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Pdss2 decaprenyl diphosphate synthase subunit 2 [ Rattus norvegicus (Norway rat) ]

Gene ID: 365592, updated on 4-Jan-2025

Summary

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Official Symbol
Pdss2provided by RGD
Official Full Name
decaprenyl diphosphate synthase subunit 2provided by RGD
Primary source
RGD:1359372
See related
EnsemblRapid:ENSRNOG00000042962 AllianceGenome:RGD:1359372
Gene type
protein coding
RefSeq status
PROVISIONAL
Organism
Rattus norvegicus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Summary
Predicted to enable prenyltransferase activity and protein heterodimerization activity. Predicted to contribute to all-trans-decaprenyl-diphosphate synthase activity and all-trans-nonaprenyl-diphosphate synthase (geranyl-diphosphate specific) activity. Predicted to be involved in cerebellum development; isoprenoid biosynthetic process; and ubiquinone biosynthetic process. Predicted to act upstream of or within regulation of body fluid levels. Predicted to be located in cytosol. Predicted to be part of heterotetrameric polyprenyl diphosphate synthase complex. Predicted to be active in mitochondrion. Human ortholog(s) of this gene implicated in primary coenzyme Q10 deficiency 3. Orthologous to human PDSS2 (decaprenyl diphosphate synthase subunit 2). [provided by Alliance of Genome Resources, Jan 2025]
Expression
Biased expression in Heart (RPKM 61.6), Muscle (RPKM 52.9) and 9 other tissues See more
Orthologs
human mouse all
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Genomic context

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See Pdss2 in Genome Data Viewer
Location:
20q13
Exon count:
11
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCr8 (GCF_036323735.1) 20 NC_086038.1 (48291788..48520846)
RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 20 NC_051355.1 (46709631..46938704)
106 previous assembly Rnor_6.0 (GCF_000001895.5) 20 NC_005119.4 (47966513..48192747)

Chromosome 20 - NC_086038.1Genomic Context describing neighboring genes Neighboring gene sine oculis binding protein homolog Neighboring gene RIKEN cDNA 9030612E09 gene like Neighboring gene uncharacterized LOC134483827 Neighboring gene uncharacterized LOC102551730 Neighboring gene ribosomal protein L37A, pseudogene 5 Neighboring gene BEN domain containing 3

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
  • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
  • BioProject: PRJNA238328
  • Publication: PMID 24510058
  • Analysis date: Mon Jun 6 17:44:12 2016

Bibliography

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Related articles in PubMed

  1. An inherited kidney disease of mice resembling human nephronophthisis. Lyon MF, et al. J Med Genet, 1971 Mar. PMID 5098070, Free PMC Article
  2. Characterization of solanesyl and decaprenyl diphosphate synthases in mice and humans. Saiki R, et al. FEBS J, 2005 Nov. PMID 16262699
  3. Quantitative high-confidence human mitochondrial proteome and its dynamics in cellular context. Morgenstern M, et al. Cell Metab, 2021 Dec 7. PMID 34800366, Free PMC Article
  4. A mitochondrial protein compendium elucidates complex I disease biology. Pagliarini DJ, et al. Cell, 2008 Jul 11. PMID 18614015, Free PMC Article
  5. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). Gerhard DS, et al. Genome Res, 2004 Oct. PMID 15489334, Free PMC Article

See all (7) citations in PubMed

GeneRIFs: Gene References Into Functions

Pathways from PubChem

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General gene information

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Markers

Homology

Gene Ontology Provided by RGD

Function Evidence Code Pubs
contributes_to all-trans-decaprenyl-diphosphate synthase activity ISO
Inferred from Sequence Orthology
more info
  
contributes_to all-trans-decaprenyl-diphosphate synthase activity ISS
Inferred from Sequence or Structural Similarity
more info
  
contributes_to all-trans-nonaprenyl-diphosphate synthase (geranyl-diphosphate specific) activity ISO
Inferred from Sequence Orthology
more info
  
enables prenyltransferase activity IBA
Inferred from Biological aspect of Ancestor
more info
  
enables prenyltransferase activity IEA
Inferred from Electronic Annotation
more info
  
enables protein heterodimerization activity ISO
Inferred from Sequence Orthology
more info
  
