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ABCD1 peroxisomal ABC transporter 1 [ Arabidopsis thaliana (thale cress) ]

Gene ID: 830144, updated on 7-Sep-2023

Summary

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Gene symbol
ABCD1
Gene description
peroxisomal ABC transporter 1
Primary source
Araport:AT4G39850
Locus tag
AT4G39850
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
acetate non-utilizing 2; ACN2; Arabidopsis thaliana ATP-binding cassette D1; AtABCD1; ATP-binding cassette D1; COMATOSE; CTS; PED3; peroxisomal ABC transporter 1; PEROXISOME DEFECTIVE 3; PXA1; T5J17.20; T5J17_20
Summary
Encodes a peroxisomal protein of the ATP binding cassette (ABC) transporter class (PMP subfamily) with significant identity to the human X-linked adrenoleukodystrophy protein (ALDP). The gene product promotes germination and represses embryo dormancy. ABI3, ABA1, FUS3 and LEC1 are epistatic to this gene. Mutants accumulate fatty acyl CoA suggesting a defect in uptake of fatty acyl CoA into the peroxisome.
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Genomic context

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Location:
chromosome: 4
Exon count:
26
Sequence:
Chromosome: 4; NC_003075.7 (18488434..18497266)

Chromosome 4 - NC_003075.7Genomic Context describing neighboring genes Neighboring gene ncRNA Neighboring gene cell wall integrity/stress response component-like protein Neighboring gene miscRNA Neighboring gene ncRNA Neighboring gene hematological/neurological-like protein Neighboring gene ncRNA Neighboring gene tRNA-Arg

Genomic regions, transcripts, and products

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Genomic Sequence:
NC_003075.7

Go to nucleotide: Graphics FASTA GenBank

Bibliography

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Related articles in PubMed

  1. Mutagenesis separates ATPase and thioesterase activities of the peroxisomal ABC transporter, Comatose. Carrier DJ, et al. Sci Rep, 2019 Jul 19. PMID 31324846, Free PMC Article
  2. A peroxisomal ABC transporter promotes seed germination by inducing pectin degradation under the control of ABI5. Kanai M, et al. Plant J, 2010 Jun 1. PMID 20345608
  3. The ABC transporter PXA1 and peroxisomal beta-oxidation are vital for metabolism in mature leaves of Arabidopsis during extended darkness. Kunz HH, et al. Plant Cell, 2009 Sep. PMID 19794119, Free PMC Article
  4. Mutations in the Arabidopsis peroxisomal ABC transporter COMATOSE allow differentiation between multiple functions in planta: insights from an allelic series. Dietrich D, et al. Mol Biol Cell, 2009 Jan. PMID 19019987, Free PMC Article
  5. The COMATOSE ATP-binding cassette transporter is required for full fertility in Arabidopsis. Footitt S, et al. Plant Physiol, 2007 Jul. PMID 17468211, Free PMC Article

