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Protein

Probable pectate lyase 12

Gene

At3g53190

Organism
Arabidopsis thaliana (Mouse-ear cress)
Status
Reviewed-Annotation score: Annotation score: 3 out of 5-Experimental evidence at transcript leveli

Functioni

Catalytic activityi

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.

Cofactori

Ca2+By similarityNote: Binds 1 Ca2+ ion. Required for its activity.By similarity

Pathwayi: pectin degradation

This protein is involved in step 2 of the subpathway that synthesizes 2-dehydro-3-deoxy-D-gluconate from pectin.
Proteins known to be involved in the 5 steps of the subpathway in this organism are:
  1. Probable pectinesterase/pectinesterase inhibitor 7 (PME7), Pectinesterase (AXX17_At1g11890), Pectinesterase (AXX17_At4g02940), Pectinesterase (AXX17_At5g52320), Probable pectinesterase/pectinesterase inhibitor 42 (PME42), Probable pectinesterase 15 (PME15), Putative pectinesterase 14 (PME14), Pectinesterase (At3g10720), Pectinesterase (AXX17_At2g33410), Probable pectinesterase 55 (PME55), Probable pectinesterase/pectinesterase inhibitor 23 (PME23), Pectinesterase (AXX17_At4g18720), Pectinesterase 4 (PME4), Putative pectinesterase/pectinesterase inhibitor 22 (PME22), Pectinesterase (AXX17_At1g48290), Pectinesterase (AXX17_At5g47900), Pectinesterase (At3g14310), Pectinesterase (AXX17_At4g38050), Pectinesterase (AXX17_At5g07100), Pectinesterase/pectinesterase inhibitor 18 (PME18), Pectinesterase (AXX17_At2g14510), Pectinesterase (AXX17_At3g43380), Pectinesterase (AXX17_At5g64270), Putative pectinesterase 10 (PME10), Probable pectinesterase/pectinesterase inhibitor 64 (PME64), Pectinesterase (F14I3.7), Probable pectinesterase 29 (PME29), Pectinesterase, Pectinesterase (AXX17_At4g38040), Probable pectinesterase 8 (PME8), Pectinesterase (AXX17_At5g27870), Pectinesterase (AXX17_At5g18820), Pectinesterase (AXX17_At2g45340), Pectinesterase 31 (PME31), Pectinesterase (AXX17_At3g41380), Pectinesterase (AXX17_At1g11650), Probable pectinesterase/pectinesterase inhibitor 25 (PME25), Probable pectinesterase/pectinesterase inhibitor 51 (PME51), Pectinesterase (AXX17_At3g36460), Pectinesterase (AXX17_At5g04430), Pectinesterase (At3g62170), Probable pectinesterase/pectinesterase inhibitor 20 (PME20), Pectinesterase (T27B3.30), Probable pectinesterase/pectinesterase inhibitor 60 (PME60), Pectinesterase QRT1 (QRT1), Probable pectinesterase/pectinesterase inhibitor 59 (PME59), Pectinesterase (AXX17_At3g53530), Pectinesterase (AXX17_At5g61190), Pectinesterase PPME1 (PPME1), Pectinesterase (AXX17_At3g56460), Pectinesterase (AXX17_At3g06710), Probable pectinesterase/pectinesterase inhibitor 32 (PME32), Pectinesterase (AXX17_At1g44540), Probable pectinesterase/pectinesterase inhibitor 33 (PME33), Probable pectinesterase/pectinesterase inhibitor 36 (PME36), Probable pectinesterase/pectinesterase inhibitor 13 (PME13), Putative pectinesterase 52 (PME52), Probable pectinesterase/pectinesterase inhibitor 54 (PME54), Pectinesterase (AXX17_At2g33420), Pectinesterase (AXX17_At2g40510), Pectinesterase (At1g53840), Pectinesterase 5 (PME5), Probable pectinesterase/pectinesterase inhibitor 16 (PME16), Probable pectinesterase 30 (PME30), Probable pectinesterase/pectinesterase inhibitor VGDH2 (VGDH2), Pectinesterase (AXX17_At3g26070), Probable pectinesterase 68 (PME68), Pectinesterase, Pectinesterase (AXX17_At3g14900), Pectinesterase (AXX17_At5g54740), Probable pectinesterase 67 (PME67), Putative pectinesterase/pectinesterase inhibitor 38 (PME38), Probable pectinesterase 56 (PME56), Pectinesterase, Putative pectinesterase/pectinesterase inhibitor 28 (PME28), Probable pectinesterase/pectinesterase inhibitor 47 (PME47), Probable pectinesterase/pectinesterase inhibitor 46 (PME46), Probable pectinesterase 53 (PME53), Pectinesterase (AXX17_At5g07090), Probable pectinesterase/pectinesterase inhibitor 17 (PME17), Pectinesterase (AXX17_At2g22270), Probable pectinesterase/pectinesterase inhibitor 61 (PME61), Probable pectinesterase 66 (PME66), Pectinesterase (AXX17_At2g42790), Pectinesterase (AXX17_At5g45990), Probable pectinesterase/pectinesterase inhibitor 6 (PME6), Probable pectinesterase 48 (PME48), Probable pectinesterase 49 (PME49), Pectinesterase (AXX17_At1g64100), Probable pectinesterase 50 (PME50), Pectinesterase (AXX17_At3g17940), Pectinesterase, Probable pectinesterase/pectinesterase inhibitor 19 (PME19), Pectinesterase (AXX17_At2g45050), Probable pectinesterase/pectinesterase inhibitor 40 (PME40), Pectinesterase (AXX17_At1g11920), Pectinesterase (AXX17_At3g30550), PME26 (AXX17_At3g14890), Probable pectinesterase/pectinesterase inhibitor 39 (PME39), Pectinesterase (AXX17_At2g44790), Pectinesterase (AXX17_At2g17140), Pectinesterase (AXX17_At5g19650), Putative pectinesterase/pectinesterase inhibitor 43 (PME43), Pectinesterase (AXX17_At3g31890), Pectinesterase (AXX17_At4g02900), Probable pectinesterase/pectinesterase inhibitor 34 (PME34), Pectinesterase 1 (PME1), Putative pectinesterase 63 (PME63), Pectinesterase (AXX17_At3g05180), Pectinesterase 2 (PME2), Probable pectinesterase/pectinesterase inhibitor 21 (PME21), Pectinesterase (AXX17_At2g22280), Pectinesterase (AXX17_At1g51200), Putative pectinesterase/pectinesterase inhibitor 45 (PME45), Probable pectinesterase/pectinesterase inhibitor 12 (PME12), Pectinesterase (AXX17_At4g02930), Probable pectinesterase/pectinesterase inhibitor 44 (PME44), Pectinesterase, Pectinesterase/pectinesterase inhibitor 3 (PME3), Pectinesterase (AXX17_At1g24390), Pectinesterase (AXX17_At5g50300), Pectinesterase (AXX17_At1g11900), Probable pectinesterase/pectinesterase inhibitor 58 (PME58), Putative pectinesterase 57 (PME57), Pectinesterase (AXX17_At3g10560), Pectinesterase (AXX17_At3g55110), Pectinesterase (AXX17_At3g10570), Putative pectinesterase 11 (PME11), Pectinesterase (AXX17_At1g01970), Pectinesterase (AXX17_At5g07110), Pectinesterase (AXX17_At4g06570), Pectinesterase (AXX17_At5g50310), Pectinesterase, Pectinesterase (AXX17_At1g51190), Pectinesterase (AXX17_At2g33420), Pectinesterase (AXX17_At1g48300), Pectinesterase (AXX17_At3g05190), Putative pectinesterase/pectinesterase