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Protein

Pectate lyase

Gene
N/A
Organism
Zinnia violacea (Garden zinnia) (Zinnia elegans)
Status
Reviewed-Annotation score: Annotation score: 4 out of 5-Experimental evidence at protein leveli

Functioni

Involved in the degradation of pectin. May assist in the removal and modification of an existing pectin matrix in order to allow the deposition of newly synthesized walls polymers for a specialized function or to create an architecture that is extensible.

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+Note: Binds 1 Ca2+ ion. Required for its activity.

Kineticsi

    1. Vmax=0.12 µmol/min/mg enzyme

    pH dependencei

    Optimum pH is 10.

    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. no protein annotated in this organism
    2. Pectate lyase
    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)LengthDescriptionGraphical viewFeature identifierActions
    Metal bindingi199 – 1991CalciumBy similarity
    Metal bindingi223 – 2231CalciumBy similarity
    Metal bindingi227 – 2271CalciumBy similarity
    Active sitei279 – 2791Sequence analysis

    GO - Molecular functioni

    GO - Biological processi

    Complete GO annotation...

    Keywords - Molecular functioni

    Lyase

    Keywords - Ligandi

    Calcium, Metal-binding

    Enzyme and pathway databases

    UniPathwayiUPA00545; UER00824.

    Protein family/group databases

    CAZyiPL1. Polysaccharide Lyase Family 1.

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    Pectate lyase (EC:4.2.2.2)
    Alternative name(s):
    ZePel
    OrganismiZinnia violacea (Garden zinnia) (Zinnia elegans)
    Taxonomic identifieri34245 [NCBI]
    Taxonomic lineageiEukaryotaViridiplantaeStreptophytaEmbryophytaTracheophytaSpermatophytaMagnoliophytaeudicotyledonsGunneridaePentapetalaeasteridscampanulidsAsteralesAsteraceaeAsteroideaeHeliantheae allianceHeliantheaeZinnia

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Signal peptidei1 – 2020Sequence analysisAdd
    BLAST
    Chaini21 – 401381Pectate lyasePRO_0000024893Add
    BLAST

    Amino acid modifications

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Glycosylationi38 – 381N-linked (GlcNAc...)Sequence analysis

    Keywords - PTMi

    Glycoprotein

    Expressioni

    Tissue specificityi

    Expressed in sites of vascular differentiation and in new primordia on the flank of the shoot meristem.

    Inductioni

    Up-regulated by auxin.

    Structurei

    3D structure databases

    ProteinModelPortaliO24554.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Sequence similaritiesi

    Belongs to the polysaccharide lyase 1 family.Curated

    Keywords - Domaini

    Signal

    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.

    O24554-1 [UniParc]FASTAAdd to basket

    « Hide

            10         20         30         40         50
    MATTILPLIL FISSLAIASS SPSRTPHAIV NEVHKSINAS RRNLGYLSCG
    60 70 80 90 100
    TGNPIDDCWR CDPNWANNRQ RLADCAIGFG KNAMGGRNGR IYVVTDPGND
    110 120 130 140 150
    DPVNPVPGTL RYAVIQDEPL WIIFKRDMVI QLRQELVMNS HKTIDGRGVN
    160 170 180 190 200
    VHIGNGPCIT IHYASNIIIH GIHIHDCKQA GNGNIRNSPH HSGWWTQSDG
    210 220 230 240 250
    DGISIFASKD IWIDHNSLSN CHDGLIDAIH GSTAITISNN YMTHHDKVML
    260 270 280 290 300
    LGHSDSYTQD KNMQVTIAFN HFGEGLVQRM PRCRHGYFHV VNNDYTHWEM
    310 320 330 340 350
    YAIGGSASPT IYSQGNRFLA PNTRFDKEVT KHENAPESEW KNWNWRSEGD
    360 370 380 390 400
    LMLNGAYFRE SGGRAASSFA RASSLSGRPS TLVASMTRSA GALVCRKGSR

    C
    Length:401
    Mass (Da):44,407
    Last modified:January 1, 1998 - v1
    Checksum:iB5EA3B57A9830F02
    GO

    Sequence databases

    Select the link destinations:
    EMBLi
    GenBanki
    DDBJi
    Links Updated
    Y09541 mRNA. Translation: CAA70735.1.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBLi
    GenBanki
    DDBJi
    Links Updated
    Y09541 mRNA. Translation: CAA70735.1.

    3D structure databases

    ProteinModelPortaliO24554.
    ModBaseiSearch...
    MobiDBiSearch...

    Protein family/group databases

    CAZyiPL1. Polysaccharide Lyase Family 1.

    Protocols and materials databases

    Structural Biology KnowledgebaseSearch...

    Enzyme and pathway databases

    UniPathwayiUPA00545; UER00824.

    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 nameiPLY_ZINVI
    AccessioniPrimary (citable) accession number: O24554
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: June 16, 2003
    Last sequence update: January 1, 1998
    Last modified: May 11, 2016
    This is version 78 of the entry and version 1 of the sequence. [Complete history]
    Entry statusiReviewed (UniProtKB/Swiss-Prot)
    Annotation programPlant Protein Annotation Program

    Miscellaneousi

    Documents

    1. PATHWAY comments
      Index of metabolic and biosynthesis pathways
    2. 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.