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

Gene ID: 825384, updated on 18-Sep-2024

Summary

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Official Full Name
Pectin lyase-like superfamily protein
Primary source
TAIR:AT3G62110
Locus tag
AT3G62110
See related
Araport:AT3G62110
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
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Genomic context

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Location:
chromosome: 3
Exon count:
7
Sequence:
Chromosome: 3; NC_003074.8 (22997021..23000221, complement)

Chromosome 3 - NC_003074.8Genomic Context describing neighboring genes Neighboring gene SNF7 family protein Neighboring gene ncRNA Neighboring gene phytochrome interacting factor 3-like 2 Neighboring gene indole-3-acetic acid inducible 30 Neighboring gene Class II aaRS and biotin synthetases superfamily protein Neighboring gene Pyridoxal phosphate (PLP)-dependent transferases superfamily protein

Genomic regions, transcripts, and products

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Genomic Sequence:
NC_003074.8

Go to nucleotide: Graphics FASTA GenBank

Bibliography

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Related articles in PubMed

  1. Biochemical characterization of Arabidopsis clade F polygalacturonase shows a substrate preference toward oligogalacturonic acids. Ohashi T, et al. J Biosci Bioeng, 2022 Jan. PMID 34690060
  2. The vegetative vacuole proteome of Arabidopsis thaliana reveals predicted and unexpected proteins. Carter C, et al. Plant Cell, 2004 Dec. PMID 15539469, Free PMC Article
  3. Sequence and analysis of chromosome 3 of the plant Arabidopsis thaliana. Salanoubat M, et al. Nature, 2000 Dec 14. PMID 11130713
  4. Multi-omics network-based functional annotation of unknown Arabidopsis genes. Depuydt T, et al. Plant J, 2021 Nov. PMID 34562334

GeneRIFs: Gene References Into Functions

General gene information

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Homology

NM_001340139.1
NM_116076.4

Gene Ontology Provided by TAIR

Function Evidence Code Pubs
enables polygalacturonase activity IDA
Inferred from Direct Assay
more info
 PubMed 
enables polygalacturonase activity IEA
Inferred from Electronic Annotation
more info
  
Process Evidence Code Pubs
involved_in carbohydrate metabolic process IEA
Inferred from Electronic Annotation
more info
  
Component Evidence Code Pubs
located_in extracellular region ISM
Inferred from Sequence Model
more info
  
located_in plant-type vacuole HDA PubMed 

General protein information

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Preferred Names
Pectin lyase-like superfamily protein
NP_567126.1
  • Pectin lyase-like superfamily protein; FUNCTIONS IN: polygalacturonase activity; INVOLVED IN: response to cyclopentenone, carbohydrate metabolic process; LOCATED IN: vacuole; EXPRESSED IN: 25 plant structures; EXPRESSED DURING: 15 growth stages; CONTAINS InterPro DOMAIN/s: Pectin lyase fold/virulence factor (InterPro:IPR011050), Glycoside hydrolase, family 28 (InterPro:IPR000743), Pectin lyase fold (InterPro:IPR012334), Parallel beta-helix repeat (InterPro:IPR006626); BEST Arabidopsis thaliana protein match is: Pectin lyase-like superfamily protein (TAIR:AT4G23500.1); 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)

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Genome Annotation

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

Reference assembly

Genomic

  1. NC_003074.8 Reference assembly

    Range
    22997021..23000221 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NM_116076.4 → NP_567126.1  Pectin lyase-like superfamily protein [Arabidopsis thaliana]

    See identical proteins and their annotated locations for NP_567126.1

    Status: REVIEWED

    UniProtKB/TrEMBL
    A0A178VFI8, A0A654FJY5, Q9FPJ2
    Conserved Domains (1) summary
    COG5434
    Location:43 → 362
    Pgu1; Polygalacturonase [Carbohydrate transport and metabolism]

  2. NM_001340139.1 → NP_001326987.1  Pectin lyase-like superfamily protein [Arabidopsis thaliana]

    Status: REVIEWED

    UniProtKB/TrEMBL
    A0A178VFI8, A0A654FJY5, Q9FPJ2
    Conserved Domains (1) summary
    COG5434
    Location:43 → 362
    Pgu1; Polygalacturonase [Carbohydrate transport and metabolism]
Nucleotide Protein
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