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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
See related
TAIR: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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See LYC in Genome Data Viewer
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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