Human Gene PHKA2 (ENST00000379942.5_7) from GENCODE V47lift37
  Description: phosphorylase kinase regulatory subunit alpha 2 (from RefSeq NM_000292.3)
Gencode Transcript: ENST00000379942.5_7
Gencode Gene: ENSG00000044446.12_9
Transcript (Including UTRs)
   Position: hg19 chrX:18,910,416-19,002,232 Size: 91,817 Total Exon Count: 33 Strand: -
Coding Region
   Position: hg19 chrX:18,911,603-19,002,050 Size: 90,448 Coding Exon Count: 33 

Page IndexSequence and LinksUniProtKB CommentsPrimersMalaCardsCTD
Gene AllelesRNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther Species
GO AnnotationsmRNA DescriptionsPathwaysOther NamesGeneReviewsModel Information
Methods
Data last updated at UCSC: 2024-08-22 23:36:26

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chrX:18,910,416-19,002,232)mRNA (may differ from genome)Protein (1235 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblEntrez GeneExonPrimerGeneCards
HGNCMalacardsMGIOMIMPubMedReactome
UniProtKBWikipediaBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: KPB2_HUMAN
DESCRIPTION: RecName: Full=Phosphorylase b kinase regulatory subunit alpha, liver isoform; Short=Phosphorylase kinase alpha L subunit;
FUNCTION: Phosphorylase b kinase catalyzes the phosphorylation of serine in certain substrates, including troponin I. The alpha chain may bind calmodulin.
ENZYME REGULATION: By phosphorylation of various serine residues and by calcium.
PATHWAY: Glycan biosynthesis; glycogen metabolism.
SUBUNIT: Hexadecamer of 4 heterotetramers, each composed of alpha, beta, gamma, and delta subunits. Alpha (PHKA1 or PHKA2) and beta (PHKB) are regulatory subunits, gamma (PHKG1 or PHKG2) is the catalytic subunit, and delta is calmodulin.
SUBCELLULAR LOCATION: Cell membrane; Lipid-anchor; Cytoplasmic side (Potential).
TISSUE SPECIFICITY: Predominantly expressed in liver and other non-muscle tissues.
PTM: Although the final Cys may be farnesylated, the terminal tripeptide is probably not removed, and the C-terminus is not methylated (By similarity).
DISEASE: Defects in PHKA2 are the cause of glycogen storage disease type 9A (GSD9A) [MIM:306000]; also known as X-linked liver glycogenosis (XLG). GSD9A is a metabolic disorder resulting in a mild glycogenosis with clinical symptoms that include hepatomegaly, growth retardation, muscle weakness, elevation of glutamate-pyruvate transaminase and glutamate-oxaloacetate transaminase, hypercholesterolemia, hypertriglyceridemia, and fasting hyperketosis. Two subtypes are known: type 1 or classic type with no phosphorylase kinase activity in liver or erythrocytes, and type 2 or variant type with no phosphorylase kinase activity in liver, but normal activity in erythrocytes. Unlike other glycogenosis diseases, glycogen storage disease type 9A is generally a benign condition. Patients improve with age and are often asymptomatic as adults. Accurate diagnosis is therefore also of prognostic interest.
SIMILARITY: Belongs to the phosphorylase b kinase regulatory chain family.
WEB RESOURCE: Name=GeneReviews; URL="http://www.ncbi.nlm.nih.gov/sites/GeneTests/lab/gene/PHKA2";

-  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


-  MalaCards Disease Associations
  MalaCards Gene Search: PHKA2
Diseases sorted by gene-association score: glycogen storage disease, type ixa1* (1200), glycogen storage disease due to liver phosphorylase kinase deficiency* (247), phka2-related phosphorylase kinase deficiency* (200), glycogen storage disease (29), glycogen storage disease ia (14), phosphorylase kinase deficiency (13), muscle glycogenosis (10), coffin-lowry syndrome (9), carbohydrate metabolic disorder (5)
* = Manually curated disease association

-  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: 16.26 RPKM in Liver
Total median expression: 326.16 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 -75.50182-0.415 Picture PostScript Text
3' UTR -387.101187-0.326 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
IPR008928 - 6-hairpin_glycosidase-like
IPR012341 - 6hp_glycosidase
IPR011613 - Glyco_hydro_15
IPR008734 - PHK_A/B_su

Pfam Domains:
PF00723 - Glycosyl hydrolases family 15
PF19292 - Phosphorylase b kinase C-terminal domain

SCOP Domains:
48208 - Six-hairpin glycosidases

ModBase Predicted Comparative 3D Structure on P46019
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 orthologNo orthologNo orthologGenome BrowserNo ortholog
Gene Details  Gene DetailsGene Details 
Gene Sorter  Gene SorterGene Sorter 
  Ensembl WormBase 
    Protein Sequence 
    Alignment 

