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GeneE
25 sources retrieved Β· Most recent: April 2026 Β· Index updated 14 days ago
β“˜GeneE is for informational purposes only. It is not a substitute for professional medical advice, diagnosis, or treatment.
ATP1A2
ATPase Na+/K+ transporting subunit alpha 2
Chromosome 1 Β· 1q23.2
NCBI Gene: 477Ensembl: ENSG00000018625.16HGNC: HGNC:800UniProt: A0A0S2Z3W6
169PubMed Papers
24Diseases
6Drugs
134Pathogenic Variants
FUNCTIONAL ROLE
Transporter
RESEARCH IMPACT
TrendingVariant-Rich
CLINICAL
FDA Approved TargetOMIM Disease Gene
DATA QUALITY
βœ“ Experimental GO Evidenceβœ“ Swiss-Prot Reviewed
membraneintracellular sodium ion homeostasiscytoplasmplasma membranemigraine, familial hemiplegic, 2alternating hemiplegia of childhood 1developmental and epileptic encephalopathy 98fetal akinesia, respiratory insufficiency, microcephaly, polymicrogyria, and dysmorphic facies
✦AI Summary

ATP1A2 encodes the catalytic alpha-2 subunit of the Na+/K+-ATPase pump, which catalyzes ATP hydrolysis coupled with sodium-potassium ion exchange across the plasma membrane 1. This ion exchange establishes the electrochemical gradient essential for cellular signaling and active transport of nutrients. The pump functions in neurons and glial cells, where it maintains optimal intracellular ion homeostasis 2. Mutations in ATP1A2 cause familial hemiplegic migraine (FHM2), characterized by migraine attacks with transient motor weakness 23. These mutations increase neurotransmitter and potassium ion levels at synaptic clefts, facilitating cortical spreading depolarization underlying migraine aura 2. Heterozygous ATP1A2 mutations also cause alternating hemiplegia of childhood and developmental epileptic encephalopathy, with severe mutations producing polymicrogyria and early lethality 1. In vitro studies demonstrate that disease-associated mutations cause severe loss of Na+/K+-ATPase pump function 1. Beyond neurological disease, ATP1A2 participates in brown adipose tissue thermogenesis regulation 4. Clinical management of ATP1A2-related hemiplegic migraine includes antiepileptic drugs (lamotrigine, valproate, topiramate), calcium channel blockers (flunarizine, verapamil), and acetazolamide 5. Diagnosis requires genetic testing combined with clinical evaluation, as penetrance varies among mutation carriers.

Sources cited
1
ATP1A2 mutations cause developmental epileptic encephalopathy with polymicrogyria through impaired Na+/K+-ATPase pump function
PMID: 33880529
2
ATP1A2 mutations cause familial hemiplegic migraine by increasing synaptic potassium and neurotransmitter levels, facilitating cortical spreading depolarization
PMID: 38307656
3
ATP1A2 mutations in hemiplegic migraine involve ion transport and produce motor weakness with lower threshold and greater severity than typical migraine
PMID: 32430436
4
ATP1A2 mutations cause familial hemiplegic migraine with treatment including antiepileptics, calcium blockers, and acetazolamide
PMID: 39174245
5
ATP1A2 identified as a novel gene in developmental and epileptic encephalopathy with spike-wave activation in sleep
PMID: 39096015
6
ATP1A2 functions as a modulator of brown adipose tissue thermogenesis
PMID: 36334589
7
ATP1A2 mutations cause familial hemiplegic migraine (FHM2) affecting cortical spreading depression underlying migraine aura
PMID: 38043972
Disease Associationsβ“˜24
migraine, familial hemiplegic, 2Open Targets
0.83Strong
alternating hemiplegia of childhood 1Open Targets
0.77Strong
