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pds phytoene desaturase [ Solanum lycopersicum (tomato) ]

Gene ID: 544073, updated on 3-Dec-2024

Summary

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Gene symbol
pds
Gene description
phytoene desaturase
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Solanum lycopersicum
Lineage
Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta; Spermatophyta; Magnoliopsida; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Solanales; Solanaceae; Solanoideae; Solaneae; Solanum; Solanum subgen. Lycopersicon
Summary
This gene encodes phytoene desaturase which converts 15-cis-phytoene into zeta-carotene. PDS silenced plants display photobleaching phenotype of leaves and impaired pigment formation in fruits. [provided by RefSeq, Dec 2016]
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Genomic context

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See pds in Genome Data Viewer
Location:
chromosome: 3
Exon count:
17
Annotation release Status Assembly Chr Location
RS_2024_09 current SLM_r2.1 (GCF_036512215.1) 3 NC_090802.1 (67362564..67370427)
103 previous assembly SL3.0 (GCF_000188115.4) 3 NC_015440.3 (72003341..72011020)

Chromosome 3 - NC_090802.1Genomic Context describing neighboring genes Neighboring gene protein kinase superfamily protein Neighboring gene triacylglycerol lipase OBL1 Neighboring gene small polypeptide DEVIL 22 Neighboring gene tyrosine-sulfated glycopeptide receptor 1

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Bibliography

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Related articles in PubMed

  1. High-throughput virus-induced gene-silencing approach to assess the functional relevance of a moisture stress-induced cDNA homologous to lea4. Senthil-Kumar M, et al. J Exp Bot, 2006. PMID 16798849
  2. Agroinjection of tomato fruits. A tool for rapid functional analysis of transgenes directly in fruit. Orzaez D, et al. Plant Physiol, 2006 Jan. PMID 16403736, Free PMC Article
  3. Regulation of carotenoid biosynthesis during tomato development. Giuliano G, et al. Plant Cell, 1993 Apr. PMID 8485401, Free PMC Article
  4. Cloning and characterization of the gene for phytoene desaturase (Pds) from tomato (Lycopersicon esculentum). Mann V, et al. Plant Mol Biol, 1994 Feb. PMID 8123786
  5. Sequence of the phytoene desaturase locus of tomato. Aracri B, et al. Plant Physiol, 1994 Oct. PMID 7991692, Free PMC Article

See all (9) citations in PubMed

GeneRIFs: Gene References Into Functions

General gene information

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Homology

Gene Ontology Provided by RefSeq

Function Evidence Code Pubs
enables phytoene dehydrogenase activity IEA
Inferred from Electronic Annotation
more info
 PubMed 
Process Evidence Code Pubs
involved_in carotenoid biosynthetic process IEA
Inferred from Electronic Annotation
more info
 PubMed 
Component Evidence Code Pubs
located_in chloroplast thylakoid IEA
Inferred from Electronic Annotation
more info
 PubMed 

General protein information

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Preferred Names
15-cis-phytoene desaturase, chloroplastic/chromoplastic
Names
phytoene dehydrogenase, chloroplastic/chromoplastic
plastid phytoene desaturase
NP_001234095.1
XP_010318412.1
XP_010318414.1
XP_019068139.2
XP_069150944.1
XP_069150945.1
XP_069150946.1

NCBI Reference Sequences (RefSeq)

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RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

  1. NM_001247166.2 → NP_001234095.1  15-cis-phytoene desaturase, chloroplastic/chromoplastic

    See identical proteins and their annotated locations for NP_001234095.1

    Status: REVIEWED

    Source sequence(s)
    M88683
    UniProtKB/Swiss-Prot
    P28554
    UniProtKB/TrEMBL
    Q3S1N6, R9WXS0
    Conserved Domains (2) summary
    PLN02612
    Location:26 → 583
    PLN02612; phytoene desaturase
    pfam13450
    Location:116 → 182
    NAD_binding_8; NAD(P)-binding Rossmann-like domain

RefSeqs of Annotated Genomes: GCF_036512215.1-RS_2024_09

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference SLM_r2.1 Primary Assembly

Genomic

  1. NC_090802.1 Reference SLM_r2.1 Primary Assembly

    Range
    67362564..67370427
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_010320110.4 → XP_010318412.1  15-cis-phytoene desaturase, chloroplastic/chromoplastic isoform X1

    UniProtKB/TrEMBL
    R9WXS0
    Conserved Domains (2) summary
    PLN02612
    Location:90 → 647
    PLN02612; phytoene desaturase
    pfam13450
    Location:180 → 246
    NAD_binding_8; NAD(P)-binding Rossmann-like domain

  2. XM_069294844.1 → XP_069150945.1  15-cis-phytoene desaturase, chloroplastic/chromoplastic isoform X3

    UniProtKB/Swiss-Prot
    P28554
    UniProtKB/TrEMBL
    Q3S1N6, R9WXS0

  3. XM_010320112.3 → XP_010318414.1  15-cis-phytoene desaturase, chloroplastic/chromoplastic isoform X3

    See identical proteins and their annotated locations for XP_010318414.1

    UniProtKB/Swiss-Prot
    P28554
    UniProtKB/TrEMBL
    Q3S1N6, R9WXS0
    Conserved Domains (2) summary
    PLN02612
    Location:26 → 583
    PLN02612; phytoene desaturase
    pfam13450
    Location:116 → 182
    NAD_binding_8; NAD(P)-binding Rossmann-like domain

  4. XM_069294843.1 → XP_069150944.1  15-cis-phytoene desaturase, chloroplastic/chromoplastic isoform X3

    UniProtKB/Swiss-Prot
    P28554
    UniProtKB/TrEMBL
    Q3S1N6, R9WXS0

  5. XM_019212594.3 → XP_019068139.2  15-cis-phytoene desaturase, chloroplastic/chromoplastic isoform X2

    UniProtKB/TrEMBL
    R9WXS0

  6. XM_069294845.1 → XP_069150946.1  15-cis-phytoene desaturase, chloroplastic/chromoplastic isoform X3

    UniProtKB/Swiss-Prot
    P28554
    UniProtKB/TrEMBL
    Q3S1N6, R9WXS0

RNA

  1. XR_011219882.1 RNA Sequence

Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
P28554.1 GenPept UniProtKB/Swiss-Prot:P28554

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