Human Gene PBK (uc003xgi.3)
  Description: Homo sapiens PDZ binding kinase (PBK), mRNA.
RefSeq Summary (NM_018492): This gene encodes a serine/threonine protein kinase related to the dual specific mitogen-activated protein kinase kinase (MAPKK) family. Evidence suggests that mitotic phosphorylation is required for its catalytic activity. The encoded protein may be involved in the activation of lymphoid cells and support testicular functions, with a suggested role in the process of spermatogenesis. Overexpression of this gene has been implicated in tumorigenesis. Alternative splicing results in multiple transcript variants. [provided by RefSeq, Jul 2013].
Transcript (Including UTRs)
   Position: hg19 chr8:27,667,138-27,695,349 Size: 28,212 Total Exon Count: 8 Strand: -
Coding Region
   Position: hg19 chr8:27,667,822-27,690,630 Size: 22,809 Coding Exon Count: 7 

Page IndexSequence and LinksUniProtKB CommentsPrimersGenetic AssociationsCTD
Gene AllelesRNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther Species
GO AnnotationsmRNA DescriptionsOther NamesModel InformationMethods
Data last updated at UCSC: 2013-06-14

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr8:27,667,138-27,695,349)mRNA (may differ from genome)Protein (322 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblEntrez GeneExonPrimerGeneCards
GeneNetworkH-INVHGNCHPRDLynxMGI
neXtProtOMIMPubMedTreefamUniProtKBWikipedia
BioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: TOPK_HUMAN
DESCRIPTION: RecName: Full=Lymphokine-activated killer T-cell-originated protein kinase; EC=2.7.12.2; AltName: Full=Cancer/testis antigen 84; Short=CT84; AltName: Full=MAPKK-like protein kinase; AltName: Full=Nori-3; AltName: Full=PDZ-binding kinase; AltName: Full=Spermatogenesis-related protein kinase; Short=SPK; AltName: Full=T-LAK cell-originated protein kinase;
FUNCTION: Phosphorylates MAP kinase p38. Seems to be active only in mitosis. May also play a role in the activation of lymphoid cells. When phosphorylated, forms a complex with TP53, leading to TP53 destabilization and attenuation of G2/M checkpoint during doxorubicin-induced DNA damage.
CATALYTIC ACTIVITY: ATP + a protein = ADP + a phosphoprotein.
ENZYME REGULATION: Activated by phosphorylation (By similarity).
SUBUNIT: Interacts with DLG1 and TP53.
INTERACTION: P10398:ARAF; NbExp=3; IntAct=EBI-536853, EBI-365961; P04637:TP53; NbExp=7; IntAct=EBI-536853, EBI-366083;
TISSUE SPECIFICITY: Expressed in the testis and placenta. In the testis, restrictedly expressed in outer cell layer of seminiferous tubules.
PTM: Phosphorylated; in a cell-cycle dependent manner at mitosis.
SIMILARITY: Belongs to the protein kinase superfamily. Ser/Thr protein kinase family. MAP kinase kinase subfamily.
SIMILARITY: Contains 1 protein kinase domain.

-  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): PBK
CDC HuGE Published Literature: PBK

-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene           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: 37.47 RPKM in Testis
Total median expression: 72.74 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 -76.10201-0.379 Picture PostScript Text
3' UTR -150.60684-0.220 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
IPR008271 - Ser/Thr_kinase_AS

Pfam Domains:
PF00069 - Protein kinase domain
PF07714 - Protein tyrosine kinase

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

ModBase Predicted Comparative 3D Structure on Q96KB5
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 orthologNo orthologGenome BrowserGenome BrowserNo orthologNo ortholog
Gene Details  Gene Details  
Gene Sorter  Gene Sorter  
  EnsemblFlyBase  
  Protein SequenceProtein Sequence  
  AlignmentAlignment  

-  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:0005515 protein binding
GO:0005524 ATP binding
GO:0016301 kinase activity
GO:0016740 transferase activity

