Human Gene PDPK1 (uc002cqv.1)
  Description: Homo sapiens 3-phosphoinositide dependent protein kinase-1 (PDPK1), transcript variant 3, mRNA.
Transcript (Including UTRs)
   Position: hg19 chr16:2,606,897-2,634,065 Size: 27,169 Total Exon Count: 9 Strand: +
Coding Region
   Position: hg19 chr16:2,607,761-2,633,733 Size: 25,973 Coding Exon Count: 9 

Page IndexSequence and LinksUniProtKB CommentsPrimersGenetic AssociationsMalaCards
CTDGene AllelesRNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein Structure
Other SpeciesGO AnnotationsmRNA DescriptionsPathwaysOther NamesModel Information
Methods
Data last updated at UCSC: 2013-06-14

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr16:2,606,897-2,634,065)mRNA (may differ from genome)Protein (396 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblEntrez GeneExonPrimerGeneCards
H-INVHGNCLynxMalacardsMGIneXtProt
OMIMPubMedUniProtKBWikipediaBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: PDPK2_HUMAN
DESCRIPTION: RecName: Full=Putative 3-phosphoinositide-dependent protein kinase 2; EC=2.7.11.1;
FUNCTION: Phosphorylates and activates not only PKB/AKT, but also PKA, PKC-zeta, RPS6KA1 and RPS6KB1. May play a general role in signaling processes and in development (By similarity).
CATALYTIC ACTIVITY: ATP + a protein = ADP + a phosphoprotein.
SUBCELLULAR LOCATION: Cytoplasm (By similarity). Membrane; Peripheral membrane protein (By similarity).
PTM: Phosphorylated on tyrosine and serine/threonine (By similarity).
SIMILARITY: Belongs to the protein kinase superfamily. AGC Ser/Thr protein kinase family. PDPK1 subfamily.
SIMILARITY: Contains 1 protein kinase domain.
CAUTION: Could be the product of a pseudogene.

-  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


-  Genetic Association Studies of Complex Diseases and Disorders
  Genetic Association Database (archive): PDPK1
CDC HuGE Published Literature: PDPK1

-  MalaCards Disease Associations
  MalaCards Gene Search: PDPK1
Diseases sorted by gene-association score: lung cancer (2), intestinal obstruction (2)

-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene
  • C059514 resveratrol
  • D004317 Doxorubicin
  • D008070 Lipopolysaccharides
  • D014108 Tosylphenylalanyl Chloromethyl Ketone
  • C105934 celecoxib
  • C028474 1,4-bis(2-(3,5-dichloropyridyloxy))benzene
  • C016403 2,4-dinitrotoluene
  • C023514 2,6-dinitrotoluene
  • C518576 2-methylbutyric acid 4-((1,3)dioxan-5-ylmethoxyimino)-8-(2-(4-hydroxy-6-oxo-tetrahydropyran-2-yl)ethyl -7-methyl-6-oxo-1,2,3,4,6,7,8,8a-octahydronaphthyl)heptanoate
  • C009505 4,4'-diaminodiphenylmethane
          more ... click here to view the complete list

+  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: 17.17 RPKM in Brain - Cerebellar Hemisphere
Total median expression: 418.37 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 -324.74864-0.376 Picture PostScript Text
3' UTR -136.70332-0.412 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
IPR011009 - Kinase-like_dom
IPR000719 - Prot_kinase_cat_dom
IPR017441 - Protein_kinase_ATP_BS
IPR002290 - Ser/Thr_dual-sp_kinase_dom
IPR008271 - Ser/Thr_kinase_AS

Pfam Domains:
PF00069 - Protein kinase domain
PF07714 - Protein tyrosine kinase
PF14531 - Kinase-like

SCOP Domains:
56112 - Protein kinase-like (PK-like)

ModBase Predicted Comparative 3D Structure on Q6A1A2
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 Details    
 Gene Sorter    
 RGD    
 Protein Sequence    
 Alignment    

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0000166 nucleotide binding
GO:0004672 protein kinase activity
GO:0004674 protein serine/threonine kinase activity
GO:0005524 ATP binding
GO:0016301 kinase activity
GO:0016740 transferase activity

Biological Process:
GO:0006468 protein phosphorylation
GO:0016310 phosphorylation
GO:0018105 peptidyl-serine phosphorylation
GO:0035556 intracellular signal transduction

Cellular Component:
GO:0005622 intracellular
GO:0005737 cytoplasm
GO:0016020 membrane


