Human Gene CHKA (ENST00000265689.9) from GENCODE V41
  Description: Homo sapiens choline kinase alpha (CHKA), transcript variant 7, non-coding RNA. (from RefSeq NR_164782)
RefSeq Summary (NM_001277): The major pathway for the biosynthesis of phosphatidylcholine occurs via the CDP-choline pathway. The protein encoded by this gene is the initial enzyme in the sequence and may play a regulatory role. The encoded protein also catalyzes the phosphorylation of ethanolamine. Two transcript variants encoding different isoforms have been found for this gene. [provided by RefSeq, Jul 2008].
Gencode Transcript: ENST00000265689.9
Gencode Gene: ENSG00000110721.12
Transcript (Including UTRs)
   Position: hg38 chr11:68,052,859-68,121,388 Size: 68,530 Total Exon Count: 12 Strand: -
Coding Region
   Position: hg38 chr11:68,053,988-68,121,177 Size: 67,190 Coding Exon Count: 12 

Page IndexSequence and LinksUniProtKB CommentsMalaCardsCTDRNA-Seq Expression
Microarray ExpressionRNA StructureProtein StructureOther SpeciesGO AnnotationsmRNA Descriptions
PathwaysOther NamesMethods
Data last updated at UCSC: 2022-05-14 09:57:26

-  Sequence and Links to Tools and Databases
Genomic Sequence (chr11:68,052,859-68,121,388)mRNA (may differ from genome)Protein (457 aa)
Gene SorterGenome BrowserOther Species FASTAGene interactionsTable SchemaAlphaFold
BioGPSCGAPEnsemblEntrez GeneExonPrimerGencode

-  Comments and Description Text from UniProtKB
DESCRIPTION: RecName: Full=Choline kinase alpha; Short=CK; EC=; AltName: Full=CHETK-alpha; AltName: Full=Ethanolamine kinase; Short=EK; EC=;
FUNCTION: Has a key role in phospholipid biosynthesis and may contribute to tumor cell growth. Catalyzes the first step in phosphatidylcholine biosynthesis. Contributes to phosphatidylethanolamine biosynthesis. Phosphorylates choline and ethanolamine. Has higher activity with choline.
CATALYTIC ACTIVITY: ATP + choline = ADP + phosphocholine.
CATALYTIC ACTIVITY: ATP + ethanolamine = ADP + O- phosphoethanolamine.
BIOPHYSICOCHEMICAL PROPERTIES: Kinetic parameters: KM=0.2 mM for choline; KM=0.4 mM for ATP; KM=12 mM for ethanolamine;
PATHWAY: Phospholipid metabolism; phosphatidylcholine biosynthesis; phosphocholine from choline: step 1/1.
PATHWAY: Phospholipid metabolism; phosphatidylethanolamine biosynthesis; phosphatidylethanolamine from ethanolamine: step 1/3.
SUBUNIT: Heterodimer with CHKB (By similarity). Homodimer.
SIMILARITY: Belongs to the choline/ethanolamine kinase family.
WEB RESOURCE: Name=Atlas of Genetics and Cytogenetics in Oncology and Haematology; URL="";

-  MalaCards Disease Associations
  MalaCards Gene Search: CHKA
Diseases sorted by gene-association score: small cell carcinoma of the bladder (3), hepatitis c virus (3), microinvasive gastric cancer (2), muscle disorders (2), leukomalacia (2), muscular dystrophy, congenital, megaconial type (2)

-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene           more ... click here to view the complete list

-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 62.22 RPKM in Testis
Total median expression: 832.41 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 -101.00211-0.479 Picture PostScript Text
3' UTR -403.001129-0.357 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
IPR026712 - Cho/Etha_kinase
IPR011009 - Kinase-like_dom

Protein Data Bank (PDB) 3-D Structure
MuPIT help
2CKO - X-ray MuPIT 2CKP - X-ray MuPIT 2CKQ - X-ray MuPIT 2I7Q - X-ray MuPIT 3F2R - X-ray MuPIT 3G15 - X-ray MuPIT