Process Evidence Code Pubs
involved_in cerebellum development ISO
Inferred from Sequence Orthology
more info
  
involved_in cerebellum development ISS
Inferred from Sequence or Structural Similarity
more info
  
involved_in isoprenoid biosynthetic process IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in isoprenoid biosynthetic process IEA
Inferred from Electronic Annotation
more info
  
involved_in isoprenoid biosynthetic process ISO
Inferred from Sequence Orthology
more info
  
acts_upstream_of_or_within regulation of body fluid levels ISO
Inferred from Sequence Orthology
more info
  
involved_in ubiquinone biosynthetic process IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in ubiquinone biosynthetic process IEA
Inferred from Electronic Annotation
more info
  
involved_in ubiquinone biosynthetic process ISO
Inferred from Sequence Orthology
more info
  
Component Evidence Code Pubs
located_in cytosol IEA
Inferred from Electronic Annotation
more info
  
located_in cytosol ISO
Inferred from Sequence Orthology
more info
  
part_of heterotetrameric polyprenyl diphosphate synthase complex ISO
Inferred from Sequence Orthology
more info
  
is_active_in mitochondrion IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in mitochondrion ISO
Inferred from Sequence Orthology
more info
 PubMed 
part_of polyprenyl diphosphate synthase complex IBA
Inferred from Biological aspect of Ancestor
more info
  

General protein information

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Preferred Names
all trans-polyprenyl-diphosphate synthase PDSS2
Names
all-trans-decaprenyl-diphosphate synthase subunit 2
decaprenyl pyrophosphate synthase subunit 2
decaprenyl pyrophosphate synthetase subunit 2
prenyl (decaprenyl) diphosphate synthase, subunit 2
prenyl (solanesyl) diphosphate synthase, subunit 2
solanesyl-diphosphate synthase subunit 2
NP_001014271.1
XP_038954837.1
XP_063135401.1
XP_063135402.1
XP_063135403.1

NCBI Reference Sequences (RefSeq)

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RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

  1. NM_001014249.1 → NP_001014271.1  all trans-polyprenyl-diphosphate synthase PDSS2

    See identical proteins and their annotated locations for NP_001014271.1

    Status: PROVISIONAL

    Source sequence(s)
    BC085898
    UniProtKB/Swiss-Prot
    Q5U2R1
    UniProtKB/TrEMBL
    A6K6X3
    Related
    ENSRNOP00000059060.2, ENSRNOT00000067169.4
    Conserved Domains (1) summary
    cl00210
    Location:65 → 401
    Isoprenoid_Biosyn_C1; Isoprenoid Biosynthesis enzymes, Class 1

RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCr8

Genomic

  1. NC_086038.1 Reference GRCr8

    Range
    48291788..48520846
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_063279333.1 → XP_063135403.1  all trans-polyprenyl-diphosphate synthase PDSS2 isoform X3

  2. XM_063279331.1 → XP_063135401.1  all trans-polyprenyl-diphosphate synthase PDSS2 isoform X1

  3. XM_063279332.1 → XP_063135402.1  all trans-polyprenyl-diphosphate synthase PDSS2 isoform X2

    UniProtKB/TrEMBL
    A0A8I5ZZL8
    Related
    ENSRNOP00000101879.1, ENSRNOT00000125566.1

  4. XM_039098909.2 → XP_038954837.1  all trans-polyprenyl-diphosphate synthase PDSS2 isoform X4

    UniProtKB/TrEMBL
    A0A8I5ZZL8
    Related
    ENSRNOP00000083573.2, ENSRNOT00000107145.2
    Conserved Domains (1) summary
    cl00210
    Location:69 → 320
    Isoprenoid_Biosyn_C1; Isoprenoid Biosynthesis enzymes, Class 1
Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q5U2R1.1 GenPept UniProtKB/Swiss-Prot:Q5U2R1

Gene LinkOut

The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

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