See all (17) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. Mutagenesis separates ATPase and thioesterase activities of the peroxisomal ABC transporter, Comatose.
    Title: Mutagenesis separates ATPase and thioesterase activities of the peroxisomal ABC transporter, Comatose.
  2. Peroxisomal ATP-binding cassette transporter COMATOSE is required for the accumulation of benzoylated secondary metabolites in Arabidopsis seeds, including benzoylated glucosinolates and substituted hydroxybenzoylcholines.
    Title: Peroxisomal ATP-binding cassette transporter COMATOSE and the multifunctional protein abnormal INFLORESCENCE MERISTEM are required for the production of benzoylated metabolites in Arabidopsis seeds.
  3. Data indicate that CGI-58 (At4g24160) interacts with PXA1 into peroxisomes for their subsequent metabolism by beta-oxidation, including fatty acids and lipophilic hormone precursors of the jasmonate and auxin biosynthetic pathways.
    Title: The α/β hydrolase CGI-58 and peroxisomal transport protein PXA1 coregulate lipid homeostasis and signaling in Arabidopsis.
  4. Pseudo half-molecules of the ABC transporter, COMATOSE, bind Pex19 and target to peroxisomes independently but are both required for activity
    Title: Pseudo half-molecules of the ABC transporter, COMATOSE, bind Pex19 and target to peroxisomes independently but are both required for activity.
  5. The Arabidopsis peroxisomal ABC transporter, comatose, complements the Saccharomyces cerevisiae pxa1 pxa2Delta mutant for metabolism of long-chain fatty acids and exhibits fatty acyl-CoA-stimulated ATPase activity.
    Title: The Arabidopsis peroxisomal ABC transporter, comatose, complements the Saccharomyces cerevisiae pxa1 pxa2Delta mutant for metabolism of long-chain fatty acids and exhibits fatty acyl-CoA-stimulated ATPase activity.
  6. PED3 promotes seed germination by suppressing polygalacturonase inhibiting proteins under the control of ABI5.
    Title: A peroxisomal ABC transporter promotes seed germination by inducing pectin degradation under the control of ABI5.
  7. pxa1 plants accumulate free fatty acids in dark-treated leaves. Extended dark conditions are lethal for pxa1 plants.
    Title: The ABC transporter PXA1 and peroxisomal beta-oxidation are vital for metabolism in mature leaves of Arabidopsis during extended darkness.
  8. Results demonstrate that COMATOSE functions can be separated by mutagenesis and the structural model provides a framework for interpretation of phenotypic data.
    Title: Mutations in the Arabidopsis peroxisomal ABC transporter COMATOSE allow differentiation between multiple functions in planta: insights from an allelic series.
  9. pxa1 mutants are sucrose-dependent and IBA resistant following germination, probably because of a failure to import beta-oxidation substrates into peroxisomes.
    Title: The Arabidopsis pxa1 mutant is defective in an ATP-binding cassette transporter-like protein required for peroxisomal fatty acid beta-oxidation.
  10. Beta-oxidation could play a role in the mobilization of lipids in both pollen and female tissues. Expression of CTS in either male or female tissues was sufficient to support pollen tube growth in vivo.
    Title: The COMATOSE ATP-binding cassette transporter is required for full fertility in Arabidopsis.
Submit: New GeneRIF Correction See all GeneRIFs (12)

Pathways from PubChem

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Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Homology

NM_120148.3

Gene Ontology Provided by TAIR

Function Evidence Code Pubs
enables ABC-type fatty-acyl-CoA transporter activity IEA
Inferred from Electronic Annotation
more info
  
enables ABC-type transporter activity IEA
Inferred from Electronic Annotation
more info
  
enables ATP hydrolysis activity IEA
Inferred from Electronic Annotation
more info
  
enables ATPase-coupled transmembrane transporter activity ISS
Inferred from Sequence or Structural Similarity
more info
 PubMed 
enables protein binding IPI
Inferred from Physical Interaction
more info
 PubMed 
Process Evidence Code Pubs
acts_upstream_of_or_within fatty acid beta-oxidation IMP
Inferred from Mutant Phenotype
more info
 PubMed 
acts_upstream_of_or_within fatty-acyl-CoA transport IMP
Inferred from Mutant Phenotype
more info
 PubMed 
acts_upstream_of_or_within lipid catabolic process IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in lipid catabolic process IMP
Inferred from Mutant Phenotype
more info
 PubMed 
acts_upstream_of_or_within positive regulation of seed germination IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in transmembrane transport IEA
Inferred from Electronic Annotation
more info
  
acts_upstream_of_or_within ubiquinone biosynthetic process IMP
Inferred from Mutant Phenotype
more info
 PubMed 
Component Evidence Code Pubs
located_in glyoxysomal membrane IDA
Inferred from Direct Assay
more info
 PubMed 
located_in peroxisome IDA
Inferred from Direct Assay
more info
 PubMed 