-  Descriptions from all associated GenBank mRNAs
  AB209835 - Homo sapiens mRNA for 3-phosphoinositide dependent protein kinase-1 variant protein.
BC006339 - Homo sapiens 3-phosphoinositide dependent protein kinase-1, mRNA (cDNA clone MGC:12726 IMAGE:4079551), complete cds.
BC012103 - Homo sapiens 3-phosphoinositide dependent protein kinase-1, mRNA (cDNA clone MGC:20087 IMAGE:4561371), complete cds.
AK131060 - Homo sapiens cDNA FLJ29026 fis, clone PRS04322, highly similar to 3-phosphoinositide dependent protein kinase-1 (EC 2.7.1.37).
AK222581 - Homo sapiens mRNA for 3-phosphoinositide dependent protein kinase-1 variant, clone: CAS01142.
AF017995 - Homo sapiens 3-phosphoinositide dependent protein kinase-1 (PDK1) mRNA, complete cds.
Y15056 - Homo sapiens mRNA for PkB kinase.
BC033494 - Homo sapiens 3-phosphoinositide dependent protein kinase-1, mRNA (cDNA clone MGC:35290 IMAGE:5176294), complete cds.
AB463382 - Synthetic construct DNA, clone: pF1KB8111, Homo sapiens PDPK1 gene for 3-phosphoinositide dependent protein kinase-1, without stop codon, in Flexi system.
DQ892297 - Synthetic construct clone IMAGE:100004927; FLH184990.01X; RZPDo839E01146D 3-phosphoinositide dependent protein kinase-1 (PDPK1) gene, encodes complete protein.
DQ895496 - Synthetic construct Homo sapiens clone IMAGE:100009956; FLH184986.01L; RZPDo839E01145D 3-phosphoinositide dependent protein kinase-1 (PDPK1) gene, encodes complete protein.
GQ129441 - Synthetic construct Homo sapiens clone HAIB:100068473; DKFZo004C0334 3-phosphoinositide dependent protein kinase-1 protein (PDPK1) gene, partial cds.
EU832784 - Synthetic construct Homo sapiens clone HAIB:100067813; DKFZo008C0333 3-phosphoinositide dependent protein kinase-1 protein (PDPK1) gene, encodes complete protein.
CU689632 - Synthetic construct Homo sapiens gateway clone IMAGE:100019354 5' read PDPK1 mRNA.
KJ891774 - Synthetic construct Homo sapiens clone ccsbBroadEn_01168 PDPK1 gene, encodes complete protein.
KJ905256 - Synthetic construct Homo sapiens clone ccsbBroadEn_14741 PDPK1 gene, encodes complete protein.
CR536517 - Homo sapiens full open reading frame cDNA clone RZPDo834D0722D for gene PDPK1, 3-phosphoinositide dependent protein kinase-1; complete cds, incl. stopcodon.
BC040324 - Homo sapiens 3-phosphoinositide dependent protein kinase-1, mRNA (cDNA clone IMAGE:4830546), with apparent retained intron.
AJ785968 - Homo sapiens mRNA for PDPK2 protein.
AK293900 - Homo sapiens cDNA FLJ59188 complete cds, highly similar to 3-phosphoinositide-dependent protein kinase 1(EC 2.7.11.1).
JD021934 - Sequence 2958 from Patent EP1572962.
JD036280 - Sequence 17304 from Patent EP1572962.

-  Biochemical and Signaling Pathways
  KEGG - Kyoto Encyclopedia of Genes and Genomes
hsa03320 - PPAR signaling pathway
hsa04150 - mTOR signaling pathway
hsa04510 - Focal adhesion
hsa04910 - Insulin signaling pathway
hsa04960 - Aldosterone-regulated sodium reabsorption
hsa05213 - Endometrial cancer
hsa05215 - Prostate cancer
hsa05223 - Non-small cell lung cancer

BioCarta from NCI Cancer Genome Anatomy Project
h_eif4Pathway - Regulation of eIF4e and p70 S6 Kinase
h_mTORPathway - mTOR Signaling Pathway
h_ptdinsPathway - Phosphoinositides and their downstream targets.
h_igf1mtorpathway - Skeletal muscle hypertrophy is regulated via AKT/mTOR pathway
h_gsk3Pathway - Inactivation of Gsk3 by AKT causes accumulation of b-catenin in Alveolar Macrophages
h_ptenPathway - PTEN dependent cell cycle arrest and apoptosis
h_aktPathway - AKT Signaling Pathway

-  Other Names for This Gene
  Alternate Gene Symbols: AJ785968, NM_001261816, NP_001248745, PDPK2, PDPK2_HUMAN, Q6A1A2
UCSC ID: uc002cqv.1
RefSeq Accession: NM_001261816
Protein: Q6A1A2 (aka PDPK2_HUMAN)

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: AJ785968.1
exon count: 9CDS single in 3' UTR: no RNA size: 2387
ORF size: 1191CDS single in intron: no Alignment % ID: 99.79
txCdsPredict score: 1610.00frame shift in genome: no % Coverage: 100.00
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: 1286# 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.