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Pex2 peroxisomal biogenesis factor 2 [ Rattus norvegicus (Norway rat) ]

Gene ID: 29534, updated on 17-Aug-2024

Summary

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Official Symbol
Pex2provided by RGD
Official Full Name
peroxisomal biogenesis factor 2provided by RGD
Primary source
RGD:61814
See related
EnsemblRapid:ENSRNOG00000008748 AllianceGenome:RGD:61814
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
Also known as
Pxmp3
Summary
Predicted to enable metal ion binding activity. Predicted to be involved in several processes, including fatty acid metabolic process; negative regulation of cell population proliferation; and protein destabilization. Predicted to act upstream of or within several processes, including bile acid biosynthetic process; cholesterol homeostasis; and regulation of cholesterol biosynthetic process. Located in peroxisomal membrane. Human ortholog(s) of this gene implicated in peroxisomal biogenesis disorder and peroxisome biogenesis disorder 5A. Orthologous to human PEX2 (peroxisomal biogenesis factor 2). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Biased expression in Adrenal (RPKM 124.2), Muscle (RPKM 95.5) and 9 other tissues See more
Orthologs
human mouse all
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Genomic context

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Location:
2q23
Exon count:
4
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCr8 (GCF_036323735.1) 2 NC_086020.1 (97957479..97973767)
RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 2 NC_051337.1 (96050380..96072928)
106 previous assembly Rnor_6.0 (GCF_000001895.5) 2 NC_005101.4 (98251756..98269185)

Chromosome 2 - NC_086020.1Genomic Context describing neighboring genes Neighboring gene serine/arginine repetitive matrix protein 1 pseudogene Neighboring gene phosphoglycerate kinase 1, pseudogene 3 Neighboring gene zinc finger homeobox 4 Neighboring gene inosine monophosphate dehydrogenase 1, pseudogene 1 Neighboring gene uncharacterized LOC134485886

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 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. Transmembrane topology of the peroxin, Pex2p, an essential component for the peroxisome assembly. Harano T, et al. J Biochem, 1999 Jun. PMID 10348921
  2. Cysteine ubiquitination of PTS1 receptor Pex5p regulates Pex5p recycling. Okumoto K, et al. Traffic, 2011 Aug. PMID 21554508
  3. Defective PEX gene products correlate with the protein import, biochemical abnormalities, and phenotypic heterogeneity in peroxisome biogenesis disorders. Shimozawa N, et al. J Med Genet, 1999 Oct. PMID 10528859, Free PMC Article
  4. Targeted deletion of the PEX2 peroxisome assembly gene in mice provides a model for Zellweger syndrome, a human neuronal migration disorder. Faust PL, et al. J Cell Biol, 1997 Dec 1. PMID 9382874, Free PMC Article
  5. Peroxisome assembly factor 1: nonsense mutation in a peroxisome-deficient Chinese hamster ovary cell mutant and deletion analysis. Tsukamoto T, et al. Mol Cell Biol, 1994 Aug. PMID 8035823, Free PMC Article

See all (22) citations in PubMed

GeneRIFs: Gene References Into Functions

General gene information

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Markers

Homology

Gene Ontology Provided by RGD

Function Evidence Code Pubs
enables ubiquitin protein ligase activity IEA
Inferred from Electronic Annotation
more info
  
enables ubiquitin protein ligase activity ISO
Inferred from Sequence Orthology
more info
  
enables ubiquitin protein ligase activity ISS
Inferred from Sequence or Structural Similarity
more info
  
enables zinc ion binding IEA
Inferred from Electronic Annotation
more info
  
Process Evidence Code Pubs
acts_upstream_of_or_within bile acid biosynthetic process ISO
Inferred from Sequence Orthology
more info
  
involved_in biological_process ND
No biological Data available
more info
  
involved_in cellular response to reactive oxygen species IEA
Inferred from Electronic Annotation
more info
  
involved_in cellular response to reactive oxygen species ISO
Inferred from Sequence Orthology
more info
  
acts_upstream_of_or_within cholesterol homeostasis ISO
Inferred from Sequence Orthology
more info
  