inhibitor 24 (PME24), Putative pectinesterase/pectinesterase inhibitor 26 (PME26), Probable pectinesterase/pectinesterase inhibitor 35 (PME35), Pectinesterase (AXX17_At5g04420), Pectinesterase (AXX17_At2g44780), Pectinesterase (AXX17_At4g00230), Pectinesterase (AXX17_At5g09310), Pectinesterase (AXX17_At5g20800), Pectinesterase (AXX17_At1g04730), Probable pectinesterase/pectinesterase inhibitor 41 (PME41), Pectinesterase (AXX17_At1g11660), Pectinesterase (AXX17_At5g26780)
  2. Pectate lyase (AXX17_At3g26720), Probable pectate lyase 7 (At3g01270), Probable pectate lyase 18 (At4g24780), Probable pectate lyase 16 (At4g22080), Putative pectate lyase 17 (At4g22090), Pectate lyase (AXX17_At3g09180), Putative pectate lyase 14 (At4g13210), Pectate lyase (At3g55140), Pectate lyase (AXX17_At5g54880), Pectate lyase (AXX17_At4g15660), Probable pectate lyase 22 (At5g63180), Pectate lyase (T5E8_80), Pectate lyase (AXX17_At3g00310), Pectate lyase (At3g07010), Probable pectate lyase 8 (At3g07010), Probable pectate lyase 4 (At1g30350), Pectate lyase (AXX17_At2g01680), Putative pectate lyase 21 (At5g55720), Pectate lyase (At4g13210), Pectate lyase (At5g04310), Pectate lyase (AXX17_At5g03700), Pectate lyase (At4g13710), Pectate lyase (AXX17_At3g49720), Pectate lyase (At3g01270), Pectate lyase (At5g04310), Pectate lyase (AXX17_At1g12300), Probable pectate lyase 9 (At3g24230), Probable pectate lyase 1 (At1g04680), Pectate lyase (AXX17_At5g08800), Pectate lyase (T26I12.20), Pectate lyase (AXX17_At5g62760), Pectate lyase (AXX17_At3g47590), Pectate lyase (AXX17_At4g14900), Pectate lyase (AXX17_At3g49450), Pectate lyase (AXX17_At4g25600), Pectate lyase (AXX17_At1g61710), Probable pectate lyase 20 (At5g48900), Pectate lyase (AXX17_At5g47570), Probable pectate lyase 6 (At2g02720), Pectate lyase (AXX17_At3g06910), Pectate lyase (At1g14420), Pectate lyase (At3g01270), Pectate lyase (At2g02720), Pectate lyase (AXX17_At1g04020), Pectate lyase (At3g01270), Pectate lyase (At3g55140), Putative pectate lyase 2 (At1g11920), Pectate lyase, Pectate lyase (AXX17_At1g30780), Probable pectate lyase 19 (At5g15110), Pectate lyase (F11F8_12), Probable pectate lyase 13 (PMR6), Probable pectate lyase 3 (AT59), Pectate lyase (AXX17_At3g26200), Probable pectate lyase 5 (At1g67750), Probable pectate lyase 12 (At3g53190), Pectate lyase (At4g24780), Pectate lyase (AXX17_At4g25610), Probable pectate lyase 15 (At4g13710), Pectate lyase (At3g53190), Putative pectate lyase 11 (At3g27400), Pectate lyase (AXX17_At1g15010), Pectate lyase (At3g07010), Pectate lyase (AXX17_At3g29900), Pectate lyase (AXX17_At5g14600), Probable pectate lyase 10 (At3g24670)
  3. no protein annotated in this organism
  4. no protein annotated in this organism
  5. no protein annotated in this organism
This subpathway is part of the pathway pectin degradation, which is itself part of Glycan metabolism.
View all proteins of this organism that are known to be involved in the subpathway that synthesizes 2-dehydro-3-deoxy-D-gluconate from pectin, the pathway pectin degradation and in Glycan metabolism.

