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Pdss1 prenyl (solanesyl) diphosphate synthase, subunit 1 [ Mus musculus (house mouse) ]

Gene ID: 56075, updated on 28-Oct-2024

Summary

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Official Symbol
Pdss1provided by MGI
Official Full Name
prenyl (solanesyl) diphosphate synthase, subunit 1provided by MGI
Primary source
MGI:MGI:1889278
See related
Ensembl:ENSMUSG00000026784 AllianceGenome:MGI:1889278
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Mus musculus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Also known as
TPT; Tprt; TPT 1; mDLP1; mSPS1; 2610203G20Rik; 2700031G06Rik
Summary
Enables protein heterodimerization activity. Contributes to all-trans-nonaprenyl-diphosphate synthase (geranyl-diphosphate specific) activity. Involved in isoprenoid biosynthetic process and ubiquinone biosynthetic process. Located in mitochondrion. Part of heterotetrameric polyprenyl diphosphate synthase complex. Is expressed in heart and heart right ventricle. Human ortholog(s) of this gene implicated in primary coenzyme Q10 deficiency 2. Orthologous to human PDSS1 (decaprenyl diphosphate synthase subunit 1). [provided by Alliance of Genome Resources, Oct 2024]
Expression
Ubiquitous expression in CNS E18 (RPKM 4.2), CNS E14 (RPKM 4.1) and 28 other tissues See more
Orthologs
human all
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Genomic context

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See Pdss1 in Genome Data Viewer
Location:
2 A3; 2 15.17 cM
Exon count:
12
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 2 NC_000068.8 (22784393..22830273)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 2 NC_000068.7 (22894382..22940266)

Chromosome 2 - NC_000068.8Genomic Context describing neighboring genes Neighboring gene STARR-seq mESC enhancer starr_03915 Neighboring gene NADH:ubiquinone oxidoreductase complex assembly factor 3 pseudogene Neighboring gene amyloid beta precursor protein binding family B member 1 interacting protein Neighboring gene STARR-positive B cell enhancer ABC_E4417 Neighboring gene STARR-seq mESC enhancer starr_03917 Neighboring gene CapStarr-seq enhancer MGSCv37_chr2:22661206-22661359 Neighboring gene STARR-positive B cell enhancer ABC_E7796 Neighboring gene STARR-seq mESC enhancer starr_03918 Neighboring gene STARR-seq mESC enhancer starr_03919 Neighboring gene STARR-seq mESC enhancer starr_03920 Neighboring gene STARR-seq mESC enhancer starr_03922 Neighboring gene predicted gene, 52503 Neighboring gene ribosomal protein L17 pseudogene Neighboring gene abl interactor 1 Neighboring gene STARR-seq mESC enhancer starr_03923 Neighboring gene STARR-positive B cell enhancer mm9_chr2:22895642-22895943 Neighboring gene STARR-positive B cell enhancer mm9_chr2:22896813-22897114 Neighboring gene predicted gene, 52502 Neighboring gene STARR-seq mESC enhancer starr_03925 Neighboring gene STARR-positive B cell enhancer ABC_E2030 Neighboring gene STARR-positive B cell enhancer ABC_E3360 Neighboring gene acyl-Coenzyme A binding domain containing 5

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: Mouse ENCODE transcriptome data Mouse ENCODE transcriptome data
  • Description: RNA profiling data sets generated by the Mouse ENCODE project.
  • BioProject: PRJNA66167
  • Publication: PMID 25409824
  • Analysis date: n/a

Bibliography

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Related articles in PubMed

  1. Quinone-responsive multiple respiratory-chain dysfunction due to widespread coenzyme Q10 deficiency. Rötig A, et al. Lancet, 2000 Jul 29. PMID 10972372
  2. Characterization of solanesyl and decaprenyl diphosphate synthases in mice and humans. Saiki R, et al. FEBS J, 2005 Nov. PMID 16262699
  3. The SRCAP chromatin remodeling complex promotes oxidative metabolism during prenatal heart development. Xu M, et al. Development, 2021 Apr 15. PMID 33913477
  4. Functional genomic landscape of cancer-intrinsic evasion of killing by T cells. Lawson KA, et al. Nature, 2020 Oct. PMID 32968282, Free PMC Article
  5. A mitochondrial protein compendium elucidates complex I disease biology. Pagliarini DJ, et al. Cell, 2008 Jul 11. PMID 18614015, Free PMC Article

See all (20) citations in PubMed

GeneRIFs: Gene References Into Functions

Variation

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Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)
  • Endonuclease-mediated (2) 
  • Gene trapped (1) 

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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Markers

