U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

Links from GEO Profiles

    • Showing Current items.

    NYC1 NAD(P)-binding Rossmann-fold superfamily protein [ Arabidopsis thaliana (thale cress) ]

    Gene ID: 826942, updated on 18-Sep-2024

    Summary

    Go to the top of the page Help
    Official Symbol
    NYC1
    Official Full Name
    NAD(P)-binding Rossmann-fold superfamily protein
    Primary source
    TAIR:AT4G13250
    Locus tag
    AT4G13250
    See related
    Araport:AT4G13250
    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
    F17N18.140; F17N18_140; NON-YELLOW COLORING 1
    Summary
    Encodes a chlorophyll b reductase involved in the degradation of chlorophyll b and LHCII (light harvesting complex II).
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    Go to the top of the page Help
    See NYC1 in Genome Data Viewer
    Location:
    chromosome: 4
    Exon count:
    10
    Sequence:
    Chromosome: 4; NC_003075.7 (7684156..7687006, complement)

    Chromosome 4 - NC_003075.7Genomic Context describing neighboring genes Neighboring gene ncRNA Neighboring gene ncRNA Neighboring gene pseudo Neighboring gene miscRNA Neighboring gene pseudo

    Genomic regions, transcripts, and products

    Go to the top of the page Help
    Genomic Sequence:
    NC_003075.7

    Go to nucleotide: Graphics FASTA GenBank

    Bibliography

    Go to the top of the pageHelp

    Related articles in PubMed

    1. Staying green postharvest: how three mutations in the Arabidopsis chlorophyll b reductase gene NYC1 delay degreening by distinct mechanisms. Jibran R, et al. J Exp Bot, 2015 Nov. PMID 26261268
    2. Chlorophyll b degradation by chlorophyll b reductase under high-light conditions. Sato R, et al. Photosynth Res, 2015 Dec. PMID 25896488
    3. Accumulation of the NON-YELLOW COLORING 1 protein of the chlorophyll cycle requires chlorophyll b in Arabidopsis thaliana. Jia T, et al. Plant J, 2015 Feb. PMID 25557327
    4. Chlorophyll b reductase plays an essential role in maturation and storability of Arabidopsis seeds. Nakajima S, et al. Plant Physiol, 2012 Sep. PMID 22751379, Free PMC Article
    5. Mg-dechelation of chlorophyll a by Stay-Green activates chlorophyll b degradation through expressing Non-Yellow Coloring 1 in Arabidopsis thaliana. Sato T, et al. J Plant Physiol, 2018 Mar. PMID 29425814

    See all (10) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. The mRNA and protein levels of NYC1 increased after SGR overexpression in wild type plants. Mg-dechelation of chlorophyll a by SGR activates chlorophyll b degradation by inducing the expression of NYC1. This is an effective regulation of a metabolic pathway.
      Title: Mg-dechelation of chlorophyll a by Stay-Green activates chlorophyll b degradation through expressing Non-Yellow Coloring 1 in Arabidopsis thaliana.
    2. 3 single base pair mutations disrupted NON-YELLOW COLORING1 function, one by producing a termination codon, the second by interfering with correct intron splicing and the third by replacing a highly conserved proline with a non-equivalent serine residue.
      Title: Staying green postharvest: how three mutations in the Arabidopsis chlorophyll b reductase gene NYC1 delay degreening by distinct mechanisms.
    3. Chlorophyll b degradation by NYC1 is the initial reaction for the optimization of the light-harvesting capacity under high-light conditions.
      Title: Chlorophyll b degradation by chlorophyll b reductase under high-light conditions.
    4. accumulation of NYC1 requires chlorophyll b
      Title: Accumulation of the NON-YELLOW COLORING 1 protein of the chlorophyll cycle requires chlorophyll b in Arabidopsis thaliana.
    5. NYC1 expression is regulated by abscisic acid.
      Title: Chlorophyll b reductase plays an essential role in maturation and storability of Arabidopsis seeds.
    Submit: New GeneRIF Correction

    Pathways from PubChem

    Go to the top of the page

    Interactions

    Go to the top of the page Help
    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Go to the top of the page Help

    Homology

    NM_117396.4

    Gene Ontology Provided by TAIR

    Function Evidence Code Pubs
    enables chlorophyll(ide) b reductase activity IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    Process Evidence Code Pubs
    acts_upstream_of_or_within PSII associated light-harvesting complex II catabolic process IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within chlorophyll catabolic process IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in chloroplast IC
    Inferred by Curator
    more info
    		 PubMed 

    General protein information

    Go to the top of the page Help
    Preferred Names
    NAD(P)-binding Rossmann-fold superfamily protein
    NP_001190716.1
    • NON-YELLOW COLORING 1 (NYC1); CONTAINS InterPro DOMAIN/s: NAD(P)-binding domain (InterPro:IPR016040), Glucose/ribitol dehydrogenase (InterPro:IPR002347), Short-chain dehydrogenase/reductase SDR (InterPro:IPR002198); BEST Arabidopsis thaliana protein match is: NYC1-like (TAIR:AT5G04900.1).
    NP_567400.1
    • NON-YELLOW COLORING 1 (NYC1); CONTAINS InterPro DOMAIN/s: NAD(P)-binding domain (InterPro:IPR016040), Glucose/ribitol dehydrogenase (InterPro:IPR002347), Short-chain dehydrogenase/reductase SDR (InterPro:IPR002198); BEST Arabidopsis thaliana protein match is: NYC1-like (TAIR:AT5G04900.1); 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)

    Go to the top of the page Help

    NEW Try the new Transcript table

    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
      7684156..7687006 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_001203787.1 → NP_001190716.1  NAD(P)-binding Rossmann-fold superfamily protein [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_001190716.1

      Status: REVIEWED

      UniProtKB/TrEMBL
      A0A654FNW9, F4JSA6
      Conserved Domains (2) summary
      cd05233
      Location:164 → 393
      SDR_c; classical (c) SDRs
      pfam00106
      Location:162 → 366
      adh_short; short chain dehydrogenase

    2. NM_117396.4 → NP_567400.1  NAD(P)-binding Rossmann-fold superfamily protein [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_567400.1

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      Q93ZA0, Q9SVQ2
      UniProtKB/TrEMBL
      A0A178UYX7, A0A5S9XS50, A0A654FNW9
      Conserved Domains (1) summary
      cd05233
      Location:164 → 395
      SDR_c; classical (c) SDRs
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q93ZA0.1

    Gene LinkOut

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

    Other Literature Sources
    Molecular Biology Databases
    Research Materials
    Tools