General protein information

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Preferred Names
peroxisomal ABC transporter 1
NP_001190972.1
  • peroxisomal ABC transporter 1 (PXA1); CONTAINS InterPro DOMAIN/s: ATPase, AAA+ type, core (InterPro:IPR003593), ABC transporter-like (InterPro:IPR003439), ABC transporter, N-terminal (InterPro:IPR010509), ABC transporter, transmembrane domain, type 1 (InterPro:IPR011527), ABC transporter integral membrane type 1 (InterPro:IPR017940), ABC transporter, conserved site (InterPro:IPR017871); BEST Arabidopsis thaliana protein match is: ABC transporter family protein (TAIR:AT1G54350.1).
NP_001190973.1
  • peroxisomal ABC transporter 1 (PXA1); CONTAINS InterPro DOMAIN/s: ATPase, AAA+ type, core (InterPro:IPR003593), ABC transporter, N-terminal (InterPro:IPR010509), ABC transporter-like (InterPro:IPR003439), ABC transporter integral membrane type 1 (InterPro:IPR017940), ABC transporter, transmembrane domain, type 1 (InterPro:IPR011527), ABC transporter, conserved site (InterPro:IPR017871); BEST Arabidopsis thaliana protein match is: ABC transporter family protein (TAIR:AT1G54350.1).
NP_568072.1
  • peroxisomal ABC transporter 1 (PXA1); CONTAINS InterPro DOMAIN/s: ATPase, AAA+ type, core (InterPro:IPR003593), ABC transporter, N-terminal (InterPro:IPR010509), ABC transporter-like (InterPro:IPR003439), ABC transporter, transmembrane domain, type 1 (InterPro:IPR011527), ABC transporter integral membrane type 1 (InterPro:IPR017940), ABC transporter, conserved site (InterPro:IPR017871); BEST Arabidopsis thaliana protein match is: ABC transporter family protein (TAIR:AT1G54350.1); Has 30201 Blast hits to 17322 proteins in 780 species: Archae - 12; Bacteria - 1396; Metazoa - 17338; Fungi - 3422; Plants - 5037; Viruses - 0; Other Eukaryotes - 2996 (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_003075.7 Reference assembly

    Range
    18488434..18497266
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NM_001204043.2 → NP_001190972.1  peroxisomal ABC transporter 1 [Arabidopsis thaliana]

    See identical proteins and their annotated locations for NP_001190972.1

    Status: REVIEWED

    UniProtKB/TrEMBL
    A0A178V4N7, F4JJ27
    Conserved Domains (4) summary
    PRK13538
    Location:1129 → 1335
    PRK13538; cytochrome c biogenesis protein CcmA; Provisional
    cd03223
    Location:448 → 656
    ABCD_peroxisomal_ALDP; ATP-binding cassette domain of peroxisomal transporter, subfamily D
    COG1132
    Location:109 → 651
    MdlB; ABC-type multidrug transport system, ATPase and permease component [Defense mechanisms]
    pfam06472
    Location:89 → 361
    ABC_membrane_2; ABC transporter transmembrane region 2

  2. NM_001342558.1 → NP_001328232.1  peroxisomal ABC transporter 1 [Arabidopsis thaliana]

    Status: REVIEWED

    UniProtKB/Swiss-Prot
    Q8VWH7, Q94FB9, Q9SMR8
    UniProtKB/TrEMBL
    A0A178V4N7

  3. NM_001204044.1 → NP_001190973.1  peroxisomal ABC transporter 1 [Arabidopsis thaliana]

    See identical proteins and their annotated locations for NP_001190973.1

    Status: REVIEWED

    UniProtKB/TrEMBL
    A0A178V4N7, F4JJ28
    Conserved Domains (4) summary
    PRK13538
    Location:1115 → 1321
    PRK13538; cytochrome c biogenesis protein CcmA; Provisional
    cd03223
    Location:448 → 656
    ABCD_peroxisomal_ALDP; ATP-binding cassette domain of peroxisomal transporter, subfamily D
    COG1132
    Location:109 → 651
    MdlB; ABC-type multidrug transport system, ATPase and permease component [Defense mechanisms]
    pfam06472
    Location:89 → 361
    ABC_membrane_2; ABC transporter transmembrane region 2

  4. NM_120148.3 → NP_568072.1  peroxisomal ABC transporter 1 [Arabidopsis thaliana]

    See identical proteins and their annotated locations for NP_568072.1

    Status: REVIEWED

    UniProtKB/Swiss-Prot
    Q8VWH7, Q94FB9, Q9SMR8
    UniProtKB/TrEMBL
    A0A178V4N7
    Conserved Domains (4) summary
    PRK13538
    Location:1114 → 1320
    PRK13538; cytochrome c biogenesis protein CcmA; Provisional
    cd03223
    Location:448 → 656
    ABCD_peroxisomal_ALDP; ATP-binding cassette domain of peroxisomal transporter, subfamily D
    COG1132
    Location:109 → 651
    MdlB; ABC-type multidrug transport system, ATPase and permease component [Defense mechanisms]
    pfam06472
    Location:89 → 361
    ABC_membrane_2; ABC transporter transmembrane region 2
Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q94FB9.1

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