Q93Z04 (PLY13_ARATH) Reviewed, UniProtKB/Swiss-Prot

Names and origin

Protein names

Recommended name:
Probable pectate lyase 13
EC=4.2.2.2

Alternative name(s):
Powdery mildew susceptibility protein
Powdery mildew-resistant mutant 6

Gene names

Name:	PMR6
Ordered Locus Names:	At3g54920
ORF Names:	F28P10_100

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	501 AA.
Sequence status	Complete.
Sequence processing	The displayed sequence is further processed into a mature form.
Protein existence	Evidence at protein level

General annotation (Comments)

Function	Susceptibility factor required for infection by most powdery mildews, but not by unrelated pathogens. Exact function not known, but clearly affects cell wall composition. Ref.1
Catalytic activity	Eliminative cleavage of (1->4)-alpha-D-galacturonan to give oligosaccharides with 4-deoxy-alpha-D-galact-4-enuronosyl groups at their non-reducing ends.
Cofactor	Binds 1 calcium ion. Required for its activity By similarity.
Pathway	Glycan metabolism; pectin degradation; 2-dehydro-3-deoxy-D-gluconate from pectin: step 2/5.
Subcellular location	Cell membrane; Lipid-anchor › GPI-anchor Potential.
Tissue specificity	Expressed equally in mature leaves, buds, flowers, rosettes and roots. Ref.1
Domain	The C-terminal domain not found in other pectate lyase-like protein is required for PMR6 function since the pmr6-2 mutation confers resistance by introducing a frameshift in the mature mRNA which eliminates the C-terminal domain.
Miscellaneous	Pmr6 mutations are pleiotropic, indicating that PMR6 plays a unique role in normal plant growth and development. The increased resistance in mutants is not mediated by the constitutive activation of the SA-dependent or the JA/ethylene-dependent defense pathway.
Sequence similarities	Belongs to the polysaccharide lyase 1 family.
Sequence caution	The sequence CAB41092.1 differs from that shown. Reason: Erroneous gene model prediction.

Ontologies

Keywords
Cellular component	Cell membrane Membrane
Domain	Signal
Ligand	Calcium Metal-binding
Molecular function	Lyase
PTM	GPI-anchor Glycoprotein Lipoprotein
Technical term	Complete proteome Reference proteome
Gene Ontology (GO)
Biological process	cell wall modification involved in multidimensional cell growth Inferred from mutant phenotype Ref.1. Source: TAIR defense response, incompatible interaction Inferred from mutant phenotype Ref.1. Source: TAIR
Cellular component	anchored to membrane Traceable author statement. Source: TAIR plasma membrane Inferred from electronic annotation. Source: UniProtKB-SubCell
Molecular function	metal ion binding Inferred from electronic annotation. Source: UniProtKB-KW pectate lyase activity Inferred from electronic annotation. Source: EC
Complete GO annotation...

Sequence annotation (Features)

	Feature key	Position(s)	Length	Description	Graphical view	Feature identifier
Molecule processing
	Signal peptide	1 – 22	22
	Chain	23 – 474	452	Probable pectate lyase 13		PRO_0000024877
	Propeptide	475 – 501	27	Removed in mature form Potential		PRO_0000024878
Regions
	Compositional bias	58 – 74	17	Poly-Ser
	Compositional bias	430 – 437	8	Poly-Gly
	Compositional bias	457 – 461	5	Poly-Ser
Sites
	Active site	297	1	Potential
	Metal binding	217	1	Calcium By similarity
	Metal binding	241	1	Calcium By similarity
	Metal binding	245	1	Calcium By similarity
Amino acid modifications
	Lipidation	474	1	GPI-anchor amidated serine Potential
	Glycosylation	27	1	N-linked (GlcNAc...) Potential
	Glycosylation	49	1	N-linked (GlcNAc...) Potential
Experimental info
	Mutagenesis	140	1	G → D in pmr6-1; strong powdery mildew resistance, cell walls of plants are enriched for pectins with a lower degree of esterification and an alteration in the H bonding environment of cellulose microfibrils. Ref.1
	Mutagenesis	339	1	P → L in pmr6-5; strong powdery mildew resistance, cell walls of plants are enriched for pectins with a lower degree of esterification and an alteration in the H bonding environment of cellulose microfibrils. Ref.1