Biological Process:
GO:0000278 mitotic cell cycle
GO:0001933 negative regulation of protein phosphorylation
GO:0006468 protein phosphorylation
GO:0016310 phosphorylation
GO:0032435 negative regulation of proteasomal ubiquitin-dependent protein catabolic process
GO:0032873 negative regulation of stress-activated MAPK cascade
GO:0034644 cellular response to UV
GO:0050728 negative regulation of inflammatory response

Cellular Component:
GO:0005634 nucleus


-  Descriptions from all associated GenBank mRNAs
  BC015191 - Homo sapiens PDZ binding kinase, mRNA (cDNA clone MGC:14638 IMAGE:4082846), complete cds.
EU794685 - Homo sapiens epididymis luminal protein 164 (HEL164) mRNA, complete cds.
LF385005 - JP 2014500723-A/192508: Polycomb-Associated Non-Coding RNAs.
AF237709 - Homo sapiens spermatogenesis-related protein kinase mRNA, complete cds.
AK027291 - Homo sapiens cDNA FLJ14385 fis, clone HEMBA1002212, weakly similar to TYROSINE-PROTEIN KINASE 2 (EC 2.7.1.112).
JD554304 - Sequence 535328 from Patent EP1572962.
JD261788 - Sequence 242812 from Patent EP1572962.
JD459723 - Sequence 440747 from Patent EP1572962.
AF189722 - Homo sapiens PDZ-binding kinase mRNA, complete cds.
AB027250 - Homo sapiens Nori-3 mRNA for MPAKK-like protein kinase cap site form 2, complete cds.
AB027249 - Homo sapiens Nori-3 mRNA for MAPKK like protein kinase, complete cds.
JD238849 - Sequence 219873 from Patent EP1572962.
JD236994 - Sequence 218018 from Patent EP1572962.
AK301836 - Homo sapiens cDNA FLJ58333 complete cds, highly similar to T-lymphokine-activated killer cell-originated protein kinase (EC 2.7.12.2).
KJ899211 - Synthetic construct Homo sapiens clone ccsbBroadEn_08605 PBK gene, encodes complete protein.
KJ905503 - Synthetic construct Homo sapiens clone ccsbBroadEn_15110 PBK gene, encodes complete protein.
DQ893142 - Synthetic construct clone IMAGE:100005772; FLH194226.01X; RZPDo839G1079D PDZ binding kinase (PBK) gene, encodes complete protein.
DQ896427 - Synthetic construct Homo sapiens clone IMAGE:100010887; FLH194222.01L; RZPDo839G1069D PDZ binding kinase (PBK) gene, encodes complete protein.
AB529183 - Synthetic construct DNA, clone: pF1KB6465, Homo sapiens PBK gene for PDZ binding kinase, without stop codon, in Flexi system.
CU677233 - Synthetic construct Homo sapiens gateway clone IMAGE:100018911 5' read PBK mRNA.
LF334900 - JP 2014500723-A/142403: Polycomb-Associated Non-Coding RNAs.
MA620582 - JP 2018138019-A/192508: Polycomb-Associated Non-Coding RNAs.
MA570477 - JP 2018138019-A/142403: Polycomb-Associated Non-Coding RNAs.

-  Other Names for This Gene
  Alternate Gene Symbols: D3DST2, NM_018492, NP_060962, Q96KB5, Q9NPD9, Q9NYL7, Q9NZK6, TOPK, TOPK_HUMAN
UCSC ID: uc003xgi.3
RefSeq Accession: NM_018492
Protein: Q96KB5 (aka TOPK_HUMAN)
CCDS: CCDS6063.1, CCDS64858.1

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: NM_018492.2
exon count: 8CDS single in 3' UTR: no RNA size: 1899
ORF size: 969CDS single in intron: no Alignment % ID: 100.00
txCdsPredict score: 2130.50frame shift in genome: no % Coverage: 97.63
has start codon: yes stop codon in genome: no # of Alignments: 1
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.