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    ALF4 aberrant root formation protein [ Arabidopsis thaliana (thale cress) ]

    Gene ID: 830970, updated on 18-Sep-2024

    Summary

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    Official Symbol
    ALF4
    Official Full Name
    aberrant root formation protein
    Primary source
    TAIR:AT5G11030
    Locus tag
    AT5G11030
    See related
    Araport:AT5G11030
    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
    ABERRANT LATERAL ROOT FORMATION 4; T5K6.20; T5K6_20
    Summary
    alf4-1 prevents initiation of lateral roots. Cannot be rescued by IAA. Protein belongs to a plant-specific gene family and is localized to the nucleus.
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    Genomic context

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    See ALF4 in Genome Data Viewer
    Location:
    chromosome: 5
    Exon count:
    13
    Sequence:
    Chromosome: 5; NC_003076.8 (3490788..3495173, complement)

    Chromosome 5 - NC_003076.8Genomic Context describing neighboring genes Neighboring gene hypothetical protein (DUF868) Neighboring gene Pre-mRNA cleavage complex II protein family Neighboring gene Protein kinase superfamily protein Neighboring gene TRS120 Neighboring gene myb domain protein 64

    Genomic regions, transcripts, and products

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    Genomic Sequence:
    NC_003076.8

    Go to nucleotide: Graphics FASTA GenBank

    Bibliography

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    Related articles in PubMed

    1. A role for ALF4 during gall and giant cell development in the biotic interaction between Arabidopsis and Meloidogyne spp. Olmo R, et al. Physiol Plant, 2019 Jan. PMID 29573275
    2. Characterization of the early events leading to totipotency in an Arabidopsis protoplast liquid culture by temporal transcript profiling. Chupeau MC, et al. Plant Cell, 2013 Jul. PMID 23903317, Free PMC Article
    3. Arabidopsis regeneration from multiple tissues occurs via a root development pathway. Sugimoto K, et al. Dev Cell, 2010 Mar 16. PMID 20230752
    4. Arabidopsis ALF4 encodes a nuclear-localized protein required for lateral root formation. DiDonato RJ, et al. Plant J, 2004 Feb. PMID 14731255
    5. The Arabidopsis ALF4 protein is a regulator of SCF E3 ligases. Bagchi R, et al. EMBO J, 2018 Jan 17. PMID 29233834, Free PMC Article

    See all (9) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. ALF4 is induced in galls and giant cells formed by Meloidogyne javanica in roots and hypocotyls.
      Title: A role for ALF4 during gall and giant cell development in the biotic interaction between Arabidopsis and Meloidogyne spp.
    2. ALF4 binds to RBX1 and inhibits the activity of SCF(TIR)(1), an E3 ligase responsible for degradation of the Aux/IAA transcriptional repressors. In vivo, the alf4 mutation destabilizes the CUL1 subunit of the SCF
      Title: The Arabidopsis ALF4 protein is a regulator of SCF E3 ligases.
    3. Data indicate that a plant-specific transcription factor ABERRANT LATERAL ROOT FORMATION4 (ALF4) is required for the initiation of protoplast division.
      Title: Characterization of the early events leading to totipotency in an Arabidopsis protoplast liquid culture by temporal transcript profiling.
    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_001161232.2
    NM_001161233.1
    NM_001343149.1
    NM_001343150.1
    NM_001343151.1
    NM_001343152.1
    NM_001343153.1
    NM_001343154.1
    NM_121141.5

    Gene Ontology Provided by TAIR

    Function Evidence Code Pubs
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    Process Evidence Code Pubs
    acts_upstream_of_or_within callus formation IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within lateral root morphogenesis IMP
    Inferred from Mutant Phenotype
    more info
    		  
    Component Evidence Code Pubs
    located_in chloroplast ISM
    Inferred from Sequence Model
    more info
    		  
    located_in cytoplasm IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in nucleus IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in nucleus ISM
    Inferred from Sequence Model
    more info
    		  

