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    PDE320 pigment defective 320 [ Arabidopsis thaliana (thale cress) ]

    Gene ID: 819881, updated on 18-Sep-2024

    Summary

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    Official Symbol
    PDE320
    Official Full Name
    pigment defective 320
    Primary source
    TAIR:AT3G06960
    Locus tag
    AT3G06960
    See related
    Araport:AT3G06960
    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
    PIGMENT DEFECTIVE 320; TGD4; TRIGALACTOSYLDIACYLGLYCEROL 4
    Summary
    TGD4 is an integral dimeric beta-barrel lipid transfer protein that binds PtdOH with its N-terminus and contains dimerization domains at its C-terminus. Mutations in this gene suppress the low temperature-induced phenotype of Arabidopsis tocopherol-deficient mutant vte2.
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    Genomic context

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    See PDE320 in Genome Data Viewer
    Location:
    chromosome: 3
    Exon count:
    5
    Sequence:
    Chromosome: 3; NC_003074.8 (2194208..2196581, complement)

    Chromosome 3 - NC_003074.8Genomic Context describing neighboring genes Neighboring gene pseudo Neighboring gene Pseudouridine synthase family protein Neighboring gene ncRNA Neighboring gene ncRNA Neighboring gene ncRNA Neighboring gene RNA-binding (RRM/RBD/RNP motifs) family 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. The phosphatidic acid binding site of the Arabidopsis trigalactosyldiacylglycerol 4 (TGD4) protein required for lipid import into chloroplasts. Wang Z, et al. J Biol Chem, 2013 Feb 15. PMID 23297418, Free PMC Article
    2. TGD4 involved in endoplasmic reticulum-to-chloroplast lipid trafficking is a phosphatidic acid binding protein. Wang Z, et al. Plant J, 2012 May. PMID 22269056
    3. Genetic analysis of Arabidopsis mutants impaired in plastid lipid import reveals a role of membrane lipids in chloroplast division. Fan J, et al. Plant Signal Behav, 2011 Mar. PMID 21358271, Free PMC Article
    4. Lipid trafficking between the endoplasmic reticulum and the plastid in Arabidopsis requires the extraplastidic TGD4 protein. Xu C, et al. Plant Cell, 2008 Aug. PMID 18689504, Free PMC Article
    5. Arabidopsis TRIGALACTOSYLDIACYLGLYCEROL5 Interacts with TGD1, TGD2, and TGD4 to Facilitate Lipid Transfer from the Endoplasmic Reticulum to Plastids. Fan J, et al. Plant Cell, 2015 Oct. PMID 26410300, Free PMC Article

    See all (10) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. TGD4 is an integral dimeric beta-barrel lipid transfer protein that binds PtdOH with its N terminus and contains dimerization domains at its C terminus
      Title: The phosphatidic acid binding site of the Arabidopsis trigalactosyldiacylglycerol 4 (TGD4) protein required for lipid import into chloroplasts.
    2. Data show that the TGD4 protein was present in the outer envelope membrane of chloroplasts.
      Title: TGD4 involved in endoplasmic reticulum-to-chloroplast lipid trafficking is a phosphatidic acid binding protein.
    3. The tgd1-1 fad6 and tgd4-3 fad6 double mutants were deficient in polyunsaturated fatty acids in chloroplast membrane lipids, and severely compromised in the biogenesis of photosynthetic membrane systems.
      Title: Genetic analysis of Arabidopsis mutants impaired in plastid lipid import reveals a role of membrane lipids in chloroplast division.
    4. TGD4 appears to be part of the machinery mediating lipid transfer between the ER and the outer plastid envelope membrane. [TGD4]
      Title: Lipid trafficking between the endoplasmic reticulum and the plastid in Arabidopsis requires the extraplastidic TGD4 protein.
    Submit: New GeneRIF Correction

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    NM_111576.5
    NM_202515.2

    Gene Ontology Provided by TAIR

    Function Evidence Code Pubs
    enables phosphatidic acid binding IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables phosphatidic acid binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables protein homodimerization activity IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in ER to chloroplast lipid transport IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within ER to chloroplast lipid transport IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in acylglycerol transport IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within acylglycerol transport IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in chloroplast HDA PubMed 
    located_in chloroplast IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in chloroplast envelope HDA PubMed 
    located_in chloroplast envelope IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in chloroplast outer membrane IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in cytosol HDA PubMed 
    located_in endoplasmic reticulum IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in membrane IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in nucleus ISM
    Inferred from Sequence Model
    more info
    		  
    located_in plastid HDA PubMed 

    General protein information

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    Preferred Names
    pigment defective 320
    NP_566296.1
    • PIGMENT DEFECTIVE 320 (PDE320); FUNCTIONS IN: molecular_function unknown; INVOLVED IN: acylglycerol transport; LOCATED IN: endoplasmic reticulum, chloroplast; EXPRESSED IN: 23 plant structures; EXPRESSED DURING: 13 growth stages; BEST Arabidopsis thaliana protein match is: unknown protein (TAIR:AT2G44640.1); Has 48 Blast hits to 47 proteins in 14 species: Archae - 0; Bacteria - 0; Metazoa - 0; Fungi - 0; Plants - 48; Viruses - 0; Other Eukaryotes - 0 (source: NCBI BLink).
    NP_974244.1
    • PIGMENT DEFECTIVE 320 (PDE320); FUNCTIONS IN: molecular_function unknown; INVOLVED IN: acylglycerol transport; LOCATED IN: endoplasmic reticulum, chloroplast; EXPRESSED IN: 23 plant structures; EXPRESSED DURING: 13 growth stages; BEST Arabidopsis thaliana protein match is: unknown protein (TAIR:AT2G44640.1); 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).

    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
      2194208..2196581 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_111576.5 → NP_566296.1  pigment defective 320 [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_566296.1

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      Q9M903
      UniProtKB/TrEMBL
      A0A178VFI7
      Conserved Domains (1) summary
      pfam12600
      Location:345 → 430
      DUF3769; Protein of unknown function (DUF3769)

    2. NM_202515.2 → NP_974244.1  pigment defective 320 [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_974244.1

      Status: REVIEWED

      UniProtKB/TrEMBL
      F4JD78
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q9M903.1

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