Human Gene PIK3C2B (ENST00000367187.7) from GENCODE V44
  Description: Homo sapiens phosphatidylinositol-4-phosphate 3-kinase catalytic subunit type 2 beta (PIK3C2B), transcript variant 2, mRNA. (from RefSeq NM_002646)
RefSeq Summary (NM_002646): The protein encoded by this gene belongs to the phosphoinositide 3-kinase (PI3K) family. PI3-kinases play roles in signaling pathways involved in cell proliferation, oncogenic transformation, cell survival, cell migration, and intracellular protein trafficking. This protein contains a lipid kinase catalytic domain as well as a C-terminal C2 domain, a characteristic of class II PI3-kinases. C2 domains act as calcium-dependent phospholipid binding motifs that mediate translocation of proteins to membranes, and may also mediate protein-protein interactions. The PI3-kinase activity of this protein is sensitive to low nanomolar levels of the inhibitor wortmanin. The C2 domain of this protein was shown to bind phospholipids but not Ca2+, which suggests that this enzyme may function in a calcium-independent manner. [provided by RefSeq, Jul 2008]. 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.
Gencode Transcript: ENST00000367187.7
Gencode Gene: ENSG00000133056.14
Transcript (Including UTRs)
   Position: hg38 chr1:204,422,628-204,490,424 Size: 67,797 Total Exon Count: 34 Strand: -
Coding Region
   Position: hg38 chr1:204,424,852-204,469,802 Size: 44,951 Coding Exon Count: 32 

Page IndexSequence and LinksUniProtKB CommentsPrimersCTDRNA-Seq Expression
Microarray ExpressionRNA StructureProtein StructureOther SpeciesGO AnnotationsmRNA Descriptions
PathwaysOther NamesMethods
Data last updated at UCSC: 2023-08-18 00:09:47

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr1:204,422,628-204,490,424)mRNA (may differ from genome)Protein (1634 aa)
Gene SorterGenome BrowserOther Species FASTAGene interactionsTable SchemaAlphaFold
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HGNCHPRDLynxMalacardsMGImyGene2
neXtProtOMIMPubMedReactomeUniProtKBWikipedia
BioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: P3C2B_HUMAN
DESCRIPTION: RecName: Full=Phosphatidylinositol 4-phosphate 3-kinase C2 domain-containing subunit beta; Short=PI3K-C2-beta; Short=PtdIns-3-kinase C2 subunit beta; EC=2.7.1.154; AltName: Full=C2-PI3K; AltName: Full=Phosphoinositide 3-kinase-C2-beta;
FUNCTION: Phosphorylates PtdIns and PtdIns4P with a preference for PtdIns. Does not phosphorylate PtdIns(4,5)P2. May be involved in EGF and PDGF signaling cascades.
CATALYTIC ACTIVITY: ATP + 1-phosphatidyl-1D-myo-inositol 4- phosphate = ADP + 1-phosphatidyl-1D-myo-inositol 3,4-bisphosphate.
COFACTOR: Calcium, magnesium, or manganese.
ENZYME REGULATION: Activated by GRB2.
SUBUNIT: Part of a complex with ERBB2 and EGFR. Part of a complex with phosphorylated EGFR and GRB2. Interacts with phosphorylated EGFR and PDGFR, maybe indirectly. Interacts with GRB2 and SHC1.
INTERACTION: P00533:EGFR; NbExp=7; IntAct=EBI-641107, EBI-297353; P04626:ERBB2; NbExp=2; IntAct=EBI-641107, EBI-641062; P62993:GRB2; NbExp=2; IntAct=EBI-641107, EBI-401755; P16333:NCK1; NbExp=3; IntAct=EBI-641107, EBI-389883;
SUBCELLULAR LOCATION: Microsome. Cell membrane. Cytoplasm, cytosol. Nucleus. Endoplasmic reticulum. Note=Found mostly in the microsome, but also in the plasma membrane and cytosol. Nuclear in testis.
TISSUE SPECIFICITY: Expressed in columnar and transitional epithelia, mononuclear cells, and ganglion cells (at protein level). Widely expressed, with highest levels in thymus and placenta and lowest in peripheral blood, skeletal muscle and kidney.
SIMILARITY: Belongs to the PI3/PI4-kinase family.
SIMILARITY: Contains 1 C2 domain.
SIMILARITY: Contains 1 C2 PI3K-type domain.
SIMILARITY: Contains 1 PI3K-RBD domain.
SIMILARITY: Contains 1 PI3K/PI4K domain.
SIMILARITY: Contains 1 PIK helical domain.
SIMILARITY: Contains 1 PX (phox homology) domain.
CAUTION: It is uncertain whether Met-1 or Met-26 is the initiator.
SEQUENCE CAUTION: Sequence=CAA74194.1; Type=Erroneous initiation;