Sequences

	Sequence		Length	Mass (Da)
	Q93Z04 [UniParc]. Last modified December 1, 2001. Version 1. Checksum: 9E0DE36DEF4C7ABB	FASTA	501	53,929
	10 20 30 40 50 60 MLLQNFSNTI FLLCLFFTLL SATKPLNLTL PHQHPSPDSV ALHVIRSVNE SLARRQLSSP 70 80 90 100 110 120 SSSSSSSSSS SSSSCRTGNP IDDCWRCSDA DWSTNRQRLA DCSIGFGHGT LGGKNGKIYV 130 140 150 160 170 180 VTDSSDNNPT NPTPGTLRYG VIQEEPLWIV FSSNMLIRLK QELIINSYKT LDGRGSAVHI 190 200 210 220 230 240 TGNGCLTLQY VQHIIIHNLH IYDCKPSAGF EKRGRSDGDG ISIFGSQKIW VDHCSMSHCT 250 260 270 280 290 300 DGLIDAVMGS TAITISNNYF THHDEVMLLG HDDNYAPDTG MQVTIAFNHF GQGLVQRMPR 310 320 330 340 350 360 CRRGYIHVVN NDFTEWKMYA IGGSGNPTIN SQGNRYSAPS DPSAKEVTKR VDSKDDGEWS 370 380 390 400 410 420 NWNWRTEGDL MENGAFFVAS GEGMSSMYSK ASSVDPKAAS LVDQLTRNAG VFGGPRDDQG 430 440 450 460 470 480 QSGNSYSPYG GDGGGGGSSG GSSGGGMDVM GGTTRGSSSS SGDDSNVFQM IFGSDAPSRP 490 500 RLTLLFSLLM ISVLSLSTLL L

References

	« Hide 'large scale' referencesShow 'large scale' references »
[1]	"PMR6, a pectate lyase-like gene required for powdery mildew susceptibility in Arabidopsis." Vogel J.P., Raab T.K., Schiff C., Somerville S.C. Plant Cell 14:2095-2106(2002) [PubMed: 12215508] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [MRNA], FUNCTION, TISSUE SPECIFICITY, MUTAGENESIS OF GLY-140 AND PRO-339.
[2]	"Sequence and analysis of chromosome 3 of the plant Arabidopsis thaliana." Salanoubat M., Lemcke K., Rieger M., Ansorge W., Unseld M., Fartmann B., Valle G., Bloecker H., Perez-Alonso M., Obermaier B., Delseny M., Boutry M., Grivell L.A., Mache R., Puigdomenech P., De Simone V., Choisne N., Artiguenave F. , Robert C., Brottier P., Wincker P., Cattolico L., Weissenbach J., Saurin W., Quetier F., Schaefer M., Mueller-Auer S., Gabel C., Fuchs M., Benes V., Wurmbach E., Drzonek H., Erfle H., Jordan N., Bangert S., Wiedelmann R., Kranz H., Voss H., Holland R., Brandt P., Nyakatura G., Vezzi A., D'Angelo M., Pallavicini A., Toppo S., Simionati B., Conrad A., Hornischer K., Kauer G., Loehnert T.-H., Nordsiek G., Reichelt J., Scharfe M., Schoen O., Bargues M., Terol J., Climent J., Navarro P., Collado C., Perez-Perez A., Ottenwaelder B., Duchemin D., Cooke R., Laudie M., Berger-Llauro C., Purnelle B., Masuy D., de Haan M., Maarse A.C., Alcaraz J.-P., Cottet A., Casacuberta E., Monfort A., Argiriou A., Flores M., Liguori R., Vitale D., Mannhaupt G., Haase D., Schoof H., Rudd S., Zaccaria P., Mewes H.-W., Mayer K.F.X., Kaul S., Town C.D., Koo H.L., Tallon L.J., Jenkins J., Rooney T., Rizzo M., Walts A., Utterback T., Fujii C.Y., Shea T.P., Creasy T.H., Haas B., Maiti R., Wu D., Peterson J., Van Aken S., Pai G., Militscher J., Sellers P., Gill J.E., Feldblyum T.V., Preuss D., Lin X., Nierman W.C., Salzberg S.L., White O., Venter J.C., Fraser C.M., Kaneko T., Nakamura Y., Sato S., Kato T., Asamizu E., Sasamoto S., Kimura T., Idesawa K., Kawashima K., Kishida Y., Kiyokawa C., Kohara M., Matsumoto M., Matsuno A., Muraki A., Nakayama S., Nakazaki N., Shinpo S., Takeuchi C., Wada T., Watanabe A., Yamada M., Yasuda M., Tabata S. Nature 408:820-822(2000) [PubMed: 11130713] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: cv. Columbia.
[3]	The Arabidopsis Information Resource (TAIR) Submitted (APR-2011) to the EMBL/GenBank/DDBJ databases Cited for: GENOME REANNOTATION. Strain: cv. Columbia.
[4]	"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]. Strain: cv. Columbia.
+	Additional computationally mapped references.

