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Ppp4r3b protein phosphatase 4, regulatory subunit 3B [ Rattus norvegicus (Norway rat) ]

Gene ID: 360993, updated on 2-Nov-2024

Summary

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Official Symbol
Ppp4r3bprovided by RGD
Official Full Name
protein phosphatase 4, regulatory subunit 3Bprovided by RGD
Primary source
RGD:1309450
See related
EnsemblRapid:ENSRNOG00000003712 AllianceGenome:RGD:1309450
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
Also known as
Smek2; RGD1309450
Summary
Predicted to enable protein phosphatase activator activity. Predicted to be involved in DNA damage response and regulation of double-strand break repair. Predicted to act upstream of or within positive regulation of gluconeogenesis and protein dephosphorylation. Predicted to be located in several cellular components, including centrosome; chromatin; and nuclear speck. Predicted to be part of protein phosphatase 4 complex. Predicted to be active in nucleoplasm. Orthologous to human PPP4R3B (protein phosphatase 4 regulatory subunit 3B). [provided by Alliance of Genome Resources, Nov 2024]
Expression
Biased expression in Thymus (RPKM 307.7), Spleen (RPKM 283.9) and 9 other tissues See more
Orthologs
human mouse all
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Genomic context

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See Ppp4r3b in Genome Data Viewer
Location:
14q22
Exon count:
17
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCr8 (GCF_036323735.1) 14 NC_086032.1 (107118116..107166121)
RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 14 NC_051349.1 (102917043..102965210)
106 previous assembly Rnor_6.0 (GCF_000001895.5) 14 NC_005113.4 (113570150..113618138)

Chromosome 14 - NC_086032.1Genomic Context describing neighboring genes Neighboring gene small nucleolar RNA SNORA17 Neighboring gene polyribonucleotide nucleotidyltransferase 1 Neighboring gene uncharacterized LOC134481880 Neighboring gene cilia and flagella associated protein 36 Neighboring gene fibrillarin, pseudogene 2

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. Mutation in Smek2 regulating hepatic glucose metabolism causes hypersarcosinemia and hyperhomocysteinemia in rats. Tanaka Y, et al. Sci Rep, 2023 Feb 21. PMID 36810603, Free PMC Article
  2. Identification of SMEK2 as a candidate gene for regulation of responsiveness to dietary cholesterol in rats. Asahina M, et al. J Lipid Res, 2009 Jan. PMID 18753676
  3. Suppressor of MEK null (SMEK)/protein phosphatase 4 catalytic subunit (PP4C) is a key regulator of hepatic gluconeogenesis. Yoon YS, et al. Proc Natl Acad Sci U S A, 2010 Oct 12. PMID 20876121, Free PMC Article
  4. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. Mutation in Smek2 regulating hepatic glucose metabolism causes hypersarcosinemia and hyperhomocysteinemia in rats.
    Title: Mutation in Smek2 regulating hepatic glucose metabolism causes hypersarcosinemia and hyperhomocysteinemia in rats.
  2. SMEK2 is a candidate gene for regulation of responsiveness to dietary cholesterol in rats
    Title: Identification of SMEK2 as a candidate gene for regulation of responsiveness to dietary cholesterol in rats.
Submit: New GeneRIF Correction

General gene information

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Markers

Homology

Gene Ontology Provided by RGD

Function Evidence Code Pubs
enables protein phosphatase activator activity IBA
Inferred from Biological aspect of Ancestor
more info
  
Process Evidence Code Pubs
involved_in DNA damage response IBA
Inferred from Biological aspect of Ancestor
more info
  
acts_upstream_of gluconeogenesis ISO
Inferred from Sequence Orthology
more info
  
acts_upstream_of_or_within positive regulation of gluconeogenesis ISO
Inferred from Sequence Orthology
more info
  
acts_upstream_of_or_within protein dephosphorylation ISO
Inferred from Sequence Orthology
more info
  
involved_in regulation of double-strand break repair IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in regulation of double-strand break repair ISO
Inferred from Sequence Orthology
more info
  
Component Evidence Code Pubs
located_in centrosome IEA
Inferred from Electronic Annotation
more info
  
located_in centrosome ISO
Inferred from Sequence Orthology
more info
  
located_in chromatin ISO
Inferred from Sequence Orthology
more info
  
located_in cytoplasm ISO
Inferred from Sequence Orthology
more info
  
located_in nuclear speck IEA
Inferred from Electronic Annotation
more info
  
located_in nuclear speck ISO
Inferred from Sequence Orthology
more info
  
is_active_in nucleoplasm IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in nucleoplasm ISO
Inferred from Sequence Orthology
more info
  
located_in nucleus ISO
Inferred from Sequence Orthology
more info
  
part_of protein phosphatase 4 complex IBA
Inferred from Biological aspect of Ancestor
more info
  
part_of protein phosphatase 4 complex ISO
Inferred from Sequence Orthology
more info
  

General protein information

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Preferred Names
serine/threonine-protein phosphatase 4 regulatory subunit 3B
Names
SMEK homolog 2, suppressor of mek1

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_001108367.1 → NP_001101837.1  serine/threonine-protein phosphatase 4 regulatory subunit 3B

    See identical proteins and their annotated locations for NP_001101837.1

    Status: PROVISIONAL

    Source sequence(s)
    CH473996
    UniProtKB/TrEMBL
    A6JQA6, A6JQA8, D3ZCR4
    Related
    ENSRNOP00000098685.1, ENSRNOT00000166473.1
    Conserved Domains (2) summary
    pfam04802
    Location:168 → 359
    SMK-1; Component of IIS longevity pathway SMK-1
    cl17171
    Location:7 → 65
    PH-like; Pleckstrin homology-like domain

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_086032.1 Reference GRCr8

    Range
    107118116..107166121
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

RNA

  1. XR_005492993.2 RNA Sequence

Nucleotide Protein Strain
Heading Accession and Version

Gene LinkOut

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