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    Plod3 procollagen-lysine, 2-oxoglutarate 5-dioxygenase 3 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 288583, updated on 5-Mar-2024

    Summary

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    Official Symbol
    Plod3provided by RGD
    Official Full Name
    procollagen-lysine, 2-oxoglutarate 5-dioxygenase 3provided by RGD
    Primary source
    RGD:631339
    See related
    Ensembl:ENSRNOG00000001417 AllianceGenome:RGD:631339
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Summary
    Predicted to enable procollagen galactosyltransferase activity; procollagen glucosyltransferase activity; and procollagen-lysine 5-dioxygenase activity. Involved in cellular response to hormone stimulus. Predicted to be located in collagen-containing extracellular matrix; extracellular space; and trans-Golgi network. Predicted to be active in endoplasmic reticulum. Biomarker of hypothyroidism. Orthologous to human PLOD3 (procollagen-lysine,2-oxoglutarate 5-dioxygenase 3). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Biased expression in Lung (RPKM 119.2), Adrenal (RPKM 112.9) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Plod3 in Genome Data Viewer
    Location:
    12q12
    Exon count:
    19
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 12 NC_086030.1 (25313070..25323631, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 12 NC_051347.1 (19676384..19686945, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 12 NC_005111.4 (22716421..22726982, complement)

    Chromosome 12 - NC_086030.1Genomic Context describing neighboring genes Neighboring gene VGF nerve growth factor inducible Neighboring gene monoacylglycerol O-acyltransferase 3 Neighboring gene microRNA 702 Neighboring gene zinc finger, HIT-type containing 1 Neighboring gene claudin 15 Neighboring gene fission, mitochondrial 1

    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. Identification, expression, and tissue distribution of the three rat lysyl hydroxylase isoforms. Mercer DK, et al. Biochem Biophys Res Commun, 2003 Aug 8. PMID 12878181
    2. Identification of novel proteins synthesized in bone cells by antibody screening of a cDNA expression library. Nutt E, et al. Biochem Biophys Res Commun, 1988 Feb 29. PMID 3162363
    3. The glycosyltransferase activities of lysyl hydroxylase 3 (LH3) in the extracellular space are important for cell growth and viability. Wang C, et al. J Cell Mol Med, 2009 Mar. PMID 18298658, Free PMC Article
    4. Barrier to autointegration factor 1, procollagen-lysine, 2-oxoglutarate 5-dioxygenase 3, and splicing factor 3b subunit 4 as early-stage cancer decision markers and drivers of hepatocellular carcinoma. Shen Q, et al. Hepatology, 2018 Apr. PMID 29059470
    5. Lysyl hydroxylase 3 (LH3) modifies proteins in the extracellular space, a novel mechanism for matrix remodeling. Salo AM, et al. J Cell Physiol, 2006 Jun. PMID 16447251

    See all (16) citations in PubMed

    GeneRIFs: Gene References Into Functions

    Pathways from PubChem

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    General gene information

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    Homology

    Clone Names

    • MGC93055

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables L-ascorbic acid binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables iron ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables iron ion binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables metal ion binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables procollagen galactosyltransferase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables procollagen galactosyltransferase activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables procollagen galactosyltransferase activity ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    enables procollagen glucosyltransferase activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables procollagen glucosyltransferase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables procollagen glucosyltransferase activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables procollagen glucosyltransferase activity ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    enables procollagen-lysine 5-dioxygenase activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables procollagen-lysine 5-dioxygenase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables procollagen-lysine 5-dioxygenase activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables procollagen-lysine 5-dioxygenase activity ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    enables small molecule binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    Process Evidence Code Pubs
    involved_in basement membrane assembly IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within basement membrane assembly ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in cellular response to hormone stimulus IEP
    Inferred from Expression Pattern
    more info
    		 PubMed 
    involved_in collagen fibril organization IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within collagen fibril organization ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in collagen metabolic process IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within collagen metabolic process ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in endothelial cell morphogenesis IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within endothelial cell morphogenesis ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in epidermis morphogenesis IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within epidermis morphogenesis ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in hydroxylysine biosynthetic process IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in hydroxylysine biosynthetic process ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in in utero embryonic development IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within in utero embryonic development ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in lung morphogenesis IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within lung morphogenesis ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in neural tube development IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within neural tube development ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in peptidyl-lysine hydroxylation IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in protein O-linked glycosylation IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in protein O-linked glycosylation ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in protein localization IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within protein localization ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in vasodilation IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within vasodilation ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    located_in Golgi apparatus ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in collagen-containing extracellular matrix IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in collagen-containing extracellular matrix ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in endoplasmic reticulum IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in endoplasmic reticulum ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in endoplasmic reticulum ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    located_in endoplasmic reticulum lumen IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in endoplasmic reticulum membrane IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in extracellular space IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in extracellular space ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in extracellular space ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    located_in rough endoplasmic reticulum IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in trans-Golgi network IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in trans-Golgi network ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    multifunctional procollagen lysine hydroxylase and glycosyltransferase LH3
    Names
    LH3
    bone protein I (BP-I)
    lysyl hydroxylase 3
    NP_835202.2
    XP_063127219.1

    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_178101.3 → NP_835202.2  multifunctional procollagen lysine hydroxylase and glycosyltransferase LH3 precursor

      See identical proteins and their annotated locations for NP_835202.2

      Status: VALIDATED

      Source sequence(s)
      BC085683, CO386873
      UniProtKB/Swiss-Prot
      Q5U367, Q811A5
      UniProtKB/TrEMBL
      A0A8I6A8W8, A6J056
      Related
      ENSRNOP00000001921.3, ENSRNOT00000001921.5
      Conserved Domains (1) summary
      smart00702
      Location:576 → 739
      P4Hc; Prolyl 4-hydroxylase alpha subunit homologues

    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_086030.1 Reference GRCr8

      Range
      25313070..25323631 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_063271149.1 → XP_063127219.1  multifunctional procollagen lysine hydroxylase and glycosyltransferase LH3 isoform X1

    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q5U367.1 GenPept UniProtKB/Swiss-Prot:Q5U367

    Gene LinkOut

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