developmental and epileptic encephalopathy 98Open Targets
0.73Strong
fetal akinesia, respiratory insufficiency, microcephaly, polymicrogyria, and dysmorphic faciesOpen Targets
0.71Strong
alternating hemiplegia of childhoodOpen Targets
0.66Moderate
familial hemiplegic migraineOpen Targets
0.65Moderate
congestive heart failureOpen Targets
0.60Moderate
atrial fibrillationOpen Targets
0.59Moderate
heart failureOpen Targets
0.57Moderate
cardiovascular diseaseOpen Targets
0.55Moderate
genetic disorderOpen Targets
0.53Moderate
ArrhythmiaOpen Targets
0.50Moderate
microcephalyOpen Targets
0.48Moderate
hydrops fetalisOpen Targets
0.48Moderate
arthrogryposisOpen Targets
0.48Moderate
polymicrogyriaOpen Targets
0.43Moderate
type 2 diabetes mellitusOpen Targets
0.38Weak
migraine disorderOpen Targets
0.38Weak
familial or sporadic hemiplegic migraineOpen Targets
0.37Weak
benign familial infantile epilepsyOpen Targets
0.37Weak
Alternating hemiplegia of childhood 1UniProt
Developmental and epileptic encephalopathy 98UniProt
Fetal akinesia, respiratory insufficiency, microcephaly, polymicrogyria, and dysmorphic faciesUniProt
Migraine, familial hemiplegic, 2UniProt
Pathogenic Variants134
NM_000702.4(ATP1A2):c.889G>A (p.Ala297Thr)Pathogenic
not provided|Familial hemiplegic migraine|Alternating hemiplegia of childhood 1;Migraine, familial hemiplegic, 2|ATP1A2-related disorder|Developmental and epileptic encephalopathy 98|Alternating hemiplegia of childhood 1
β˜…β˜…β˜†β˜†2026β†’ Residue 297
NM_000702.4(ATP1A2):c.3005G>A (p.Arg1002Gln)Pathogenic
not provided|Migraine, familial hemiplegic, 2|Familial hemiplegic migraine
β˜…β˜…β˜†β˜†2026β†’ Residue 1002
NM_000702.4(ATP1A2):c.788C>T (p.Thr263Met)Pathogenic
not provided|Familial hemiplegic migraine|Migraine, familial hemiplegic, 2|Developmental and epileptic encephalopathy 98
β˜…β˜…β˜†β˜†2026β†’ Residue 263
NM_000702.4(ATP1A2):c.1096G>A (p.Gly366Ser)Pathogenic
not provided|Developmental and epileptic encephalopathy 98|Familial hemiplegic migraine
β˜…β˜…β˜†β˜†2025β†’ Residue 366
NM_000702.4(ATP1A2):c.1843G>A (p.Gly615Arg)Pathogenic
Alternating hemiplegia of childhood 1|Familial hemiplegic migraine
β˜…β˜…β˜†β˜†2025β†’ Residue 615
NM_000702.4(ATP1A2):c.2102del (p.Gly701fs)Pathogenic
not provided|Familial hemiplegic migraine
β˜…β˜…β˜†β˜†2025β†’ Residue 701
NM_000702.4(ATP1A2):c.2936C>T (p.Pro979Leu)Pathogenic
Migraine, familial hemiplegic, 2|Familial hemiplegic migraine|not provided|Alternating hemiplegia of childhood 1;Migraine, familial hemiplegic, 2
β˜…β˜…β˜†β˜†2025β†’ Residue 979
NM_000702.4(ATP1A2):c.1643G>A (p.Arg548His)Pathogenic
Migraine, familial basilar|not provided|Familial hemiplegic migraine|Migraine, familial hemiplegic, 2|Developmental and epileptic encephalopathy 98|ATP1A2-related disorder
β˜…β˜…β˜†β˜†2025β†’ Residue 548
NM_000702.4(ATP1A2):c.3027T>A (p.Tyr1009Ter)Pathogenic
Epilepsy|Familial hemiplegic migraine|not provided
β˜…β˜…β˜†β˜†2025β†’ Residue 1009
NM_000702.4(ATP1A2):c.1642C>T (p.Arg548Cys)Pathogenic
not provided|Familial hemiplegic migraine
β˜…β˜…β˜†β˜†2025β†’ Residue 548
NM_000702.4(ATP1A2):c.2564G>A (p.Gly855Glu)Pathogenic
Familial hemiplegic migraine|Migraine, familial hemiplegic, 2
β˜…β˜…β˜†β˜†2025β†’ Residue 855
NM_000702.4(ATP1A2):c.2810G>A (p.Arg937His)Likely pathogenic
Inborn genetic diseases|Familial hemiplegic migraine|not provided
β˜…β˜…β˜†β˜†2025β†’ Residue 937
NM_000702.4(ATP1A2):c.736_739del (p.Asn246fs)Pathogenic
not provided|Familial hemiplegic migraine
β˜…β˜…β˜†β˜†2025β†’ Residue 246
