U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

Links from GEO Profiles

    • Showing Current items.

    Pectin lyase-like superfamily protein [ Arabidopsis thaliana (thale cress) ]

    Gene ID: 828580, updated on 18-Sep-2024

    Summary

    Go to the top of the page Help
    Official Full Name
    Pectin lyase-like superfamily protein
    Primary source
    TAIR:AT4G24780
    Locus tag
    AT4G24780
    See related
    Araport:AT4G24780
    Gene type
    protein coding
    RefSeq status
    REVIEWED
    Organism
    Arabidopsis thaliana (ecotype: Columbia)
    Lineage
    Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta; Spermatophyta; Magnoliopsida; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Arabidopsis
    Also known as
    F6I7.12
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    Go to the top of the page Help
    Location:
    chromosome: 4
    Exon count:
    4
    Sequence:
    Chromosome: 4; NC_003075.7 (12770221..12772479, complement)

    Chromosome 4 - NC_003075.7Genomic Context describing neighboring genes Neighboring gene alpha/beta-Hydrolases superfamily protein Neighboring gene 31-kDa RNA binding protein Neighboring gene AAA-type ATPase family protein Neighboring gene MA3 domain-containing protein Neighboring gene S-adenosyl-L-methionine-dependent methyltransferases superfamily protein

    Genomic regions, transcripts, and products

    Go to the top of the page Help
    Genomic Sequence:
    NC_003075.7

    Go to nucleotide: Graphics FASTA GenBank

    Bibliography

    Go to the top of the pageHelp

    Related articles in PubMed

    1. A distinct role of pectate lyases in the formation of feeding structures induced by cyst and root-knot nematodes. Wieczorek K, et al. Mol Plant Microbe Interact, 2014 Sep. PMID 24905398
    2. A highly charged region in the middle domain of plant endoplasmic reticulum (ER)-localized heat-shock protein 90 is required for resistance to tunicamycin or high calcium-induced ER stresses. Chong LP, et al. J Exp Bot, 2015 Jan. PMID 25297550, Free PMC Article
    3. Advanced proteomic analyses yield a deep catalog of ubiquitylation targets in Arabidopsis. Kim DY, et al. Plant Cell, 2013 May. PMID 23667124, Free PMC Article
    4. Global Analysis of Membrane-associated Protein Oligomerization Using Protein Correlation Profiling. McBride Z, et al. Mol Cell Proteomics, 2017 Nov. PMID 28887381, Free PMC Article
    5. Sequence and analysis of chromosome 4 of the plant Arabidopsis thaliana. Mayer K, et al. Nature, 1999 Dec 16. PMID 10617198

    GeneRIFs: Gene References Into Functions

    Interactions

    Go to the top of the page Help
    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Go to the top of the page Help

    Markers

    NM_001203898.1

    Gene Ontology Provided by TAIR

    Function Evidence Code Pubs
    enables lyase activity ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    enables pectate lyase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    involved_in pectin catabolic process IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within response to nematode IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in cytosol HDA PubMed 
    located_in extracellular region ISM
    Inferred from Sequence Model
    more info
    		  

    General protein information

    Go to the top of the page Help
    Preferred Names
    Pectin lyase-like superfamily protein
    NP_001190827.1
    • Pectin lyase-like superfamily protein; CONTAINS InterPro DOMAIN/s: Pectin lyase fold/virulence factor (InterPro:IPR011050), AmbAllergen (InterPro:IPR018082), Pectate lyase/Amb allergen (InterPro:IPR002022), Pectin lyase fold (InterPro:IPR012334); BEST Arabidopsis thaliana protein match is: Pectin lyase-like superfamily protein (TAIR:AT5G63180.1).
    NP_567707.1
    • Pectin lyase-like superfamily protein; FUNCTIONS IN: lyase activity, pectate lyase activity; INVOLVED IN: biological_process unknown; LOCATED IN: membrane; EXPRESSED IN: 23 plant structures; EXPRESSED DURING: 13 growth stages; CONTAINS InterPro DOMAIN/s: Pectin lyase fold/virulence factor (InterPro:IPR011050), AmbAllergen (InterPro:IPR018082), Pectate lyase/Amb allergen (InterPro:IPR002022), Pectin lyase fold (InterPro:IPR012334); BEST Arabidopsis thaliana protein match is: Pectin lyase-like superfamily protein (TAIR:AT5G63180.1); Has 30201 Blast hits to 17322 proteins in 780 species: Archae - 12; Bacteria - 1396; Metazoa - 17338; Fungi - 3422; Plants - 5037; Viruses - 0; Other Eukaryotes - 2996 (source: NCBI BLink).

    NCBI Reference Sequences (RefSeq)

    Go to the top of the page Help

    NEW Try the new Transcript table

    Genome Annotation

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference assembly

    Genomic

    1. NC_003075.7 Reference assembly

      Range
      12770221..12772479 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_118611.3 → NP_567707.1  Pectin lyase-like superfamily protein [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_567707.1

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      O23667, Q8LAW7, Q9C5M8, Q9SB71
      UniProtKB/TrEMBL
      A0A178UYB3, A0A384LJY2, A0A7G2F0N5, Q5HZ35
      Conserved Domains (1) summary
      smart00656
      Location:134 → 329
      Amb_all; Amb_all domain

    2. NM_001203898.1 → NP_001190827.1  Pectin lyase-like superfamily protein [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_001190827.1

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      O23667, Q8LAW7, Q9C5M8, Q9SB71
      UniProtKB/TrEMBL
      A0A178UYB3, A0A384LJY2, A0A7G2F0N5, Q5HZ35
      Conserved Domains (1) summary
      smart00656
      Location:134 → 329
      Amb_all; Amb_all domain
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q9C5M8.2

    Gene LinkOut

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

    Other Literature Sources
    Molecular Biology Databases
    Research Materials
    Tools