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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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