NM_000702.4(ATP1A2):c.2143G>A (p.Gly715Arg)Pathogenic
not provided|Familial hemiplegic migraine|Migraine, familial hemiplegic, 2
β˜…β˜…β˜†β˜†2025β†’ Residue 715
NM_000702.4(ATP1A2):c.2501G>A (p.Arg834Gln)Pathogenic
Familial hemiplegic migraine|Migraine, familial hemiplegic, 2
β˜…β˜…β˜†β˜†2025β†’ Residue 834
NM_000702.4(ATP1A2):c.1816G>A (p.Ala606Thr)Pathogenic
not provided|Familial hemiplegic migraine|ATP1A2-related disorder
β˜…β˜…β˜†β˜†2025β†’ Residue 606
NM_000702.4(ATP1A2):c.2723G>A (p.Arg908Gln)Pathogenic
not provided|Migraine, familial hemiplegic, 2|Developmental and epileptic encephalopathy 98
β˜…β˜…β˜†β˜†2025β†’ Residue 908
NM_000702.4(ATP1A2):c.1882G>A (p.Val628Met)Pathogenic
not provided|Familial hemiplegic migraine
β˜…β˜…β˜†β˜†2024β†’ Residue 628
NM_000702.4(ATP1A2):c.1091C>T (p.Thr364Met)Pathogenic
not provided|Migraine, familial hemiplegic, 2|Inborn genetic diseases|Developmental and epileptic encephalopathy 98
β˜…β˜…β˜†β˜†2024β†’ Residue 364
NM_000702.4(ATP1A2):c.2563G>A (p.Gly855Arg)Pathogenic
not provided|Familial hemiplegic migraine|Alternating hemiplegia of childhood 1;Migraine, familial hemiplegic, 2|Alternating hemiplegia of childhood 1;Migraine, familial hemiplegic, 2;Fetal akinesia, respiratory insufficiency, microcephaly, polymicrogyria, and dysmorphic facies;Developmental and epileptic encephalopathy 98
β˜…β˜…β˜†β˜†2024β†’ Residue 855
View on ClinVar β†—
Drug Targets6
ACETYLDIGITOXINApproved
Sodium/potassium-transporting ATPase inhibitor
cardiovascular disease
DESLANOSIDEApproved
Sodium/potassium-transporting ATPase inhibitor
cardiovascular disease
DIGITOXINApproved
Sodium/potassium-transporting ATPase inhibitor
cardiovascular disease
DIGOXINApproved
Sodium/potassium-transporting ATPase inhibitor
heart failure
ISTAROXIMEPhase II
Sarcoplasmic/endoplasmic reticulum calcium ATPase 2 activator
heart disease
LANATOSIDE CApproved
Sodium/potassium-transporting ATPase inhibitor
cardiovascular disease
Related Genes
MAPK3Protein interaction99%SCN1AProtein interaction93%SLC9A1Protein interaction92%PRKG1Protein interaction91%FXYD2Protein interaction90%FXYD1Protein interaction90%
Tissue Expression6 tissues
Brain
100%
Heart
62%
Ovary
5%
Lung
2%
Liver
0%
Bone Marrow
0%
Gene Interaction Network
Click a node to explore
ATP1A2MAPK3SCN1ASLC9A1PRKG1FXYD2FXYD1
PROTEIN STRUCTURE
Preparing viewer…
AlphaFoldAI-predicted Β· UniProt P50993
View on AlphaFold β†—
Constraintβ“˜
LOEUFβ“˜
0.60Moderately Constrained
pLIβ“˜
0.00Tolerant
Observed/Expected LoF0.48 [0.39–0.60]
RankingsWhere ATP1A2 stands among ~20K protein-coding genes
  • #2,615of 20,598
    Most Researched169 Β· top quartile
  • #290of 1,025
    FDA-Approved Drug Targets5
  • #575of 5,498
    Most Pathogenic Variants134 Β· top quartile
  • #4,083of 17,882
    Most Constrained (LOEUF)0.60 Β· top quartile
Genes detectedATP1A2
Sources retrieved25 papers
Response timeβ€”
πŸ“„ Sources
25β–Ό
1
ATP1A2- and ATP1A3-associated early profound epileptic encephalopathy and polymicrogyria.
PMID: 33880529
Brain Β· 2021
1.00
2
Hemiplegic migraine.
PMID: 38307656
Handb Clin Neurol Β· 2024
0.90
3
Diagnostic and therapeutic aspects of hemiplegic migraine.
PMID: 32430436
J Neurol Neurosurg Psychiatry Β· 2020
0.80
4
A 20-year Clinical and Genetic Neuromuscular Cohort Analysis in Lebanon: An International Effort.
PMID: 34602496
J Neuromuscul Dis Β· 2022
0.70
5
Coexistence of CACNA1A, ATP1A2, and KCNN3 gene mutation in migraine patients with human platelet polymorphism.
PMID: 21063360
Neurosciences (Riyadh) Β· 2008
0.68