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Metal bindingi220CalciumBy similarity1
Metal bindingi244CalciumBy similarity1
Metal bindingi248CalciumBy similarity1
Active sitei300Sequence analysis1

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

Lyase

Keywords - Ligandi

Calcium, Metal-binding

Enzyme and pathway databases

BioCyciARA:AT3G53190-MONOMER.
UniPathwayiUPA00545; UER00824.

Protein family/group databases

CAZyiPL1. Polysaccharide Lyase Family 1.

Names & Taxonomyi

Protein namesi
Recommended name:
Probable pectate lyase 12 (EC:4.2.2.2)
Gene namesi
Ordered Locus Names:At3g53190
ORF Names:T4D2.120
OrganismiArabidopsis thaliana (Mouse-ear cress)
Taxonomic identifieri3702 [NCBI]
Taxonomic lineageiEukaryotaViridiplantaeStreptophytaEmbryophytaTracheophytaSpermatophytaMagnoliophytaeudicotyledonsGunneridaePentapetalaerosidsmalvidsBrassicalesBrassicaceaeCamelineaeArabidopsis
Proteomesi
  • UP000006548 Componenti: Chromosome 3

Organism-specific databases

TAIRiAT3G53190.

Subcellular locationi

GO - Cellular componenti

  • anchored component of membrane Source: TAIR
Complete GO annotation...

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Signal peptidei1 – 24Sequence analysisAdd BLAST24
ChainiPRO_000002487625 – 483Probable pectate lyase 12Add BLAST459

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Glycosylationi27N-linked (GlcNAc...)Sequence analysis1
Glycosylationi50N-linked (GlcNAc...)Sequence analysis1

Keywords - PTMi

Glycoprotein

Proteomic databases

PaxDbiQ9SCP2.

Expressioni

Gene expression databases

ExpressionAtlasiQ9SCP2. baseline and differential.
GenevisibleiQ9SCP2. AT.

Interactioni

Protein-protein interaction databases

BioGridi9802. 16 interactors.
STRINGi3702.AT3G53190.1.

Structurei

3D structure databases

ProteinModelPortaliQ9SCP2.
SMRiQ9SCP2.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

Belongs to the polysaccharide lyase 1 family.Curated

Keywords - Domaini

Signal

Phylogenomic databases

eggNOGiENOG410IGFP. Eukaryota.
COG3866. LUCA.
HOGENOMiHOG000237948.
InParanoidiQ9SCP2.
KOiK01728.
OMAiRYTAPTN.
OrthoDBiEOG09360ASQ.
PhylomeDBiQ9SCP2.

Family and domain databases

Gene3Di2.160.20.10. 1 hit.
InterProiIPR002022. Amb_allergen_dom.
IPR018082. AmbAllergen.
IPR012334. Pectin_lyas_fold.
IPR011050. Pectin_lyase_fold/virulence.
[Graphical view]
PfamiPF00544. Pec_lyase_C. 1 hit.
[Graphical view]
PRINTSiPR00807. AMBALLERGEN.
SMARTiSM00656. Amb_all. 1 hit.
[Graphical view]
SUPFAMiSSF51126. SSF51126. 1 hit.

Sequencei

Sequence statusi: Complete.

Sequence processingi: The displayed sequence is further processed into a mature form.

Q9SCP2-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MMLQRSCIVL FFSLFLLVPQ MVFSMLNRTL LLIPHPDPEL VAYQVQWKVN
60 70 80 90 100
ASITRRQALD TTDQAGSTPC ITGNPIDDCW KCDPNWPNNR QGLADCGIGF
110 120 130 140 150
GQYALGGKGG QFYFVTDSSD DDAVNPKPGT LRYGVIQEEP LWIVFPSNMM
160 170 180 190 200
IKLKQELIFN SYKTLDGRGA NVHIVGGGCI TLQYVSNIII HNIHIHHCYQ
210 220 230 240 250
SGNTNVRSSP THYGFRTKSD GDGISIFGSK DIWIDHCSLS RCKDGLIDAV
260 270 280 290 300
MGSTGITISN NFFSHHNEVM LLGHSDHYEP DSGMQVTIAF NHFGEKLIQR
310 320 330 340 350
MPRCRRGYIH VVNNDFTQWE MYAIGGSGNP TINSQGNRYT APTNPFAKEV
360 370 380 390 400
TKRVETPDGD WKGWNWRSEG DILVNGAFFV ASGEGAEMRY EKAYSVEPKS
410 420 430 440 450
ASFITQITFH SGVLGVGGRN NNLGMWTTTG SEGTSGLDSY NDYTDEMSGA
460 470 480
GSTNRLSFSV LVFLLSSISY LVVFTSSTQM FML
Length:483
Mass (Da):53,593
Last modified:June 16, 2003 - v2
Checksum:i5A1FC9726BBA5190
GO

