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    LYM1 lysm domain GPI-anchored protein 1 precursor [ Arabidopsis thaliana (thale cress) ]

    Gene ID: 838790, updated on 18-Sep-2024

    Summary

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    Official Symbol
    LYM1
    Official Full Name
    lysm domain GPI-anchored protein 1 precursor
    Primary source
    TAIR:AT1G21880
    Locus tag
    AT1G21880
    See related
    Araport:AT1G21880
    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
    LYP2; lysm domain GPI-anchored protein 1 precursor; LysM-containing receptor protein 2; T26F17.10; T26F17_10
    Summary
    Encodes a lysin-motif protein mediating bacterial peptidoglycan sensing and immunity to bacterial infection. Induction of chitin-responsive genes by chitin treatment is not blocked in the mutant.
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    Genomic context

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    See LYM1 in Genome Data Viewer
    Location:
    chromosome: 1
    Exon count:
    5
    Sequence:
    Chromosome: 1; NC_003070.9 (7680390..7682641)

    Chromosome 1 - NC_003070.9Genomic Context describing neighboring genes Neighboring gene Plant thionin family protein Neighboring gene golgi nucleotide sugar transporter 5 Neighboring gene ncRNA Neighboring gene nodulin MtN21 /EamA-like transporter family protein Neighboring gene emp24/gp25L/p24 family/GOLD family protein Neighboring gene Integrase-type DNA-binding superfamily protein

    Genomic regions, transcripts, and products

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    Genomic Sequence:
    NC_003070.9

    Go to nucleotide: Graphics FASTA GenBank

    Bibliography

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    Related articles in PubMed

    1. Arabidopsis lysin-motif proteins LYM1 LYM3 CERK1 mediate bacterial peptidoglycan sensing and immunity to bacterial infection. Willmann R, et al. Proc Natl Acad Sci U S A, 2011 Dec 6. PMID 22106285, Free PMC Article
    2. Identification of glycosylphosphatidylinositol-anchored proteins in Arabidopsis. A proteomic and genomic analysis. Borner GH, et al. Plant Physiol, 2003 Jun. PMID 12805588, Free PMC Article
    3. Prediction of glycosylphosphatidylinositol-anchored proteins in Arabidopsis. A genomic analysis. Borner GH, et al. Plant Physiol, 2002 Jun. PMID 12068095, Free PMC Article
    4. A high content in lipid-modified peripheral proteins and integral receptor kinases features in the arabidopsis plasma membrane proteome. Marmagne A, et al. Mol Cell Proteomics, 2007 Nov. PMID 17644812
    5. 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

    See all (6) citations in PubMed

    GeneRIFs: Gene References Into Functions

    General gene information

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    Homology

    NM_102036.4
    NM_179366.1

    Gene Ontology Provided by TAIR

    Function Evidence Code Pubs
    enables peptidoglycan binding IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    Process Evidence Code Pubs
    acts_upstream_of_or_within immune response IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in extracellular region ISM
    Inferred from Sequence Model
    more info
    		  
    located_in membrane TAS
    Traceable Author Statement
    more info
    		 PubMed 
    located_in nucleus HDA PubMed 
    located_in plasma membrane HDA PubMed 
    located_in plasma membrane IDA
    Inferred from Direct Assay
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    lysm domain GPI-anchored protein 1 precursor
    NP_564153.1
    • lysm domain GPI-anchored protein 1 precursor (LYM1); FUNCTIONS IN: molecular_function unknown; INVOLVED IN: cell wall macromolecule catabolic process; LOCATED IN: anchored to plasma membrane, plasma membrane, anchored to membrane; EXPRESSED IN: 24 plant structures; EXPRESSED DURING: 13 growth stages; CONTAINS InterPro DOMAIN/s: Peptidoglycan-binding lysin domain (InterPro:IPR018392), Peptidoglycan-binding Lysin subgroup (InterPro:IPR002482); BEST Arabidopsis thaliana protein match is: Peptidoglycan-binding LysM domain-containing protein (TAIR:AT1G77630.1); Has 660 Blast hits to 639 proteins in 131 species: Archae - 0; Bacteria - 238; Metazoa - 0; Fungi - 1; Plants - 404; Viruses - 0; Other Eukaryotes - 17 (source: NCBI BLink).
    NP_849697.1
    • lysm domain GPI-anchored protein 1 precursor (LYM1); FUNCTIONS IN: molecular_function unknown; INVOLVED IN: cell wall macromolecule catabolic process; LOCATED IN: anchored to plasma membrane, plasma membrane, anchored to membrane; EXPRESSED IN: 24 plant structures; EXPRESSED DURING: 13 growth stages; CONTAINS InterPro DOMAIN/s: Peptidoglycan-binding lysin domain (InterPro:IPR018392), Peptidoglycan-binding Lysin subgroup (InterPro:IPR002482); BEST Arabidopsis thaliana protein match is: Peptidoglycan-binding LysM domain-containing protein (TAIR:AT1G77630.1); Has 655 Blast hits to 634 proteins in 130 species: Archae - 0; Bacteria - 234; Metazoa - 0; Fungi - 1; Plants - 403; Viruses - 0; Other Eukaryotes - 17 (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_003070.9 Reference assembly

      Range
      7680390..7682641
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_102036.4 → NP_564153.1  lysm domain GPI-anchored protein 1 precursor [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_564153.1

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      Q5XF34, Q93ZH0, Q9SFE8
      UniProtKB/TrEMBL
      A0A178W9K9, A0A5S9VID9
      Conserved Domains (2) summary
      PRK10783
      Location:109 → 217
      mltD; membrane-bound lytic murein transglycosylase D; Provisional
      pfam01476
      Location:178 → 220
      LysM; LysM domain

    2. NM_179366.1 → NP_849697.1  lysm domain GPI-anchored protein 1 precursor [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_849697.1

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      Q93ZH0
      Conserved Domains (1) summary
      pfam01476
      Location:178 → 220
      LysM; LysM domain
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q93ZH0.1

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