-  Primer design for this transcript
 

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Click here to load the transcript sequence and exon structure into Primer3Plus

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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
  • C569670 1-(4-((2-(2-aminopyrimidin-5-yl)-7-methyl-4-morpholinothieno(3,2-d)pyrimidin-6-yl)methyl)piperazin-1-yl)-2-hydroxypropan-1-one
  • C532162 2-(1H-indazol-4-yl)-6-(4-methanesulfonylpiperazin-1-ylmethyl)-4-morpholin-4-ylthieno(3,2-d)pyrimidine
  • C085911 2-(4-morpholinyl)-8-phenyl-4H-1-benzopyran-4-one
  • D015123 7,8-Dihydro-7,8-dihydroxybenzo(a)pyrene 9,10-oxide
  • D000082 Acetaminophen
  • D002737 Chloroprene
  • D002945 Cisplatin
  • D019327 Copper Sulfate
  • D016572 Cyclosporine
  • D003993 Dibutyl Phthalate
          more ... click here to view the complete list

-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 11.04 RPKM in Skin - Not Sun Exposed (Suprapubic)
Total median expression: 217.88 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 -162.30557-0.291 Picture PostScript Text
3' UTR -808.502224-0.364 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
IPR016024 - ARM-type_fold
IPR000008 - C2_Ca-dep
IPR008973 - C2_Ca/lipid-bd_dom_CaLB
IPR018029 - C2_membr_targeting
IPR011009 - Kinase-like_dom
IPR001683 - Phox
IPR000403 - PI3/4_kinase_cat_dom
IPR018936 - PI3/4_kinase_CS
IPR002420 - PI3K_C2_dom
IPR000341 - PI3K_Ras-bd_dom
IPR015433 - PI_Kinase
IPR001263 - PInositide-3_kin_accessory_dom

Pfam Domains:
PF00168 - C2 domain
PF00454 - Phosphatidylinositol 3- and 4-kinase
PF00792 - Phosphoinositide 3-kinase C2
PF00794 - PI3-kinase family, ras-binding domain
PF00613 - Phosphoinositide 3-kinase family, accessory domain (PIK domain)
PF00787 - PX domain

ModBase Predicted Comparative 3D Structure on O00750
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-  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
Genome BrowserGenome BrowserNo orthologNo orthologNo orthologNo ortholog
Gene Details     
Gene Sorter     
MGIRGD    
Protein SequenceProtein Sequence    
AlignmentAlignment    

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0000166 nucleotide binding
GO:0001727 lipid kinase activity
GO:0005515 protein binding
GO:0005524 ATP binding
GO:0016301 kinase activity
GO:0016303 1-phosphatidylinositol-3-kinase activity
GO:0016740 transferase activity
GO:0035005 1-phosphatidylinositol-4-phosphate 3-kinase activity
GO:0035091 phosphatidylinositol binding

