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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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