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    LYC lycopene cyclase [ Arabidopsis thaliana (thale cress) ]

    Gene ID: 820185, updated on 7-Sep-2023

    Summary

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    Gene symbol
    LYC
    Gene description
    lycopene cyclase
    Primary source
    Araport:AT3G10230
    Locus tag
    AT3G10230
    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
    AtLCY; LYCOPENE BETA-CYCLASE; lycopene cyclase
    Summary
    Encodes a protein with lycopene beta-cyclase activity. This enzyme uses the linear, symmetrical lycopene as substrate. However, unlike the ε-cyclase which adds only one ring, the beta-cyclase introduces a ring at both ends of lycopene to form the bicyclic beta-carotene.
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    Genomic context

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    Location:
    chromosome: 3
    Exon count:
    2
    Sequence:
    Chromosome: 3; NC_003074.8 (3164075..3166038, complement)

    Chromosome 3 - NC_003074.8Genomic Context describing neighboring genes Neighboring gene S-adenosyl-L-methionine-dependent methyltransferases superfamily protein Neighboring gene SEC14 cytosolic factor family protein / phosphoglyceride transfer family protein Neighboring gene tubulin folding cofactor B Neighboring gene ncRNA Neighboring gene ncRNA Neighboring gene F-box and associated interaction domains-containing protein Neighboring gene histidine-tRNA ligase

    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. Transformation of beta-lycopene cyclase genes from Salicornia europaea and Arabidopsis conferred salt tolerance in Arabidopsis and tobacco. Chen X, et al. Plant Cell Physiol, 2011 May. PMID 21471119
    2. Lutein accumulation in the absence of zeaxanthin restores nonphotochemical quenching in the Arabidopsis thaliana npq1 mutant. Li Z, et al. Plant Cell, 2009 Jun. PMID 19549928, Free PMC Article
    3. Functional analysis of the beta and epsilon lycopene cyclase enzymes of Arabidopsis reveals a mechanism for control of cyclic carotenoid formation. Cunningham FX Jr, et al. Plant Cell, 1996 Sep. PMID 8837512, Free PMC Article
    4. Sequence and analysis of chromosome 3 of the plant Arabidopsis thaliana. Salanoubat M, et al. Nature, 2000 Dec 14. PMID 11130713

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. SeLCY transgenic Arabidopsis improved salt tolerance by increasing synthesis of carotenoids, and as a single gene, SeLCY functionally showed no advantage for salt tolerance improvement compared with AtLCY. [AtLCy]
      Title: Transformation of beta-lycopene cyclase genes from Salicornia europaea and Arabidopsis conferred salt tolerance in Arabidopsis and tobacco.
    2. Szl1 has been identified as a suppressor of the npq1 mutant which lacks zeaxanthin.
      Title: Lutein accumulation in the absence of zeaxanthin restores nonphotochemical quenching in the Arabidopsis thaliana npq1 mutant.
    Submit: New GeneRIF Correction

    Pathways from PubChem

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    General gene information

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    Homology

    NM_001084662.1
    NM_111858.2

    Gene Ontology Provided by TAIR

    Function Evidence Code Pubs
    enables lycopene beta cyclase activity IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables lycopene beta cyclase activity IGI
    Inferred from Genetic Interaction
    more info
    		 PubMed 
    enables oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    acts_upstream_of_or_within carotene biosynthetic process IGI
    Inferred from Genetic Interaction
    more info
    		 PubMed 
    involved_in carotenoid biosynthetic process IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in chloroplast ISM
    Inferred from Sequence Model
    more info
    		  
    located_in chloroplast TAS
    Traceable Author Statement
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    lycopene cyclase
    NP_001078131.1
    • lycopene cyclase (LYC); CONTAINS InterPro DOMAIN/s: Lycopene beta/epsilon cyclase (InterPro:IPR008671), Lycopene cyclase, beta/epsilon (InterPro:IPR010108); BEST Arabidopsis thaliana protein match is: Lycopene beta/epsilon cyclase protein (TAIR:AT5G57030.1); Has 1114 Blast hits to 1109 proteins in 188 species: Archae - 1; Bacteria - 220; Metazoa - 0; Fungi - 0; Plants - 356; Viruses - 0; Other Eukaryotes - 537 (source: NCBI BLink).
    NP_187634.1
    • lycopene cyclase (LYC); CONTAINS InterPro DOMAIN/s: Lycopene beta/epsilon cyclase (InterPro:IPR008671), Lycopene cyclase, beta/epsilon (InterPro:IPR010108); BEST Arabidopsis thaliana protein match is: Lycopene beta/epsilon cyclase protein (TAIR:AT5G57030.1); Has 1445 Blast hits to 1439 proteins in 252 species: Archae - 29; Bacteria - 306; Metazoa - 0; Fungi - 5; Plants - 374; Viruses - 0; Other Eukaryotes - 731 (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
      3164075..3166038 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_001084662.1 → NP_001078131.1  lycopene cyclase [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_001078131.1

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      Q38933
      Conserved Domains (2) summary
      TIGR01790
      Location:1 → 349
      carotene-cycl; lycopene cyclase family protein
      PLN02463
      Location:1 → 369
      PLN02463; lycopene beta cyclase

    2. NM_111858.2 → NP_187634.1  lycopene cyclase [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_187634.1

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      A8MR53, Q38933, Q39145
      UniProtKB/TrEMBL
      A0A178VBX7, A0A5S9XAP3
      Conserved Domains (1) summary
      PLN02463
      Location:55 → 501
      PLN02463; lycopene beta cyclase
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q38933.1

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