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Q9C5M8 (PLY18_ARATH) Reviewed, UniProtKB/Swiss-Prot

Last modified December 14, 2011. Version 86. Feed History...

Clusters with 100%, 90%, 50% identity | Documents (3) | Third-party data text xml rdf/xml gff fasta
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to top of pageNames·Attributes·General annotation·Ontologies·Sequence annotation·Sequences·References·Cross-refs·Entry info·DocumentsCustomize order

Names and origin

Protein namesRecommended name:
Probable pectate lyase 18
EC=4.2.2.2
Alternative name(s):
Pectate lyase A10
Gene names
Ordered Locus Names:At4g24780
ORF Names:F22K18.20
OrganismArabidopsis thaliana (Mouse-ear cress)
Taxonomic identifier3702 [NCBI]
Taxonomic lineageEukaryota › Viridiplantae › Streptophyta › Embryophyta › Tracheophyta › Spermatophyta › Magnoliophyta › eudicotyledons › core eudicotyledons › rosids › malvids › Brassicales › Brassicaceae › Camelineae › Arabidopsis

Protein attributes

Sequence length408 AA.
Sequence statusComplete.
Sequence processingThe displayed sequence is further processed into a mature form.
Protein existenceEvidence at transcript level

General annotation (Comments)

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.

Tissue specificity

Expressed in flowers, but not in leaves. Ref.5

Sequence similarities

Belongs to the polysaccharide lyase 1 family.

Sequence caution

The sequence AAM65103.1 differs from that shown. Reason: Erroneous initiation.

The sequence CAA22985.1 differs from that shown. Reason: Erroneous gene model prediction.

The sequence CAB79388.1 differs from that shown. Reason: Erroneous gene model prediction.

Ontologies

Keywords
   DomainSignal
   LigandCalcium
Metal-binding
   Molecular functionLyase
   PTMGlycoprotein
   Technical termComplete proteome
Reference proteome
Gene Ontology (GO)
   Cellular componentmembrane

Inferred from direct assay. Source: TAIR

   Molecular functionmetal 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 keyPosition(s)LengthDescriptionGraphical viewFeature identifier

Molecule processing

Signal peptide1 – 2424 Potential
Chain25 – 408384Probable pectate lyase 18
PRO_0000024883

Sites

Active site2861 Potential
Metal binding2061Calcium By similarity
Metal binding2301Calcium By similarity
Metal binding2341Calcium By similarity

Amino acid modifications

Glycosylation421N-linked (GlcNAc...) Potential

Experimental info

Sequence conflict1071D → Y in AAM65103. Ref.4
Sequence conflict2521H → R in AAB69761. Ref.5
Sequence conflict2711Q → H in AAK25850. Ref.3
Sequence conflict3391H → D in AAM65103. Ref.4

Sequences

Sequence LengthMass (Da)Tools
Q9C5M8 [UniParc].

Last modified June 16, 2003. Version 2.
Checksum: 4117CB52C48E588C

FASTA40845,014
        10         20         30         40         50         60 
MKMQTKKLFI TIVSFLLYAP LFLSSPVPDP ESVVEEVHKS INASVAGRRK LGYLSCTTGN 

        70         80         90        100        110        120 
PIDDCWRCDP HWEQHRQRLA DCAIGFGKNA IGGRDGRIYV VTDSGNDNPV SPKPGTLRHA 

       130        140        150        160        170        180 
VVQDEPLWII FQRDMTIQLK EELIMNSFKT IDGRGASVHI SGGPCITIQY VTNIIIHGIH 

       190        200        210        220        230        240 
IHDCKQGGNA MVRSSPRHFG WRTISDGDGV SIFGGSHVWV DHCSFSNCED GLIDAIMGST 

       250        260        270        280        290        300 
AITLSNNHMT HHDKVMLLGH SDTYSRDKNM QVTIAFNHFG EGLVQRMPRC RHGYFHVVNN 

       310        320        330        340        350        360 
DYTHWEMYAI GGSANPTINS QGNRFLAPNI RFSKEVTKHE DAPESEWKRW NWRSSGDLLL 