Sequence cautioni

The sequence AAM61400 differs from that shown. Reason: Erroneous initiation.Curated
The sequence CAB64222 differs from that shown. Reason: Erroneous initiation.Curated

Experimental Info

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Sequence conflicti17L → F in AAM61400 (Ref. 3) Curated1
Sequence conflicti21 – 22MV → KG in AAM61400 (Ref. 3) Curated2
Sequence conflicti25M → I in AAM61400 (Ref. 3) Curated1
Sequence conflicti28R → T in AAM61400 (Ref. 3) Curated1
Sequence conflicti33I → V in AAM61400 (Ref. 3) Curated1

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AL132958 Genomic DNA. Translation: CAB64222.1. Different initiation.
CP002686 Genomic DNA. Translation: AEE79046.1.
AY084835 mRNA. Translation: AAM61400.1. Different initiation.
PIRiT46165.
RefSeqiNP_566979.1. NM_115179.5.
UniGeneiAt.28000.
At.74285.

Genome annotation databases

EnsemblPlantsiAT3G53190.1; AT3G53190.1; AT3G53190.
GeneIDi824485.
GrameneiAT3G53190.1; AT3G53190.1; AT3G53190.
KEGGiath:AT3G53190.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AL132958 Genomic DNA. Translation: CAB64222.1. Different initiation.
CP002686 Genomic DNA. Translation: AEE79046.1.
AY084835 mRNA. Translation: AAM61400.1. Different initiation.
PIRiT46165.
RefSeqiNP_566979.1. NM_115179.5.
UniGeneiAt.28000.
At.74285.

3D structure databases

ProteinModelPortaliQ9SCP2.
SMRiQ9SCP2.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi9802. 16 interactors.
STRINGi3702.AT3G53190.1.

Protein family/group databases

CAZyiPL1. Polysaccharide Lyase Family 1.

Proteomic databases

PaxDbiQ9SCP2.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblPlantsiAT3G53190.1; AT3G53190.1; AT3G53190.
GeneIDi824485.
GrameneiAT3G53190.1; AT3G53190.1; AT3G53190.
KEGGiath:AT3G53190.

Organism-specific databases

TAIRiAT3G53190.

Phylogenomic databases

eggNOGiENOG410IGFP. Eukaryota.
COG3866. LUCA.
HOGENOMiHOG000237948.
InParanoidiQ9SCP2.
KOiK01728.
OMAiRYTAPTN.
OrthoDBiEOG09360ASQ.
PhylomeDBiQ9SCP2.

Enzyme and pathway databases

UniPathwayiUPA00545; UER00824.
BioCyciARA:AT3G53190-MONOMER.

Miscellaneous databases

PROiQ9SCP2.

Gene expression databases

ExpressionAtlasiQ9SCP2. baseline and differential.
GenevisibleiQ9SCP2. AT.

Family and domain databases

Gene3Di2.160.20.10. 1 hit.
InterProiIPR002022. Amb_allergen_dom.
IPR018082. AmbAllergen.
IPR012334. Pectin_lyas_fold.
IPR011050. Pectin_lyase_fold/virulence.
[Graphical view]
PfamiPF00544. Pec_lyase_C. 1 hit.
[Graphical view]
PRINTSiPR00807. AMBALLERGEN.
SMARTiSM00656. Amb_all. 1 hit.
[Graphical view]
SUPFAMiSSF51126. SSF51126. 1 hit.
ProtoNetiSearch...

Entry informationi

Entry nameiPLY12_ARATH
AccessioniPrimary (citable) accession number: Q9SCP2
Secondary accession number(s): Q8LFH8
Entry historyi
Integrated into UniProtKB/Swiss-Prot: June 16, 2003
Last sequence update: June 16, 2003
Last modified: November 30, 2016
This is version 113 of the entry and version 2 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programPlant Protein Annotation Program

Miscellaneousi

Caution

It is uncertain whether Met-1 or Met-2 is the initiator.Curated

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. Arabidopsis thaliana
    Arabidopsis thaliana: entries and gene names
  2. PATHWAY comments
    Index of metabolic and biosynthesis pathways
  3. SIMILARITY comments
    Index of protein domains and families

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into one UniRef entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.