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    APD1 RING/U-box superfamily protein [ Arabidopsis thaliana (thale cress) ]

    Gene ID: 818397, updated on 18-Sep-2024

    Summary

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    Official Symbol
    APD1
    Official Full Name
    RING/U-box superfamily protein
    Primary source
    TAIR:AT2G38185
    Locus tag
    AT2G38185
    See related
    Araport:AT2G38185
    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 POLLEN DEVELOPMENT 1
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    Genomic context

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    See APD1 in Genome Data Viewer
    Location:
    chromosome: 2
    Exon count:
    10
    Sequence:
    Chromosome: 2; NC_003071.7 (15999926..16003169)

    Chromosome 2 - NC_003071.7Genomic Context describing neighboring genes Neighboring gene ncRNA Neighboring gene SGNH hydrolase-type esterase superfamily protein Neighboring gene RING/U-box superfamily protein Neighboring gene putative PDX1-like protein 4 Neighboring gene RING/U-box superfamily protein

    Genomic regions, transcripts, and products

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    Genomic Sequence:
    NC_003071.7

    Go to nucleotide: Graphics FASTA GenBank

    Bibliography

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    Related articles in PubMed

    1. APD1, the unique member of Arabidopsis AP2 family influences systemic acquired resistance and ethylene-jasmonic acid signaling. Gautam JK, et al. Plant Physiol Biochem, 2018 Dec. PMID 30396118
    2. Four closely-related RING-type E3 ligases, APD1-4, are involved in pollen mitosis II regulation in Arabidopsis. Luo G, et al. J Integr Plant Biol, 2012 Oct. PMID 22897245
    3. Evidence for network evolution in an Arabidopsis interactome map. Arabidopsis Interactome Mapping Consortium. Science, 2011 Jul 29. PMID 21798944, Free PMC Article
    4. Sequence and analysis of chromosome 2 of the plant Arabidopsis thaliana. Lin X, et al. Nature, 1999 Dec 16. PMID 10617197

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. results suggest that APD1 impacts multiple aspects of plant growth and development.
      Title: APD1, the unique member of Arabidopsis AP2 family influences systemic acquired resistance and ethylene-jasmonic acid signaling.
    2. Results suggest that APD1 may be involved, redundantly with APD2-4 , in regulating the PMII process during male gametogenesis. [APD1]
      Title: Four closely-related RING-type E3 ligases, APD1-4, are involved in pollen mitosis II regulation in Arabidopsis.
    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_129375.3
    NM_201902.4
    NM_201903.2
    NM_201904.2

    Gene Ontology Provided by TAIR

    Process Evidence Code Pubs
    acts_upstream_of_or_within mitotic cell cycle IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in mitotic cell cycle IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in pollen development IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in protein ubiquitination IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    located_in endosome IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in nucleus ISM
    Inferred from Sequence Model
    more info
    		  