       370        380        390        400 
NGAFFTPSGG AASSSYAKAS SLGAKPSSLV GPLTSTSGAL NCRKGSRC

« Hide

References

« Hide 'large scale' references
[1]"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. expand/collapse author list , 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.
[2]The Arabidopsis Information Resource (TAIR)
Submitted (APR-2011) to the EMBL/GenBank/DDBJ databases
Cited for: GENOME REANNOTATION.
Strain: cv. Columbia.
[3]"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. expand/collapse author list , 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.
[4]"Full-length cDNA from Arabidopsis thaliana."
Brover V.V., Troukhan M.E., Alexandrov N.A., Lu Y.-P., Flavell R.B., Feldmann K.A.
Submitted (MAR-2002) to the EMBL/GenBank/DDBJ databases
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
[5]"Identification of the tobacco and Arabidopsis homologues of the pollen-expressed LAT59 gene of tomato."
Kulikauskas R., McCormick S.
Plant Mol. Biol. 34:809-814(1997) [PubMed: 9278171] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA] OF 73-298, TISSUE SPECIFICITY.
+Additional computationally mapped references.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ		AL035356 Genomic DNA. Translation: CAA22985.1. Sequence problems.
AL161562 Genomic DNA. Translation: CAB79388.1. Sequence problems.
CP002687 Genomic DNA. Translation: AEE84955.1.
CP002687 Genomic DNA. Translation: AEE84956.1.
AF360140 mRNA. Translation: AAK25850.1.
AY087561 mRNA. Translation: AAM65103.1. Different initiation.
U83621 Genomic DNA. Translation: AAB69761.1.
IPIIPI00528088.
PIRT05556.
RefSeqNP_001190827.1. NM_001203898.1.
NP_567707.1. NM_118611.2.
UniGeneAt.23543.

3D structure databases

ProteinModelPortalQ9C5M8.
SMRQ9C5M8. Positions 59-401.
ModBaseSearch...

Protein-protein interaction databases

STRINGQ9C5M8.

Protein family/group databases

CAZyPL1. Polysaccharide Lyase Family 1.

Proteomic databases

PRIDEQ9C5M8.

Protocols and materials databases

StructuralBiologyKnowledgebaseSearch...

Genome annotation databases

EnsemblPlantsAT4G24780.1; AT4G24780.1; AT4G24780.
AT4G24780.2; AT4G24780.2; AT4G24780.
GeneID828580.
GenomeReviewsGene locus AT4G24780 in contig CT486007_GR.
KEGGath:AT4G24780.
NMPDRfig|3702.1.peg.20377.

Organism-specific databases

TAIRAt4g24780.

Phylogenomic databases

eggNOGCOG3866.
GeneTreeEPGT00050000008990.
HOGENOMHBG317381.
InParanoidQ9C5M8.
OMANNDYSHW.
PhylomeDBQ9C5M8.
ProtClustDBCLSN2917605.

Gene expression databases

ArrayExpressQ9C5M8.
GenevestigatorQ9C5M8.
GermOnlineAT4G24780. Arabidopsis thaliana.

Family and domain databases

InterProIPR002022. Amb_allergen.
IPR018082. AmbAllergen.
IPR006626. PbH1.
IPR012334. Pectin_lyas_fold.
IPR011050. Pectin_lyase_fold/virulence.
[Graphical view]
Gene3DG3DSA:2.160.20.10. Pectin_lyas_fold. 1 hit.
KOK01728.
PfamPF00544. Pec_lyase_C. 1 hit.
[Graphical view]
PRINTSPR00807. AMBALLERGEN.
SMARTSM00656. Amb_all. 1 hit.
SM00710. PbH1. 2 hits.
[Graphical view]
SUPFAMSSF51126. Pectin_lyas_like. 1 hit.
ProtoNetSearch...

Entry information

Entry namePLY18_ARATH
AccessionPrimary (citable) accession number: Q9C5M8
Secondary accession number(s): O23667, Q8LAW7, Q9SB71
Entry history
Integrated into UniProtKB/Swiss-Prot: June 16, 2003
Last sequence update: June 16, 2003
Last modified: December 14, 2011
This is version 86 of the entry and version 2 of the sequence. [Complete history]
Entry statusReviewed (UniProtKB/Swiss-Prot)
Annotation programPlant Protein Annotation Program

Relevant documents

Arabidopsis thaliana

Arabidopsis thaliana: entries and gene names

PATHWAY comments

Index of metabolic and biosynthesis pathways

SIMILARITY comments

Index of protein domains and families

to top of pageNames·Attributes·General annotation·Ontologies·Sequence annotation·Sequences·References·Cross-refs·Entry info·Documents