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    YDA Protein kinase superfamily protein [ Arabidopsis thaliana (thale cress) ]

    Gene ID: 842674, updated on 18-Sep-2024

    Summary

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    Official Symbol
    YDA
    Official Full Name
    Protein kinase superfamily protein
    Primary source
    TAIR:AT1G63700
    Locus tag
    AT1G63700
    See related
    Araport:AT1G63700
    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
    EMB71; EMBRYO DEFECTIVE 71; F24D7.11; F24D7_11; MAP KINASE KINASE KINASE 4; MAPKKK4; YODA
    Summary
    Member of MEKK subfamily, a component of the stomatal development regulatory pathway. Mutations in this locus result in embryo lethality.
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    Genomic context

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    See YDA in Genome Data Viewer
    Location:
    chromosome: 1
    Exon count:
    12
    Sequence:
    Chromosome: 1; NC_003070.9 (23624627..23630073, complement)

    Chromosome 1 - NC_003070.9Genomic Context describing neighboring genes Neighboring gene ALBINO OR PALE-GREEN 13 Neighboring gene SIGNAL PEPTIDE PEPTIDASE-LIKE 2 Neighboring gene cytochrome P450, family 86, subfamily A, polypeptide 7 Neighboring gene hydroxyproline-rich glycoprotein family 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. Conservation and divergence of YODA MAPKKK function in regulation of grass epidermal patterning. Abrash E, et al. Development, 2018 Jul 17. PMID 29945871, Free PMC Article
    2. YODA MAP3K kinase regulates plant immune responses conferring broad-spectrum disease resistance. Sopeña-Torres S, et al. New Phytol, 2018 Apr. PMID 29451312
    3. Stomatal development and pattern controlled by a MAPKK kinase. Bergmann DC, et al. Science, 2004 Jun 4. PMID 15178800
    4. A MAPKK kinase gene regulates extra-embryonic cell fate in Arabidopsis. Lukowitz W, et al. Cell, 2004 Jan 9. PMID 14718171
    5. YODA-HSP90 Module Regulates Phosphorylation-Dependent Inactivation of SPEECHLESS to Control Stomatal Development under Acute Heat Stress in Arabidopsis. Samakovli D, et al. Mol Plant, 2020 Apr 6. PMID 31935463

    See all (16) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. YODA-HSP90 Module Regulates Phosphorylation-Dependent Inactivation of SPEECHLESS to Control Stomatal Development under Acute Heat Stress in Arabidopsis.
      Title: YODA-HSP90 Module Regulates Phosphorylation-Dependent Inactivation of SPEECHLESS to Control Stomatal Development under Acute Heat Stress in Arabidopsis.
    2. YODA (YDA) - a MAPK kinase kinase regulating several Arabidopsis developmental processes, like stomatal patterning - also modulates immune responses.
      Title: YODA MAP3K kinase regulates plant immune responses conferring broad-spectrum disease resistance.
    3. We find that YODA genes promote normal stomatal spacing patterns in both Arabidopsis and Brachypodium, despite species-specific differences in those patterns.
      Title: Conservation and divergence of YODA MAPKKK function in regulation of grass epidermal patterning.
    4. AN3 and YDA mutations both disrupt normal sucrose and glucose contents and cause altered seed size in an3 or yda mutants.
      Title: Soluble Sugar Accumulation Can Influence Seed Size via AN3-YDA Gene Cascade.
    5. YODA and MPK6 are involved in post-embryonic root development through an auxin-dependent mechanism regulating cell division and mitotic microtubule (PPB and phragmoplast) organization.
      Title: Involvement of YODA and mitogen activated protein kinase 6 in Arabidopsis post-embryogenic root development through auxin up-regulation and cell division plane orientation.
    6. Results suggest that the YDA-MKK4/MKK5-MPK3/MPK6 cascade functions downstream of the ER receptor in regulating localized cell proliferation, which further shapes the morphology of plant organs.
      Title: A MAPK cascade downstream of ERECTA receptor-like protein kinase regulates Arabidopsis inflorescence architecture by promoting localized cell proliferation.
    7. findings show SSP regulates YDA mitogen-activated protein kinase pathway; we propose SSP protein produced from paternal transcripts upon fertilization triggers zygotic YDA activity, providing an essential cue for regulation of asymmetric first division
      Title: Paternal control of embryonic patterning in Arabidopsis thaliana.
    Submit: New GeneRIF Correction

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    NM_001334122.1
    NM_105047.2

    Gene Ontology Provided by TAIR

    Function Evidence Code Pubs
    enables MAP kinase kinase kinase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    Process Evidence Code Pubs
    acts_upstream_of_or_within embryo development ending in seed dormancy IMP
    Inferred from Mutant Phenotype
    more info
    		  
    acts_upstream_of_or_within inflorescence development IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within stomatal complex morphogenesis IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in suspensor development IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in cell cortex IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in cytoplasm ISM
    Inferred from Sequence Model
    more info
    		  
    located_in plasma membrane IDA
    Inferred from Direct Assay
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    Protein kinase superfamily protein
    NP_001319310.1
    • YODA (YDA); FUNCTIONS IN: protein serine/threonine kinase activity, protein kinase activity, kinase activity, ATP binding; INVOLVED IN: stomatal complex morphogenesis, embryo development ending in seed dormancy; LOCATED IN: cellular_component unknown; EXPRESSED IN: 22 plant structures; EXPRESSED DURING: 13 growth stages; CONTAINS InterPro DOMAIN/s: Protein kinase, ATP binding site (InterPro:IPR017441), Protein kinase, catalytic domain (InterPro:IPR000719), Serine/threonine-protein kinase domain (InterPro:IPR002290), Serine/threonine-protein kinase-like domain (InterPro:IPR017442), Protein kinase-like domain (InterPro:IPR011009); BEST Arabidopsis thaliana protein match is: mitogen-activated protein kinase kinase kinase 3 (TAIR:AT1G53570.1); Has 133707 Blast hits to 131404 proteins in 4998 species: Archae - 148; Bacteria - 15191; Metazoa - 50613; Fungi - 12908; Plants - 32496; Viruses - 572; Other Eukaryotes - 21779 (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
      23624627..23630073 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_001334122.1 → NP_001319310.1  Protein kinase superfamily protein [Arabidopsis thaliana]

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      Q6UY78, Q9CAD5
      UniProtKB/TrEMBL
      A0A178WLG6, A0A5S9WS78, A0A654EM97
      Conserved Domains (1) summary
      cd06632
      Location:399 → 656
      STKc_MEKK1_plant; Catalytic domain of the Serine/Threonine Kinase, Plant Mitogen-Activated Protein (MAP)/Extracellular signal-Regulated Kinase (ERK) Kinase Kinase 1

    2. NM_105047.2 → NP_176557.1  Protein kinase superfamily protein [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_176557.1

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      Q6UY78, Q9CAD5
      UniProtKB/TrEMBL
      A0A178WLG6, A0A5S9WS78, A0A654EM97
      Conserved Domains (1) summary
      cd06632
      Location:399 → 656
      STKc_MEKK1_plant; Catalytic domain of the Serine/Threonine Kinase, Plant Mitogen-Activated Protein (MAP)/Extracellular signal-Regulated Kinase (ERK) Kinase Kinase 1
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q9CAD5.1

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