Human Gene PPP2R3B (uc004cpg.3)
  Description: Homo sapiens protein phosphatase 2, regulatory subunit B'', beta (PPP2R3B), mRNA.
RefSeq Summary (NM_013239): Protein phosphatase 2 (formerly named type 2A) is one of the four major Ser/Thr phosphatases and is implicated in the negative control of cell growth and division. Protein phosphatase 2 holoenzymes are heterotrimeric proteins composed of a structural subunit A, a catalytic subunit C, and a regulatory subunit B. The regulatory subunit is encoded by a diverse set of genes that have been grouped into the B/PR55, B'/PR61, and B''/PR72 families. These different regulatory subunits confer distinct enzymatic specificities and intracellular localizations to the holozenzyme. The product of this gene belongs to the B'' family. The B'' family has been further divided into subfamilies. The product of this gene belongs to the beta subfamily of regulatory subunit B''. [provided by RefSeq, Apr 2010]. Sequence Note: This RefSeq record was created from transcript and genomic sequence data to make the sequence consistent with the reference genome assembly. The genomic coordinates used for the transcript record were based on transcript alignments.
Transcript (Including UTRs)
   Position: hg19 chrX:294,668-347,690 Size: 53,023 Total Exon Count: 13 Strand: -
Coding Region
   Position: hg19 chrX:295,102-347,426 Size: 52,325 Coding Exon Count: 13 

Page IndexSequence and LinksUniProtKB CommentsPrimersCTDGene Alleles
RNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther SpeciesGO Annotations
mRNA DescriptionsPathwaysOther NamesModel InformationMethods
Data last updated at UCSC: 2013-06-14

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chrX:294,668-347,690)mRNA (may differ from genome)Protein (575 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblEntrez GeneExonPrimerGeneCards
GeneNetworkH-INVHGNCHPRDLynxMGI
neXtProtOMIMPubMedReactomeTreefamUniProtKB
WikipediaBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: P2R3B_HUMAN
DESCRIPTION: RecName: Full=Serine/threonine-protein phosphatase 2A regulatory subunit B'' subunit beta; AltName: Full=PP2A subunit B isoform PR48; AltName: Full=Protein phosphatase 2A 48 kDa regulatory subunit;
FUNCTION: The B regulatory subunit might modulate substrate selectivity and catalytic activity, and also might direct the localization of the catalytic enzyme to a particular subcellular compartment.
SUBUNIT: PP2A consists of a common heterodimeric core enzyme, composed of a 36 kDa catalytic subunit (subunit C) and a 65 kDa constant regulatory subunit (PR65 or subunit A), that associates with a variety of regulatory subunits. Proteins that associate with the core dimer include three families of regulatory subunits B (the R2/B/PR55/B55, R3/B''/PR72/PR130/PR59 and R5/B'/B56 families), the 48 kDa variable regulatory subunit, viral proteins, and cell signaling molecules. Interacts with N-terminal region of CDC6.
SUBCELLULAR LOCATION: Nucleus.
MISCELLANEOUS: The gene encoding for this protein is located in the pseudoautosomal region 1 (PAR1) of X and Y chromosomes.
SIMILARITY: Contains 1 EF-hand domain.
SEQUENCE CAUTION: Sequence=AAD38515.1; Type=Erroneous initiation;

-  Primer design for this transcript
 

Primer3Plus can design qPCR Primers that straddle exon-exon-junctions, which amplify only cDNA, not genomic DNA.
Click here to load the transcript sequence and exon structure into Primer3Plus

Exonprimer can design one pair of Sanger sequencing primers around every exon, located in non-genic sequence.
Click here to open Exonprimer with this transcript

To design primers for a non-coding sequence, zoom to a region of interest and select from the drop-down menu: View > In External Tools > Primer3


-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene

+  Common Gene Haplotype Alleles
  Press "+" in the title bar above to open this section.

-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 29.44 RPKM in Heart - Left Ventricle
Total median expression: 380.81 RPKM



View in GTEx track of Genome Browser    View at GTEx portal     View GTEx Body Map

+  Microarray Expression Data
  Press "+" in the title bar above to open this section.

-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -162.10264-0.614 Picture PostScript Text
3' UTR -179.30434-0.413 Picture PostScript Text

The RNAfold program from the Vienna RNA Package is used to perform the secondary structure predictions and folding calculations. The estimated folding energy is in kcal/mol. The more negative the energy, the more secondary structure the RNA is likely to have.

-  Protein Domain and Structure Information
  InterPro Domains: Graphical view of domain structure
IPR011992 - EF-hand-like_dom
IPR018247 - EF_Hand_1_Ca_BS
IPR018249 - EF_HAND_2

Pfam Domains:
PF13202 - EF hand
PF13499 - EF-hand domain pair

SCOP Domains:
47473 - EF-hand

ModBase Predicted Comparative 3D Structure on Q9Y5P8
FrontTopSide
The pictures above may be empty if there is no ModBase structure for the protein. The ModBase structure frequently covers just a fragment of the protein. You may be asked to log onto ModBase the first time you click on the pictures. It is simplest after logging in to just click on the picture again to get to the specific info on that model.