    located_in plant-type vacuole membrane IDA
    Inferred from Direct Assay
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    RING/U-box superfamily protein
    NP_565884.2
    • RING/U-box superfamily protein; FUNCTIONS IN: zinc ion binding; INVOLVED IN: biological_process unknown; EXPRESSED IN: 6 plant structures; EXPRESSED DURING: 4 anthesis, C globular stage, petal differentiation and expansion stage, E expanded cotyledon stage, D bilateral stage; CONTAINS InterPro DOMAIN/s: Zinc finger, RING-type (InterPro:IPR001841); BEST Arabidopsis thaliana protein match is: RING/U-box superfamily protein (TAIR:AT2G38220.1); Has 35333 Blast hits to 34131 proteins in 2444 species: Archae - 798; Bacteria - 22429; Metazoa - 974; Fungi - 991; Plants - 531; Viruses - 0; Other Eukaryotes - 9610 (source: NCBI BLink).
    NP_973631.1
    • RING/U-box superfamily protein; FUNCTIONS IN: zinc ion binding; INVOLVED IN: biological_process unknown; EXPRESSED IN: 6 plant structures; EXPRESSED DURING: 4 anthesis, C globular stage, petal differentiation and expansion stage, E expanded cotyledon stage, D bilateral stage; CONTAINS InterPro DOMAIN/s: Zinc finger, RING-type (InterPro:IPR001841); BEST Arabidopsis thaliana protein match is: RING/U-box superfamily protein (TAIR:AT2G38220.1); Has 35333 Blast hits to 34131 proteins in 2444 species: Archae - 798; Bacteria - 22429; Metazoa - 974; Fungi - 991; Plants - 531; Viruses - 0; Other Eukaryotes - 9610 (source: NCBI BLink).
    NP_973632.1
    • RING/U-box superfamily protein; FUNCTIONS IN: zinc ion binding; INVOLVED IN: biological_process unknown; LOCATED IN: endomembrane system; EXPRESSED IN: 6 plant structures; EXPRESSED DURING: 4 anthesis, C globular stage, petal differentiation and expansion stage, E expanded cotyledon stage, D bilateral stage; CONTAINS InterPro DOMAIN/s: Zinc finger, RING-type (InterPro:IPR001841); BEST Arabidopsis thaliana protein match is: RING/U-box superfamily protein (TAIR:AT2G38195.2); Has 35333 Blast hits to 34131 proteins in 2444 species: Archae - 798; Bacteria - 22429; Metazoa - 974; Fungi - 991; Plants - 531; Viruses - 0; Other Eukaryotes - 9610 (source: NCBI BLink).
    NP_973633.2
    • RING/U-box superfamily protein; FUNCTIONS IN: zinc ion binding; INVOLVED IN: biological_process unknown; EXPRESSED IN: 6 plant structures; EXPRESSED DURING: 4 anthesis, C globular stage, petal differentiation and expansion stage, E expanded cotyledon stage, D bilateral stage; CONTAINS InterPro DOMAIN/s: Zinc finger, RING-type (InterPro:IPR001841); BEST Arabidopsis thaliana protein match is: RING/U-box superfamily protein (TAIR:AT2G38220.1).

    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_003071.7 Reference assembly

      Range
      15999926..16003169
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_201902.4 → NP_973631.1  RING/U-box superfamily protein [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_973631.1

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      F4IS11, Q0WS06, Q8S8T1
      UniProtKB/TrEMBL
      A0A5S9X5J7, A0A654EZW6
      Conserved Domains (3) summary
      pfam13920
      Location:386 → 431
      zf-C3HC4_3; Zinc finger, C3HC4 type (RING finger)
      pfam16040
      Location:121 → 187
      DUF4792; Domain of unknown function (DUF4792)
      pfam16041
      Location:213 → 321
      DUF4793; Domain of unknown function (DUF4793)

    2. NM_201903.2 → NP_973632.1  RING/U-box superfamily protein [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_973632.1

      Status: REVIEWED

      UniProtKB/TrEMBL
      F4IS11
      Conserved Domains (3) summary
      pfam13920
      Location:291 → 340
      zf-C3HC4_3; Zinc finger, C3HC4 type (RING finger)
      pfam16040
      Location:63 → 92
      DUF4792; Domain of unknown function (DUF4792)
      pfam16041
      Location:122 → 225
      DUF4793; Domain of unknown function (DUF4793)

    3. NM_201904.2 → NP_973633.2  RING/U-box superfamily protein [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_973633.2

      Status: REVIEWED

      UniProtKB/TrEMBL
      A0A5S9X5J7, F4IS08
      Conserved Domains (3) summary
      pfam13920
      Location:392 → 441
      zf-C3HC4_3; Zinc finger, C3HC4 type (RING finger)
      pfam16040
      Location:120 → 187
      DUF4792; Domain of unknown function (DUF4792)
      pfam16041
      Location:217 → 326
      DUF4793; Domain of unknown function (DUF4793)

    4. NM_129375.3 → NP_565884.2  RING/U-box superfamily protein [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_565884.2

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      F4IS11, Q0WS06, Q8S8T1
      UniProtKB/TrEMBL
      A0A5S9X5J7, A0A654EZW6
      Conserved Domains (3) summary
      pfam13920
      Location:386 → 431
      zf-C3HC4_3; Zinc finger, C3HC4 type (RING finger)
      pfam16040
      Location:121 → 187
      DUF4792; Domain of unknown function (DUF4792)
      pfam16041
      Location:213 → 321
      DUF4793; Domain of unknown function (DUF4793)
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q0WS06.1

    Gene LinkOut

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