Biological Process:
GO:0008150 biological_process
GO:0009267 cellular response to starvation
GO:0014065 phosphatidylinositol 3-kinase signaling
GO:0016236 macroautophagy
GO:0016310 phosphorylation
GO:0016477 cell migration
GO:0036092 phosphatidylinositol-3-phosphate biosynthetic process
GO:0043491 protein kinase B signaling
GO:0046854 phosphatidylinositol phosphorylation
GO:0048015 phosphatidylinositol-mediated signaling
GO:1905037 autophagosome organization

Cellular Component:
GO:0005634 nucleus
GO:0005654 nucleoplasm
GO:0005737 cytoplasm
GO:0005783 endoplasmic reticulum
GO:0005829 cytosol
GO:0005886 plasma membrane
GO:0005942 phosphatidylinositol 3-kinase complex
GO:0016020 membrane
GO:0030139 endocytic vesicle
GO:0043231 intracellular membrane-bounded organelle


-  Descriptions from all associated GenBank mRNAs
  Y11312 - H.sapiens mRNA for phosphoinositide 3-kinase.
BC132876 - Homo sapiens phosphoinositide-3-kinase, class 2, beta polypeptide, mRNA (cDNA clone MGC:164507 IMAGE:40146898), complete cds.
BC136645 - Homo sapiens phosphoinositide-3-kinase, class 2, beta polypeptide, mRNA (cDNA clone MGC:168258 IMAGE:9020635), complete cds.
BC144342 - Homo sapiens phosphoinositide-3-kinase, class 2, beta polypeptide, mRNA (cDNA clone MGC:177879 IMAGE:9052862), complete cds.
BC094741 - Homo sapiens cDNA clone IMAGE:30529036, containing frame-shift errors.
AK308153 - Homo sapiens cDNA, FLJ98101.
CR749201 - Homo sapiens mRNA; cDNA DKFZp686G16234 (from clone DKFZp686G16234).
AB210006 - Homo sapiens mRNA for PIK3C2B variant protein, clone: fg04853.
JD102903 - Sequence 83927 from Patent EP1572962.
JD280490 - Sequence 261514 from Patent EP1572962.
JD432874 - Sequence 413898 from Patent EP1572962.
JD241266 - Sequence 222290 from Patent EP1572962.
JD554201 - Sequence 535225 from Patent EP1572962.
JD091763 - Sequence 72787 from Patent EP1572962.
JD056066 - Sequence 37090 from Patent EP1572962.
JD107514 - Sequence 88538 from Patent EP1572962.
JD505748 - Sequence 486772 from Patent EP1572962.
JD364325 - Sequence 345349 from Patent EP1572962.
JD173995 - Sequence 155019 from Patent EP1572962.
JD137854 - Sequence 118878 from Patent EP1572962.
JD522200 - Sequence 503224 from Patent EP1572962.
JD059541 - Sequence 40565 from Patent EP1572962.
JD151625 - Sequence 132649 from Patent EP1572962.
JD526090 - Sequence 507114 from Patent EP1572962.
JD352840 - Sequence 333864 from Patent EP1572962.
JD413712 - Sequence 394736 from Patent EP1572962.
JD352839 - Sequence 333863 from Patent EP1572962.
JD275451 - Sequence 256475 from Patent EP1572962.
JD119412 - Sequence 100436 from Patent EP1572962.
JD136555 - Sequence 117579 from Patent EP1572962.
JD192956 - Sequence 173980 from Patent EP1572962.
JD405960 - Sequence 386984 from Patent EP1572962.
JD523165 - Sequence 504189 from Patent EP1572962.
JD416852 - Sequence 397876 from Patent EP1572962.
JD443216 - Sequence 424240 from Patent EP1572962.
JD432715 - Sequence 413739 from Patent EP1572962.
JD544624 - Sequence 525648 from Patent EP1572962.
JD167900 - Sequence 148924 from Patent EP1572962.
JD188569 - Sequence 169593 from Patent EP1572962.
JD327829 - Sequence 308853 from Patent EP1572962.
JD397004 - Sequence 378028 from Patent EP1572962.
JD167126 - Sequence 148150 from Patent EP1572962.
JD430005 - Sequence 411029 from Patent EP1572962.
JD488222 - Sequence 469246 from Patent EP1572962.
JD231399 - Sequence 212423 from Patent EP1572962.
JD195663 - Sequence 176687 from Patent EP1572962.
JD477799 - Sequence 458823 from Patent EP1572962.
JD421744 - Sequence 402768 from Patent EP1572962.
JD289435 - Sequence 270459 from Patent EP1572962.
JD223297 - Sequence 204321 from Patent EP1572962.
JD220651 - Sequence 201675 from Patent EP1572962.
JD544448 - Sequence 525472 from Patent EP1572962.
JD294658 - Sequence 275682 from Patent EP1572962.
Y13892 - Homo sapiens mRNA for PI-3 kinase.
JD232314 - Sequence 213338 from Patent EP1572962.
JD432163 - Sequence 413187 from Patent EP1572962.
JD335980 - Sequence 317004 from Patent EP1572962.
JD225542 - Sequence 206566 from Patent EP1572962.
JD427572 - Sequence 408596 from Patent EP1572962.
JD358510 - Sequence 339534 from Patent EP1572962.
JD107263 - Sequence 88287 from Patent EP1572962.
JD150494 - Sequence 131518 from Patent EP1572962.
JD444613 - Sequence 425637 from Patent EP1572962.
JD373110 - Sequence 354134 from Patent EP1572962.
JD222728 - Sequence 203752 from Patent EP1572962.
JD370816 - Sequence 351840 from Patent EP1572962.
JD085911 - Sequence 66935 from Patent EP1572962.
JD177630 - Sequence 158654 from Patent EP1572962.
JD456899 - Sequence 437923 from Patent EP1572962.
AB384400 - Synthetic construct DNA, clone: pF1KSDB1467, Homo sapiens PIK3C2B gene for phosphoinositide-3-kinase, class 2, beta polypeptide, complete cds, without stop codon, in Flexi system.
JD124133 - Sequence 105157 from Patent EP1572962.
JD389185 - Sequence 370209 from Patent EP1572962.
JD096850 - Sequence 77874 from Patent EP1572962.
JD521932 - Sequence 502956 from Patent EP1572962.
JD427673 - Sequence 408697 from Patent EP1572962.
JD251416 - Sequence 232440 from Patent EP1572962.
JD562397 - Sequence 543421 from Patent EP1572962.
JD184270 - Sequence 165294 from Patent EP1572962.
JD445300 - Sequence 426324 from Patent EP1572962.
JD102387 - Sequence 83411 from Patent EP1572962.
JD205474 - Sequence 186498 from Patent EP1572962.