involved_in fatty acid beta-oxidation IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in fatty acid beta-oxidation IEA
Inferred from Electronic Annotation
more info
  
involved_in fatty acid beta-oxidation ISO
Inferred from Sequence Orthology
more info
  
involved_in negative regulation of epithelial cell proliferation IEA
Inferred from Electronic Annotation
more info
  
involved_in negative regulation of epithelial cell proliferation ISO
Inferred from Sequence Orthology
more info
  
involved_in negative regulation of fibroblast proliferation IEA
Inferred from Electronic Annotation
more info
  
involved_in negative regulation of fibroblast proliferation ISO
Inferred from Sequence Orthology
more info
  
acts_upstream_of_or_within nervous system development ISO
Inferred from Sequence Orthology
more info
  
acts_upstream_of_or_within neuron migration ISO
Inferred from Sequence Orthology
more info
  
involved_in peroxisome organization IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in peroxisome organization ISO
Inferred from Sequence Orthology
more info
  
involved_in pexophagy IEA
Inferred from Electronic Annotation
more info
  
involved_in pexophagy ISO
Inferred from Sequence Orthology
more info
  
involved_in pexophagy ISS
Inferred from Sequence or Structural Similarity
more info
  
involved_in protein destabilization IEA
Inferred from Electronic Annotation
more info
  
involved_in protein destabilization ISO
Inferred from Sequence Orthology
more info
  
involved_in protein import into peroxisome matrix ISO
Inferred from Sequence Orthology
more info
  
involved_in protein import into peroxisome matrix, receptor recycling IEA
Inferred from Electronic Annotation
more info
  
involved_in protein import into peroxisome matrix, receptor recycling ISO
Inferred from Sequence Orthology
more info
  
involved_in protein import into peroxisome matrix, receptor recycling ISS
Inferred from Sequence or Structural Similarity
more info
  
involved_in protein monoubiquitination IEA
Inferred from Electronic Annotation
more info
  
involved_in protein monoubiquitination ISO
Inferred from Sequence Orthology
more info
  
acts_upstream_of_or_within regulation of cholesterol biosynthetic process ISO
Inferred from Sequence Orthology
more info
  
involved_in response to amino acid starvation IEA
Inferred from Electronic Annotation
more info
  
involved_in response to amino acid starvation ISO
Inferred from Sequence Orthology
more info
  
involved_in response to amino acid starvation ISS
Inferred from Sequence or Structural Similarity
more info
  
involved_in very long-chain fatty acid metabolic process IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in very long-chain fatty acid metabolic process IEA
Inferred from Electronic Annotation
more info
  
involved_in very long-chain fatty acid metabolic process ISO
Inferred from Sequence Orthology
more info
  
Component Evidence Code Pubs
part_of Cdc73/Paf1 complex IBA
Inferred from Biological aspect of Ancestor
more info
  
part_of Cdc73/Paf1 complex IEA
Inferred from Electronic Annotation
more info
  
part_of Cdc73/Paf1 complex ISO
Inferred from Sequence Orthology
more info
  
is_active_in peroxisomal membrane IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in peroxisomal membrane IDA
Inferred from Direct Assay
more info
 PubMed 
located_in peroxisomal membrane IEA
Inferred from Electronic Annotation
more info
  
is_active_in peroxisomal membrane ISO
Inferred from Sequence Orthology
more info
  
located_in peroxisomal membrane ISO
Inferred from Sequence Orthology
more info
  
located_in peroxisome IDA
Inferred from Direct Assay
more info
 PubMed 

General protein information

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Preferred Names
peroxisome biogenesis factor 2
Names
PAF-1
peroxin-2
peroxisomal membrane protein 3, 35 kDa
peroxisome assembly factor 1
NP_001375433.1
NP_001375434.1
NP_001375435.1
NP_058930.2
XP_006232221.1
XP_008759087.1
XP_063137709.1

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_001388504.1 → NP_001375433.1  peroxisome biogenesis factor 2 isoform 1

