPCKPGANLS LSIQYTPMDK 430 440 450 460 470 480 LSVYHHGVGA GPDYQGVPGT YFPLRKGGTV RLYQDAHVPE GMLPGIRLDN GMSYEHGKCW 490 500 510 520 530 540 HDMFDAIRQA RRLIYITGWS VWHKVKLIRD KLGPASECTL GELLRSKSQE GVRVLLLIWD 550 560 570 580 590 600 DPTSRSILGY KTDGVMATHD EETRRFFKHS SVQVLLCPRN AGKRHSWVKQ REVGTIYTHH 610 620 630 640 650 660 QKNVIVDADA GGNRRKIIAF VGGLDLCDGR YDTPQHPLFR TLQTIHKDDF HNPTFTGNLS 670 680 690 700 710 720 GCPREPWHDL HSKIDGPAAY DVLTNFEERW LKAAKPSGIK KFKTSYDDAL LRIDRIPDIL 730 740 750 760 770 780 GVSDTPTVSE NDPEAWHVQI FRSIDSNSVK GFPKDPKDAT CKNLVCGKNV LIDMSIHTAY 790 800 810 820 830 840 VKAIRAAQHF IYIENQYFIG SSYNWNAHKD IGANNLIPME IALKIAEKIR ANERFAAYIV 850 860 870 880 890 900 IPMWPEGVPT GAATQRILYW QHKTIQMMYE TIYKALVETG LEGAFSPQDY LNFFCLGNRE 910 920 930 940 950 960 MVDGIDNSGT GSPSNANTPQ ALSRKSRRFM VYVHSKGMVV DDEYVVIGSA NINQRSMEGT 970 980 990 1000 1010 1020 RDTEIAMGAY QPQHTWARKH SGPRGQIYGY RMSLWAEHMA TLDDCFTQPE SIECVRKVRT 1030 1040 1050 1060 1070 1080 MGERNWKQFA AEEVSDMRGH LLKYPVEVDR KGKVRPLPGS ETFPDVGGNI VGSFIAIQEN LTI

References

	« Hide 'large scale' referencesShow 'large scale' references »
[1]	"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.
[2]	The Arabidopsis Information Resource (TAIR) Submitted (APR-2011) to the EMBL/GenBank/DDBJ databases Cited for: GENOME REANNOTATION. Strain: cv. Columbia.
[3]	"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] OF 60-1083. Strain: cv. Columbia. Tissue: Hypocotyl.
[4]	Wang X. Submitted (AUG-2001) to the EMBL/GenBank/DDBJ databases Cited for: SEQUENCE REVISION.
[5]	"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	U90439 Genomic DNA. Translation: AAB63542.2. Different initiation. CP002685 Genomic DNA. Translation: AEC10063.1. U84568 mRNA. Translation: AAC49656.2. Sequence problems.
IPI	IPI00538950. IPI01019586.
PIR	H84848.
3D structure databases
ProteinModelPortal	P93733.
SMR	P93733. Positions 158-300.
ModBase	Search...
Protein-protein interaction databases
IntAct	P93733. 1 interaction.
STRING	P93733.
Proteomic databases
PRIDE	P93733.
Protocols and materials databases
StructuralBiologyKnowledgebase	Search...
Genome annotation databases
GenomeReviews	Gene locus AT2G42010 in contig CT485783_GR.
Organism-specific databases
TAIR	At2g42010.
Phylogenomic databases
eggNOG	KOG1329.
GeneTree	EPGT00070000029289.
HOGENOM	HBG748198.
InParanoid	P93733.
PhylomeDB	P93733.
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. PLipase_D. IPR001736. PLipase_D/transphosphatidylase. IPR024632. PLipase_D_C. IPR011402. PLipase_D_pln. [Graphical view]
PANTHER	PTHR18896. Phospholipase_D. 1 hit.
Pfam	PF00168. C2. 1 hit. PF12357. PLD_C. 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]
SUPFAM	SSF49562. C2_CaLB. 1 hit.
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): F4ILZ0, P93745

Entry history

Integrated into UniProtKB/Swiss-Prot:	April 3, 2002
Last sequence update:	January 25, 2012
Last modified:	January 25, 2012
This is version 90 of the entry and version 4 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Plant Protein Annotation Program