-  Biochemical and Signaling Pathways
  KEGG - Kyoto Encyclopedia of Genes and Genomes
hsa00562 - Inositol phosphate metabolism
hsa01100 - Metabolic pathways
hsa04070 - Phosphatidylinositol signaling system

Reactome (by CSHL, EBI, and GO)

Protein O00750 (Reactome details) participates in the following event(s):

R-HSA-1676109 PI4P is phosphorylated to PI(3,4)P2 by PI3K3C[2] at the plasma membrane
R-HSA-1660499 Synthesis of PIPs at the plasma membrane
R-HSA-1483255 PI Metabolism
R-HSA-1483257 Phospholipid metabolism
R-HSA-556833 Metabolism of lipids
R-HSA-1430728 Metabolism

-  Other Names for This Gene
  Alternate Gene Symbols: ENST00000367187.1, ENST00000367187.2, ENST00000367187.3, ENST00000367187.4, ENST00000367187.5, ENST00000367187.6, NM_002646, O00750, O95666, P3C2B_HUMAN, Q5SW99, uc001haw.1, uc001haw.2, uc001haw.3, uc001haw.4
UCSC ID: ENST00000367187.7
RefSeq Accession: NM_002646
Protein: O00750 (aka P3C2B_HUMAN or PK3B_HUMAN)
CCDS: CCDS1446.1

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