Homology

Gene Ontology Provided by MGI

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 IDA
Inferred from Direct Assay
more info
 PubMed 
enables metal ion binding IEA
Inferred from Electronic Annotation
more info
  
enables prenyltransferase activity IBA
Inferred from Biological aspect of Ancestor
more info
  
enables protein binding IPI
Inferred from Physical Interaction
more info
 PubMed 
enables protein heterodimerization activity IDA
Inferred from Direct Assay
more info
 PubMed 
Process Evidence Code Pubs
involved_in isoprenoid biosynthetic process IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in isoprenoid biosynthetic process IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in isoprenoid biosynthetic process 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 IDA
Inferred from Direct Assay
more info
 PubMed 
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
part_of heterotetrameric polyprenyl diphosphate synthase complex IDA
Inferred from Direct Assay
more info
 PubMed 
part_of heterotetrameric polyprenyl diphosphate synthase complex ISO
Inferred from Sequence Orthology
more info
  
located_in mitochondrion HDA PubMed 
is_active_in mitochondrion IBA
Inferred from Biological aspect of Ancestor
more info
  
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 PDSS1
Names
all-trans-decaprenyl-diphosphate synthase subunit 1
decaprenyl pyrophosphate synthase subunit 1
decaprenyl pyrophosphate synthetase subunit 1
decaprenyl-diphosphate synthase subunit 1
solanesyl-diphosphate synthase subunit 1
subunit 1 of solanesyl diphosphate synthase
trans-prenyltransferase 1
NP_001342396.1
NP_062374.2
XP_006498251.1
XP_006498252.1
XP_006498254.1
XP_017174623.1

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_001355467.2 → NP_001342396.1  all trans-polyprenyl-diphosphate synthase PDSS1 isoform 2

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) differs in the 3' UTR and coding sequence compared to variant 1. The resulting isoform (2) has a shorter and distinct C-terminus compared to isoform 1.
    Source sequence(s)
    CT030013
    Consensus CDS
    CCDS89432.1
    UniProtKB/TrEMBL
    Q9CZQ1
    Related
    ENSMUSP00000121873.2, ENSMUST00000152170.8
    Conserved Domains (1) summary
    cd00685
    Location:110 → 271
    Trans_IPPS_HT; Trans-Isoprenyl Diphosphate Synthases, head-to-tail

  2. NM_019501.4 → NP_062374.2  all trans-polyprenyl-diphosphate synthase PDSS1 isoform 1

    See identical proteins and their annotated locations for NP_062374.2

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) encodes the longer isoform (1).
    Source sequence(s)
    CT030013
    Consensus CDS
    CCDS38057.1
    UniProtKB/Swiss-Prot
    B8JJW9, Q33DR2, Q9WU69
    Related
    ENSMUSP00000055689.8, ENSMUST00000053729.14
    Conserved Domains (1) summary
    cl00210
    Location:100 → 407
    Isoprenoid_Biosyn_C1; Isoprenoid Biosynthesis enzymes, Class 1

RNA

  1. NR_149721.2 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (3) uses two alternate splice junctions compared to variant 1. This variant is represented as non-coding because the use of the 5'-most expected translational start codon renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
    Source sequence(s)
    CT030013

RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

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

Reference GRCm39 C57BL/6J

Genomic

  1. NC_000068.8 Reference GRCm39 C57BL/6J

    Range
    22784393..22830273
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006498191.5 → XP_006498254.1  all trans-polyprenyl-diphosphate synthase PDSS1 isoform X4

    Conserved Domains (1) summary
    PLN02890
    Location:1 → 258
    PLN02890; geranyl diphosphate synthase

  2. XM_006498188.5 → XP_006498251.1  all trans-polyprenyl-diphosphate synthase PDSS1 isoform X2

    Conserved Domains (1) summary
    PLN02890
    Location:57 → 371
    PLN02890; geranyl diphosphate synthase

  3. XM_006498189.5 → XP_006498252.1  all trans-polyprenyl-diphosphate synthase PDSS1 isoform X3

    Conserved Domains (1) summary
    PLN02890
    Location:16 → 368
    PLN02890; geranyl diphosphate synthase

  4. XM_017319134.3 → XP_017174623.1  all trans-polyprenyl-diphosphate synthase PDSS1 isoform X1

    Conserved Domains (1) summary
    PLN02890
    Location:21 → 373
    PLN02890; geranyl diphosphate synthase

RNA

  1. XR_374108.5 RNA Sequence

  2. XR_001783152.3 RNA Sequence

  3. XR_001783150.3 RNA Sequence

  4. XR_001783153.2 RNA Sequence

Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q33DR2.1 GenPept UniProtKB/Swiss-Prot:Q33DR2

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