-  Orthologous Genes in Other Species
  Orthologies between human, mouse, and rat are computed by taking the best BLASTP hit, and filtering out non-syntenic hits. For more distant species reciprocal-best BLASTP hits are used. Note that the absence of an ortholog in the table below may reflect incomplete annotations in the other species rather than a true absence of the orthologous gene.
MouseRatZebrafishD. melanogasterC. elegansS. cerevisiae
No orthologGenome BrowserNo orthologNo orthologNo orthologNo ortholog
Gene DetailsGene Details    
Gene SorterGene Sorter    
 RGD    
 Protein Sequence    
 Alignment    

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0004721 phosphoprotein phosphatase activity
GO:0004722 protein serine/threonine phosphatase activity
GO:0005509 calcium ion binding
GO:0005515 protein binding
GO:0019888 protein phosphatase regulator activity
GO:0046872 metal ion binding

Biological Process:
GO:0006470 protein dephosphorylation
GO:0007050 cell cycle arrest
GO:0043666 regulation of phosphoprotein phosphatase activity

Cellular Component:
GO:0000159 protein phosphatase type 2A complex
GO:0005634 nucleus
GO:0005654 nucleoplasm


-  Descriptions from all associated GenBank mRNAs
  AL157501 - Homo sapiens mRNA; cDNA DKFZp434G155 (from clone DKFZp434G155); partial cds.
AF155098 - Homo sapiens NY-REN-8 antigen mRNA, partial cds.
AB209137 - Homo sapiens mRNA for NY-REN-8 antigen variant protein.
BC009032 - Homo sapiens protein phosphatase 2 (formerly 2A), regulatory subunit B'', beta, mRNA (cDNA clone IMAGE:4214447), complete cds.
BC011180 - Homo sapiens protein phosphatase 2 (formerly 2A), regulatory subunit B'', beta, mRNA (cDNA clone IMAGE:4150858), partial cds.
BC063429 - Homo sapiens protein phosphatase 2 (formerly 2A), regulatory subunit B'', beta, mRNA (cDNA clone MGC:75042 IMAGE:5239974), complete cds.
AF135016 - Homo sapiens protein phosphatase 2A 48 kDa regulatory subunit mRNA, complete cds.
JD415787 - Sequence 396811 from Patent EP1572962.
KJ902475 - Synthetic construct Homo sapiens clone ccsbBroadEn_11869 PPP2R3B gene, encodes complete protein.
HQ447089 - Synthetic construct Homo sapiens clone IMAGE:100070372; CCSB008591_02 protein phosphatase 2 (formerly 2A), regulatory subunit B'', beta (PPP2R3B) gene, encodes complete protein.
KJ902474 - Synthetic construct Homo sapiens clone ccsbBroadEn_11868 PPP2R3B gene, encodes complete protein.
AB590904 - Synthetic construct DNA, clone: pFN21AE1996, Homo sapiens PPP2R3B gene for protein phosphatase 2 (formerly 2A), regulatory subunit B'', beta, without stop codon, in Flexi system.
CU679892 - Synthetic construct Homo sapiens gateway clone IMAGE:100016813 5' read PPP2R3B mRNA.
DQ600381 - Homo sapiens piRNA piR-38447, complete sequence.
AK293506 - Homo sapiens cDNA FLJ60425 complete cds, highly similar to Serine/threonine-protein phosphatase 2A 48 kDa regulatory subunit B.
JD115642 - Sequence 96666 from Patent EP1572962.
JD395967 - Sequence 376991 from Patent EP1572962.

-  Biochemical and Signaling Pathways
  Reactome (by CSHL, EBI, and GO)

Protein Q9Y5P8 (Reactome details) participates in the following event(s):

R-HSA-113503 PP2A mediated localization of RB1 protein in chromatin
R-HSA-8856945 PP2A methylation by LCMT1
R-HSA-8856951 PP2A demethylation by PPME1
R-HSA-1363274 Dephosphorylation of p107 (RBL1) by PP2A
R-HSA-1363276 Dephosphorylation of p130 (RBL2) by PP2A
R-HSA-113501 Inhibition of replication initiation of damaged DNA by RB1/E2F1
R-HSA-69273 Cyclin A/B1/B2 associated events during G2/M transition
R-HSA-113510 E2F mediated regulation of DNA replication
R-HSA-69275 G2/M Transition
R-HSA-69231 Cyclin D associated events in G1
R-HSA-69206 G1/S Transition
R-HSA-453274 Mitotic G2-G2/M phases
R-HSA-69236 G1 Phase
R-HSA-453279 Mitotic G1-G1/S phases
R-HSA-69278 Cell Cycle (Mitotic)
R-HSA-1640170 Cell Cycle

-  Other Names for This Gene
  Alternate Gene Symbols: NM_013239, NP_037371, P2R3B_HUMAN, PPP2R3L, Q6P4G9, Q7RTT1, Q96H01, Q9Y5P8
UCSC ID: uc004cpg.3
RefSeq Accession: NM_013239
Protein: Q9Y5P8 (aka P2R3B_HUMAN)
CCDS: CCDS14104.1

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: NM_013239.4
exon count: 13CDS single in 3' UTR: no RNA size: 2443
ORF size: 1728CDS single in intron: no Alignment % ID: 100.00
txCdsPredict score: 2984.00frame shift in genome: no % Coverage: 99.30
has start codon: yes stop codon in genome: no # of Alignments: 2
has end codon: yes retained intron: no # AT/AC introns 0
selenocysteine: no end bleed into intron: 0# strange splices: 0
Click here for a detailed description of the fields of the table above.

-  Methods, Credits, and Use Restrictions
  Click here for details on how this gene model was made and data restrictions if any.