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    PHS1 cytidine/deoxycytidylate deaminase family protein [ Arabidopsis thaliana (thale cress) ]

    Gene ID: 823893, updated on 18-Sep-2024

    Summary

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    Official Symbol
    PHS1
    Official Full Name
    cytidine/deoxycytidylate deaminase family protein
    Primary source
    TAIR:AT3G47390
    Locus tag
    AT3G47390
    See related
    Araport:AT3G47390
    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
    PHOTOSENSITIVE 1; pyrimidine reductase; PyrR
    Summary
    Encodes a protein that is believed to function as a pyrimidine reductase involved in riboflavin and FAD biosynthesis. phs1 was identified as a photosensitive mutant that shows reduced growth, chloroplast developmental abnormalities, reduced chlorophyll levels, increased oxidative stress, reduced NADPH/NADP+ ratios, reduced photosystem I electron transport, and reduced photosynthetic protein levels under high light conditions. Many of these abnormal phenotypes likely arise from the reduction in the levels of FAD in the phs1 mutant.
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    Genomic context

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    See PHS1 in Genome Data Viewer
    Location:
    chromosome: 3
    Exon count:
    12
    Sequence:
    Chromosome: 3; NC_003074.8 (17459339..17464865)

    Chromosome 3 - NC_003074.8Genomic Context describing neighboring genes Neighboring gene Ribosomal protein S10p/S20e family protein Neighboring gene Plant invertase/pectin methylesterase inhibitor superfamily protein Neighboring gene ncRNA Neighboring gene Plant invertase/pectin methylesterase inhibitor superfamily Neighboring gene uncharacterized protein

    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. The photosensitive phs1 mutant is impaired in the riboflavin biogenesis pathway. Ouyang M, et al. J Plant Physiol, 2010 Nov 15. PMID 20580123
    2. Identification and characterization of the missing pyrimidine reductase in the plant riboflavin biosynthesis pathway. Hasnain G, et al. Plant Physiol, 2013 Jan. PMID 23150645, Free PMC Article
    3. A directed-overflow and damage-control N-glycosidase in riboflavin biosynthesis. Frelin O, et al. Biochem J, 2015 Feb 15. PMID 25431972, 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

    Pathways from PubChem

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    General gene information

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    NM_114607.3

    Gene Ontology Provided by TAIR

    Function Evidence Code Pubs
    enables 5-amino-6-(5-phosphoribosylamino)uracil reductase activity IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables 5-amino-6-(5-phosphoribosylamino)uracil reductase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables 5-amino-6-(5-phosphoribosylamino)uracil reductase activity NAS
    Non-traceable Author Statement
    more info
    		 PubMed 
    enables NADP binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables diaminohydroxyphosphoribosylaminopyrimidine deaminase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables hydrolase activity, hydrolyzing N-glycosyl compounds IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    Process Evidence Code Pubs
    acts_upstream_of_or_within FAD metabolic process IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in carbohydrate derivative metabolic process IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    acts_upstream_of_or_within chloroplast organization IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within response to high light intensity IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in riboflavin biosynthetic process IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    located_in chloroplast IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in chloroplast ISM
    Inferred from Sequence Model
    more info
    		  

    General protein information

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    Preferred Names
    cytidine/deoxycytidylate deaminase family protein
    NP_001190026.1
    • PHOTOSENSITIVE 1 (PHS1); CONTAINS InterPro DOMAIN/s: Conserved hypothetical protein CHP02464 (InterPro:IPR012816), CMP/dCMP deaminase, zinc-binding (InterPro:IPR002125), Cytidine deaminase-like (InterPro:IPR016193), Riboflavin-specific deaminase, C-terminal (InterPro:IPR011549), Bacterial bifunctional deaminase-reductase, C-terminal (InterPro:IPR002734), Riboflavin biosynthesis protein RibD (InterPro:IPR004794); BEST Arabidopsis thaliana protein match is: Cytidine/deoxycytidylate deaminase family protein (TAIR:AT4G20960.1).
    NP_190323.1
    • PHOTOSENSITIVE 1 (PHS1); CONTAINS InterPro DOMAIN/s: Conserved hypothetical protein CHP02464 (InterPro:IPR012816), CMP/dCMP deaminase, zinc-binding (InterPro:IPR002125), Cytidine deaminase-like (InterPro:IPR016193), Riboflavin-specific deaminase, C-terminal (InterPro:IPR011549), Bacterial bifunctional deaminase-reductase, C-terminal (InterPro:IPR002734), Riboflavin biosynthesis protein RibD (InterPro:IPR004794); BEST Arabidopsis thaliana protein match is: Cytidine/deoxycytidylate deaminase family protein (TAIR:AT4G20960.1); Has 7611 Blast hits to 7611 proteins in 2242 species: Archae - 202; Bacteria - 4931; Metazoa - 21; Fungi - 157; Plants - 91; Viruses - 17; Other Eukaryotes - 2192 (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
      17459339..17464865
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_001203097.2 → NP_001190026.1  cytidine/deoxycytidylate deaminase family protein [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_001190026.1

      Status: REVIEWED

      UniProtKB/TrEMBL
      A0A178VLW0, F4JBI5
      Conserved Domains (4) summary
      cd01284
      Location:36 → 148
      Riboflavin_deaminase-reductase; Riboflavin-specific deaminase. Riboflavin biosynthesis protein RibD (Diaminohydroxyphosphoribosylaminopyrimidine deaminase) catalyzes the deamination of 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5'-phosphate, which is an intermediate step in the ...
      cd15457
      Location:424 → 580
      NADAR; Escherichia coli swarming motility protein YbiA and related proteins
      TIGR00326
      Location:36 → 390
      eubact_ribD; riboflavin biosynthesis protein RibD
      cl17279
      Location:185 → 395
      DHFR; Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5, ...

    2. NM_114607.3 → NP_190323.1  cytidine/deoxycytidylate deaminase family protein [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_190323.1

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      Q9STY4
      UniProtKB/TrEMBL
      A0A178VLW0
      Conserved Domains (4) summary
      cd01284
      Location:36 → 148
      Riboflavin_deaminase-reductase; Riboflavin-specific deaminase. Riboflavin biosynthesis protein RibD (Diaminohydroxyphosphoribosylaminopyrimidine deaminase) catalyzes the deamination of 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5'-phosphate, which is an intermediate step in the ...
      cd15457
      Location:424 → 583
      NADAR; Escherichia coli swarming motility protein YbiA and related proteins
      TIGR00326
      Location:36 → 390
      eubact_ribD; riboflavin biosynthesis protein RibD
      cl17279
      Location:185 → 395
      DHFR; Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5, ...
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q9STY4.1

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