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0003824 catalytic activity
GO:0004689 phosphorylase kinase activity
GO:0005515 protein binding
GO:0005516 calmodulin binding

Biological Process:
GO:0005975 carbohydrate metabolic process
GO:0005977 glycogen metabolic process
GO:0006091 generation of precursor metabolites and energy
GO:0006464 cellular protein modification process
GO:0006468 protein phosphorylation

Cellular Component:
GO:0005829 cytosol
GO:0005886 plasma membrane
GO:0005964 phosphorylase kinase complex
GO:0016020 membrane


-  Descriptions from all associated GenBank mRNAs
  X80497 - H.sapiens PHKLA mRNA.
JD086599 - Sequence 67623 from Patent EP1572962.
JD250184 - Sequence 231208 from Patent EP1572962.
JD257870 - Sequence 238894 from Patent EP1572962.
JD093446 - Sequence 74470 from Patent EP1572962.
JD560483 - Sequence 541507 from Patent EP1572962.
AK092480 - Homo sapiens cDNA FLJ35161 fis, clone PLACE6011627, highly similar to PHOSPHORYLASE B KINASE ALPHA REGULATORY CHAIN, LIVER ISOFORM.
D38616 - Homo sapiens mRNA for phosphorylase kinase alpha subunit, complete cds.
AK056812 - Homo sapiens cDNA FLJ32250 fis, clone PROST1000145, highly similar to PHOSPHORYLASE B KINASE ALPHA REGULATORY CHAIN, LIVER ISOFORM.
BC014036 - Homo sapiens phosphorylase kinase, alpha 2 (liver), mRNA (cDNA clone MGC:20154 IMAGE:4547507), complete cds.
AK289996 - Homo sapiens cDNA FLJ75399 complete cds, highly similar to Homo sapiens phosphorylase kinase, alpha 2 (liver) (PHKA2), mRNA.
JD199393 - Sequence 180417 from Patent EP1572962.
JD103775 - Sequence 84799 from Patent EP1572962.
JD491281 - Sequence 472305 from Patent EP1572962.
JD123055 - Sequence 104079 from Patent EP1572962.
JD508466 - Sequence 489490 from Patent EP1572962.
DQ893677 - Synthetic construct clone IMAGE:100006307; FLH188231.01X; RZPDo839H11150D phosphorylase kinase, alpha 2 (liver) (PHKA2) gene, encodes complete protein.
DQ895560 - Synthetic construct Homo sapiens clone IMAGE:100010020; FLH188227.01L; RZPDo839H11149D phosphorylase kinase, alpha 2 (liver) (PHKA2) gene, encodes complete protein.
AY429559 - Homo sapiens PHKA2v_2 mRNA sequence; alternatively spliced.
AY429560 - Homo sapiens PHKA2v_3 mRNA sequence; alternatively spliced.
BC114375 - Homo sapiens phosphorylase kinase, alpha 2 (liver), mRNA (cDNA clone IMAGE:40009343).
X73875 - H.sapiens PHKA 2 mRNA.
AY429561 - Homo sapiens PHKA2v_4 mRNA sequence; alternatively spliced.
AY429563 - Homo sapiens PHKA2v_7 mRNA sequence; alternatively spliced.
AY429562 - Homo sapiens PHKA2v_5 mRNA sequence; alternatively spliced.
LF211715 - JP 2014500723-A/19218: Polycomb-Associated Non-Coding RNAs.
JD462068 - Sequence 443092 from Patent EP1572962.
JD211037 - Sequence 192061 from Patent EP1572962.
JD439728 - Sequence 420752 from Patent EP1572962.
MA447292 - JP 2018138019-A/19218: Polycomb-Associated Non-Coding RNAs.

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

Protein P46019 (Reactome details) participates in the following event(s):

R-HSA-71588 glycogen phosphorylase (PYGL) dimer b + 2 ATP => glycogen phosphorylase (PYGL) dimer a + 2 ADP
R-HSA-70221 Glycogen breakdown (glycogenolysis)
R-HSA-8982491 Glycogen metabolism
R-HSA-71387 Metabolism of carbohydrates
R-HSA-1430728 Metabolism

-  Other Names for This Gene
  Alternate Gene Symbols: A8K1T1, ENST00000379942.1, ENST00000379942.2, ENST00000379942.3, ENST00000379942.4, KPB2_HUMAN, NM_000292, P46019, PHKLA, PYK, Q6LAJ5, Q7Z6W0, Q96CR3, Q9UDA1, uc318pgw.1, uc318pgw.2
UCSC ID: ENST00000379942.5_7
RefSeq Accession: NM_000292.3
Protein: P46019 (aka KPB2_HUMAN)

-  GeneReviews for This Gene
  GeneReviews article(s) related to gene PHKA2:
gsd9 (Phosphorylase Kinase Deficiency)

-  Gene Model Information
  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.