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    SVR1 pseudouridine synthase family protein [ Arabidopsis thaliana (thale cress) ]

    Gene ID: 818500, updated on 18-Sep-2024

    Summary

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    Official Symbol
    SVR1
    Official Full Name
    pseudouridine synthase family protein
    Primary source
    TAIR:AT2G39140
    Locus tag
    AT2G39140
    See related
    Araport:AT2G39140
    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
    AT2G39150; PDE328; PIGMENT DEFECTIVE 328; SUPPRESSOR OF VARIEGATION 1; T16B24.22; T16B24_22
    Summary
    Suppressor of var2 variegation phenotype. Chloroplast localized. Loss of function mutant has defects in chloroplast protein translation and rRNA processing. Similar in sequence to pseudouridine synthase proteins.
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    Genomic context

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    See SVR1 in Genome Data Viewer
    Location:
    chromosome: 2
    Exon count:
    9
    Sequence:
    Chromosome: 2; NC_003071.7 (16330129..16333405)

    Chromosome 2 - NC_003071.7Genomic Context describing neighboring genes Neighboring gene Ubiquitin carboxyl-terminal hydrolase family protein Neighboring gene Transmembrane amino acid transporter family protein Neighboring gene ncRNA Neighboring gene uncharacterized protein Neighboring gene MEF2BNB-like protein

    Genomic regions, transcripts, and products

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    Genomic Sequence:
    NC_003071.7

    Go to nucleotide: Graphics FASTA GenBank

    Bibliography

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    Related articles in PubMed

    1. Mutations in SUPPRESSOR OF VARIEGATION1, a factor required for normal chloroplast translation, suppress var2-mediated leaf variegation in Arabidopsis. Yu F, et al. Plant Cell, 2008 Jul. PMID 18599582, Free PMC Article
    2. Discovering the RNA-Binding Proteome of Plant Leaves with an Improved RNA Interactome Capture Method. Bach-Pages M, et al. Biomolecules, 2020 Apr 24. PMID 32344669, Free PMC Article
    3. Sequence and analysis of chromosome 2 of the plant Arabidopsis thaliana. Lin X, et al. Nature, 1999 Dec 16. PMID 10617197

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Data revealed that SVR1/At2g39140 suppress var2-mediated leaf variegation. It not only played a role in uridine isomerization but its physical presence was necessary for proper chloroplast rRNA processing
      Title: Mutations in SUPPRESSOR OF VARIEGATION1, a factor required for normal chloroplast translation, suppress var2-mediated leaf variegation in Arabidopsis.
    Submit: New GeneRIF Correction

    General gene information

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    Homology

    NM_001336760.1
    NM_129471.3

    Gene Ontology Provided by TAIR

    Function Evidence Code Pubs
    enables mRNA binding IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables pseudouridine synthase activity TAS
    Traceable Author Statement
    more info
    		 PubMed 
    Process Evidence Code Pubs
    acts_upstream_of_or_within maturation of LSU-rRNA from tetracistronic rRNA transcript (SSU-rRNA, LSU-rRNA, 4.5S-rRNA, 5S-rRNA) IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within maturation of SSU-rRNA from tetracistronic rRNA transcript (SSU-rRNA, LSU-rRNA, 4.5S-rRNA, 5S-rRNA) IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within plastid translation IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in pseudouridine synthesis IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    located_in amyloplast TAS
    Traceable Author Statement
    more info
    		 PubMed 
    located_in chloroplast IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in chloroplast ISM
    Inferred from Sequence Model
    more info
    		  
    located_in plastid IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    pseudouridine synthase family protein
    NP_181447.2
    • SUPPRESSOR OF VARIEGATION 1 (SVR1); CONTAINS InterPro DOMAIN/s: Pseudouridine synthase, catalytic domain (InterPro:IPR020103), Pseudouridine synthase, RsuA and RluB/C/D/E/F (InterPro:IPR006145), RNA-binding S4 (InterPro:IPR002942), Pseudouridine synthase, RsuA and RluB/E/F, conserved site (InterPro:IPR018496); BEST Arabidopsis thaliana protein match is: Pseudouridine synthase family protein (TAIR:AT3G43340.1); Has 12713 Blast hits to 12709 proteins in 2415 species: Archae - 0; Bacteria - 10639; Metazoa - 2; Fungi - 2; Plants - 70; Viruses - 0; Other Eukaryotes - 2000 (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_003071.7 Reference assembly

      Range
      16330129..16333405
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_129471.3 → NP_181447.2  pseudouridine synthase family protein [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_181447.2

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      O80966, O80967, Q8L960
      UniProtKB/TrEMBL
      A0A178VP33, A0A5S9X5A8
      Conserved Domains (1) summary
      COG1187
      Location:159 → 406
      RsuA; 16S rRNA U516 pseudouridylate synthase RsuA and related 23S rRNA U2605, pseudouridylate synthases [Translation, ribosomal structure and biogenesis]

    2. NM_001336760.1 → NP_001323702.1  pseudouridine synthase family protein [Arabidopsis thaliana]

      Status: REVIEWED

      UniProtKB/TrEMBL
      A0A1P8AXV3
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q8L960.1

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