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    PYD2 pyrimidine 2 [ Arabidopsis thaliana (thale cress) ]

    Gene ID: 831093, updated on 18-Sep-2024

    Summary

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    Official Symbol
    PYD2
    Official Full Name
    pyrimidine 2
    Primary source
    TAIR:AT5G12200
    Locus tag
    AT5G12200
    See related
    Araport:AT5G12200
    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
    MXC9.16; MXC9_16; pyrimidine 2
    Summary
    Encodes a protein with dihydropyrimidine amidohydrolase activity. It localizes to the secretory system and plays a role in uracil metabolism.
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    Genomic context

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    See PYD2 in Genome Data Viewer
    Location:
    chromosome: 5
    Exon count:
    13
    Sequence:
    Chromosome: 5; NC_003076.8 (3941528..3944866, complement)

    Chromosome 5 - NC_003076.8Genomic Context describing neighboring genes Neighboring gene miscRNA Neighboring gene RNA-binding (RRM/RBD/RNP motifs) family protein Neighboring gene RAB geranylgeranyl transferase beta subunit 1 Neighboring gene las1-like family protein Neighboring gene mediator of RNA polymerase II transcription subunit 19a-like protein

    Genomic regions, transcripts, and products

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    Genomic Sequence:
    NC_003076.8

    Go to nucleotide: Graphics FASTA GenBank

    Bibliography

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    Related articles in PubMed

    1. A functional analysis of the pyrimidine catabolic pathway in Arabidopsis. Zrenner R, et al. New Phytol, 2009. PMID 19413687, Free PMC Article
    2. Dihydropyrimidine amidohydrolases and dihydroorotases share the same origin and several enzymatic properties. Gojkovic Z, et al. Nucleic Acids Res, 2003 Mar 15. PMID 12626710, Free PMC Article
    3. Isolation and proteomic characterization of the Arabidopsis Golgi defines functional and novel components involved in plant cell wall biosynthesis. Parsons HT, et al. Plant Physiol, 2012 May. PMID 22430844, Free PMC Article
    4. Advanced proteomic analyses yield a deep catalog of ubiquitylation targets in Arabidopsis. Kim DY, et al. Plant Cell, 2013 May. PMID 23667124, Free PMC Article
    5. Putative glycosyltransferases and other plant Golgi apparatus proteins are revealed by LOPIT proteomics. Nikolovski N, et al. Plant Physiol, 2012 Oct. PMID 22923678, Free PMC Article

    See all (7) citations in PubMed

    GeneRIFs: Gene References Into Functions

    Pathways from PubChem

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    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    NM_121258.4

    Gene Ontology Provided by TAIR

    Function Evidence Code Pubs
    enables dihydropyrimidinase activity IGI
    Inferred from Genetic Interaction
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in beta-alanine biosynthetic process IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within cellular response to nitrogen levels IEP
    Inferred from Expression Pattern
    more info
    		 PubMed 
    acts_upstream_of_or_within uracil catabolic process IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in Golgi apparatus HDA PubMed 
    located_in chloroplast ISM
    Inferred from Sequence Model
    more info
    		  
    located_in endomembrane system IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in endoplasmic reticulum HDA PubMed 
    located_in plastid HDA PubMed 

    General protein information

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    Preferred Names
    pyrimidine 2
    NP_568258.2
    • pyrimidine 2 (PYD2); CONTAINS InterPro DOMAIN/s: D-hydantoinase (InterPro:IPR011778), Amidohydrolase 1 (InterPro:IPR006680), Metal-dependent hydrolase, composite domain (InterPro:IPR011059); BEST Arabidopsis thaliana protein match is: allantoinase (TAIR:AT4G04955.1); Has 11476 Blast hits to 11454 proteins in 2253 species: Archae - 299; Bacteria - 6727; Metazoa - 670; Fungi - 189; Plants - 91; Viruses - 0; Other Eukaryotes - 3500 (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_003076.8 Reference assembly

      Range
      3941528..3944866 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_121258.4 → NP_568258.2  pyrimidine 2 [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_568258.2

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      Q9FMP3
      UniProtKB/TrEMBL
      A0A178UKD8, A0A5S9Y3I1
      Conserved Domains (1) summary
      PLN02942
      Location:41 → 526
      PLN02942; dihydropyrimidinase
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q9FMP3.1

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