    General protein information

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    Preferred Names
    aberrant root formation protein
    NP_001154704.2
    • ABERRANT LATERAL ROOT FORMATION 4 (ALF4); INVOLVED IN: lateral root morphogenesis; LOCATED IN: nucleus, cytoplasm; EXPRESSED IN: 21 plant structures; EXPRESSED DURING: 13 growth stages; CONTAINS InterPro DOMAIN/s: Uncharacterised protein family, YAP/Alf4/glomulin (InterPro:IPR013877); Has 23 Blast hits to 23 proteins in 12 species: Archae - 0; Bacteria - 2; Metazoa - 7; Fungi - 0; Plants - 13; Viruses - 0; Other Eukaryotes - 1 (source: NCBI BLink).
    NP_001154705.1
    • ABERRANT LATERAL ROOT FORMATION 4 (ALF4); INVOLVED IN: lateral root morphogenesis; LOCATED IN: nucleus, cytoplasm; EXPRESSED IN: 21 plant structures; EXPRESSED DURING: 13 growth stages; CONTAINS InterPro DOMAIN/s: Uncharacterised protein family, YAP/Alf4/glomulin (InterPro:IPR013877); Has 14 Blast hits to 14 proteins in 8 species: Archae - 0; Bacteria - 2; Metazoa - 2; Fungi - 0; Plants - 9; Viruses - 0; Other Eukaryotes - 1 (source: NCBI BLink).
    NP_196664.4
    • ABERRANT LATERAL ROOT FORMATION 4 (ALF4); CONTAINS InterPro DOMAIN/s: Uncharacterised protein family, YAP/Alf4/glomulin (InterPro:IPR013877); Has 56 Blast hits to 55 proteins in 23 species: Archae - 0; Bacteria - 12; Metazoa - 4; Fungi - 0; Plants - 37; Viruses - 0; Other Eukaryotes - 3 (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_003076.8 Reference assembly

      Range
      3490788..3495173 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_121141.5 → NP_196664.4  aberrant root formation protein [Arabidopsis thaliana]

      Status: REVIEWED

      UniProtKB/TrEMBL
      A0A7G2F8Q2

    2. NM_001161232.2 → NP_001154704.2  aberrant root formation protein [Arabidopsis thaliana]

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      F4JWD7, F4JWD8, Q0WTQ0, Q84VX3, Q9FY62
      UniProtKB/TrEMBL
      A0A7G2F8Q2

    3. NM_001343151.1 → NP_001332040.1  aberrant root formation protein [Arabidopsis thaliana]

      Status: REVIEWED

      UniProtKB/TrEMBL
      A0A1P8BFN5, A0A7G2F8Q2
      Conserved Domains (1) summary
      pfam08568
      Location:21 → 576
      Kinetochor_Ybp2; Uncharacterized protein family, YAP/Alf4/glomulin

    4. NM_001343150.1 → NP_001332042.1  aberrant root formation protein [Arabidopsis thaliana]

      Status: REVIEWED

      UniProtKB/TrEMBL
      A0A178UG72, A0A1P8BFR8

    5. NM_001343149.1 → NP_001332043.1  aberrant root formation protein [Arabidopsis thaliana]

      Status: REVIEWED

      UniProtKB/TrEMBL
      A0A178UG72, A0A1P8BFR8

    6. NM_001161233.1 → NP_001154705.1  aberrant root formation protein [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_001154705.1

      Status: REVIEWED

      UniProtKB/TrEMBL
      A0A7G2F8Q2, F4JWD6
      Conserved Domains (1) summary
      pfam08568
      Location:21 → 552
      Kinetochor_Ybp2; uncharacterized protein family, YAP/Alf4/glomulin

    7. NM_001343153.1 → NP_001332045.1  aberrant root formation protein [Arabidopsis thaliana]

      Status: REVIEWED

      UniProtKB/TrEMBL
      A0A178UG72, A0A1P8BFP3

    8. NM_001343152.1 → NP_001332041.1  aberrant root formation protein [Arabidopsis thaliana]

      Status: REVIEWED

      UniProtKB/TrEMBL
      A0A178UG72, A0A1P8BFR8

    9. NM_001343154.1 → NP_001332044.1  aberrant root formation protein [Arabidopsis thaliana]

      Status: REVIEWED

      UniProtKB/TrEMBL
      A0A178UG72, A0A1P8BFP1
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q84VX3.2

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