Cross-references

Sequence databases
EMBL GenBank DDBJ	AF534079 mRNA. Translation: AAM97687.1. AL049655 Genomic DNA. Translation: CAB41092.1. Sequence problems. CP002686 Genomic DNA. Translation: AEE79313.1. AY058870 mRNA. Translation: AAL24257.1. AY074331 mRNA. Translation: AAL67027.1. AY096739 mRNA. Translation: AAM20373.1.
IPI	IPI00533537.
PIR	T06728.
RefSeq	NP_191052.2. NM_115349.5.
UniGene	At.3109.
3D structure databases
ProteinModelPortal	Q93Z04.
SMR	Q93Z04. Positions 78-413.
ModBase	Search...
Protein-protein interaction databases
STRING	Q93Z04.
Protein family/group databases
CAZy	PL1. Polysaccharide Lyase Family 1.
Protocols and materials databases
StructuralBiologyKnowledgebase	Search...
Genome annotation databases
EnsemblPlants	AT3G54920.1; AT3G54920.1; AT3G54920.
GeneID	824657.
GenomeReviews	Gene locus AT3G54920 in contig BA000014_GR.
KEGG	ath:AT3G54920.
NMPDR	fig|3702.1.peg.16800.
Organism-specific databases
TAIR	At3g54920.
Phylogenomic databases
eggNOG	euNOG10883.
GeneTree	EPGT00050000008990.
HOGENOM	HBG317381.
InParanoid	Q93Z04.
OMA	SAVHITG.
PhylomeDB	Q93Z04.
ProtClustDB	CLSN2917969.
Gene expression databases
ArrayExpress	Q93Z04.
Genevestigator	Q93Z04.
GermOnline	AT3G54920. Arabidopsis thaliana.
Family and domain databases
InterPro	IPR002022. Amb_allergen. IPR018082. AmbAllergen. IPR012334. Pectin_lyas_fold. IPR011050. Pectin_lyase_fold/virulence. [Graphical view]
Gene3D	G3DSA:2.160.20.10. Pectin_lyas_fold. 1 hit.
KO	K01728.
Pfam	PF00544. Pec_lyase_C. 1 hit. [Graphical view]
PRINTS	PR00807. AMBALLERGEN.
SMART	SM00656. Amb_all. 1 hit. [Graphical view]
SUPFAM	SSF51126. Pectin_lyas_like. 1 hit.
ProtoNet	Search...

Entry information

Entry name

PLY13_ARATH

Accession

Primary (citable) accession number: Q93Z04
Secondary accession number(s): Q9SV40

Entry history

Integrated into UniProtKB/Swiss-Prot:	June 16, 2003
Last sequence update:	December 1, 2001
Last modified:	December 14, 2011
This is version 87 of the entry and version 1 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Plant Protein Annotation Program