    Status: VALIDATED

    Source sequence(s)
    FM104606, JAXUCZ010000002
    UniProtKB/Swiss-Prot
    P24392, Q63733
    UniProtKB/TrEMBL
    A0A8L2Q557, A6IH90
    Conserved Domains (2) summary
    cd16526
    Location:243 → 284
    RING-HC_PEX2; RING finger, HC subclass, found in peroxin-2 (PEX2) and similar proteins
    pfam04757
    Location:27 → 224
    Pex2_Pex12; Pex2 / Pex12 amino terminal region

  2. NM_001388505.1 → NP_001375434.1  peroxisome biogenesis factor 2 isoform 1

    Status: VALIDATED

    Source sequence(s)
    JAXUCZ010000002
    UniProtKB/Swiss-Prot
    P24392, Q63733
    UniProtKB/TrEMBL
    A0A8L2Q557, A6IH90
    Related
    ENSRNOP00000076831.1, ENSRNOT00000095560.2
    Conserved Domains (2) summary
    cd16526
    Location:243 → 284
    RING-HC_PEX2; RING finger, HC subclass, found in peroxin-2 (PEX2) and similar proteins
    pfam04757
    Location:27 → 224
    Pex2_Pex12; Pex2 / Pex12 amino terminal region

  3. NM_001388506.1 → NP_001375435.1  peroxisome biogenesis factor 2 isoform 2

    Status: VALIDATED

    Source sequence(s)
    JAXUCZ010000002
    UniProtKB/TrEMBL
    A0A8L2Q557
    Conserved Domains (2) summary
    cd16526
    Location:280 → 321
    RING-HC_PEX2; RING finger, HC subclass, found in peroxin-2 (PEX2) and similar proteins
    pfam04757
    Location:64 → 261
    Pex2_Pex12; Pex2 / Pex12 amino terminal region

  4. NM_017234.2 → NP_058930.2  peroxisome biogenesis factor 2 isoform 1

    Status: VALIDATED

    Source sequence(s)
    FM078955, FM104606, JAXUCZ010000002
    UniProtKB/Swiss-Prot
    P24392, Q63733
    UniProtKB/TrEMBL
    A0A8L2Q557, A6IH90
    Related
    ENSRNOP00000108095.1, ENSRNOT00000151330.1
    Conserved Domains (2) summary
    cd16526
    Location:243 → 284
    RING-HC_PEX2; RING finger, HC subclass, found in peroxin-2 (PEX2) and similar proteins
    pfam04757
    Location:27 → 224
    Pex2_Pex12; Pex2 / Pex12 amino terminal region

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_086020.1 Reference GRCr8

    Range
    97957479..97973767
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006232159.4 → XP_006232221.1  peroxisome biogenesis factor 2 isoform X1

    See identical proteins and their annotated locations for XP_006232221.1

    UniProtKB/TrEMBL
    A0A8L2Q557
    Conserved Domains (2) summary
    cd16526
    Location:280 → 321
    RING-HC_PEX2; RING finger, HC subclass, found in peroxin-2 (PEX2) and similar proteins
    pfam04757
    Location:64 → 261
    Pex2_Pex12; Pex2 / Pex12 amino terminal region

  2. XM_008760865.4 → XP_008759087.1  peroxisome biogenesis factor 2 isoform X1

    See identical proteins and their annotated locations for XP_008759087.1

    UniProtKB/TrEMBL
    A0A8L2Q557
    Conserved Domains (2) summary
    cd16526
    Location:280 → 321
    RING-HC_PEX2; RING finger, HC subclass, found in peroxin-2 (PEX2) and similar proteins
    pfam04757
    Location:64 → 261
    Pex2_Pex12; Pex2 / Pex12 amino terminal region

  3. XM_063281639.1 → XP_063137709.1  peroxisome biogenesis factor 2 isoform X2

    UniProtKB/Swiss-Prot
    P24392, Q63733
    UniProtKB/TrEMBL
    A0A8L2Q557, A6IH90
Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
P24392.1 GenPept UniProtKB/Swiss-Prot:P24392

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