ModBase Predicted Comparative 3D Structure on P35790
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
Genome BrowserGenome BrowserNo orthologNo orthologNo orthologNo ortholog
Gene Details     
Gene Sorter     
Protein SequenceProtein SequenceProtein Sequence   

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0000166 nucleotide binding
GO:0004103 choline kinase activity
GO:0004104 cholinesterase activity
GO:0004305 ethanolamine kinase activity
GO:0004871 signal transducer activity
GO:0005524 ATP binding
GO:0008144 drug binding
GO:0016301 kinase activity
GO:0016740 transferase activity
GO:0033265 choline binding
GO:0042803 protein homodimerization activity

Biological Process:
GO:0006580 ethanolamine metabolic process
GO:0006629 lipid metabolic process
GO:0006646 phosphatidylethanolamine biosynthetic process
GO:0006656 phosphatidylcholine biosynthetic process
GO:0006657 CDP-choline pathway
GO:0006869 lipid transport
GO:0007165 signal transduction
GO:0008654 phospholipid biosynthetic process
GO:0009636 response to toxic substance
GO:0016310 phosphorylation
GO:0019695 choline metabolic process
GO:1904681 response to 3-methylcholanthrene

Cellular Component:
GO:0005737 cytoplasm
GO:0005829 cytosol

-  Descriptions from all associated GenBank mRNAs
  AL834403 - Homo sapiens mRNA; cDNA DKFZp547I093 (from clone DKFZp547I093).
AK054792 - Homo sapiens cDNA FLJ30230 fis, clone BRACE2001898.
D10704 - Homo sapiens mRNA for choline kinase.
JD261065 - Sequence 242089 from Patent EP1572962.
JD418585 - Sequence 399609 from Patent EP1572962.
JD217059 - Sequence 198083 from Patent EP1572962.
JD497202 - Sequence 478226 from Patent EP1572962.
JD390906 - Sequence 371930 from Patent EP1572962.
JD290079 - Sequence 271103 from Patent EP1572962.
JD060167 - Sequence 41191 from Patent EP1572962.
JD362128 - Sequence 343152 from Patent EP1572962.
JD544367 - Sequence 525391 from Patent EP1572962.
JD323820 - Sequence 304844 from Patent EP1572962.
BC036471 - Homo sapiens choline kinase alpha, mRNA (cDNA clone MGC:41867 IMAGE:5265994), complete cds.
JD248975 - Sequence 229999 from Patent EP1572962.
JD367928 - Sequence 348952 from Patent EP1572962.
JD174144 - Sequence 155168 from Patent EP1572962.
JD273263 - Sequence 254287 from Patent EP1572962.

-  Biochemical and Signaling Pathways
  KEGG - Kyoto Encyclopedia of Genes and Genomes
hsa00564 - Glycerophospholipid metabolism
hsa01100 - Metabolic pathways

Reactome (by CSHL, EBI, and GO)

Protein P35790 (Reactome details) participates in the following event(s):

R-HSA-1483222 ETA is phosphorylated to PETA by CHK/ETNK
R-HSA-1483004 Cho is phosphorylated to PCho by CHK dimer
R-HSA-1483213 Synthesis of PE
R-HSA-1483191 Synthesis of PC
R-HSA-1483206 Glycerophospholipid biosynthesis
R-HSA-1483257 Phospholipid metabolism
R-HSA-556833 Metabolism of lipids
R-HSA-1430728 Metabolism

-  Other Names for This Gene
  Alternate Gene Symbols: CHK, CHKA_HUMAN, CKI, ENST00000265689.1, ENST00000265689.2, ENST00000265689.3, ENST00000265689.4, ENST00000265689.5, ENST00000265689.6, ENST00000265689.7, ENST00000265689.8, NR_164782, P35790, Q8NE29, uc001onj.1, uc001onj.2, uc001onj.3, uc001onj.4, uc001onj.5
UCSC ID: ENST00000265689.9
RefSeq Accession: NM_001277
Protein: P35790 (aka CHKA_HUMAN)
CCDS: CCDS8178.1, CCDS8179.1

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