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GeneE
31 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.
NKX2-5
NK2 homeobox 5
Chromosome 5 Β· 5q35.1
NCBI Gene: 1482Ensembl: ENSG00000183072.10HGNC: HGNC:2488UniProt: A0A0S2Z383
225PubMed Papers
26Diseases
0Drugs
126Pathogenic Variants
FUNCTIONAL ROLE
Highly ConstrainedTranscription Factor
RESEARCH IMPACT
Variant-Rich
CLINICAL
OMIM Disease Gene
DATA QUALITY
βœ“ Experimental GO Evidenceβœ“ Swiss-Prot Reviewed
negative regulation of transcription by RNA polymerase IIpositive regulation of transcription by RNA polymerase IIDNA-binding transcription factor activitytranscription cis-regulatory region bindingAtrial septal defect - atrioventricular conduction defectsTetralogy of Fallotatrial septal defect 7atrial heart septal defect
✦AI Summary

NKX2-5 is a cardiac-specific transcription factor essential for heart development and function. It serves as a primary regulator of cardiac gene expression, including direct transcriptional activation of cardiomyocyte-specific genes such as LIPTER, which is crucial for lipid metabolism in human cardiomyocytes 1. NKX2-5 functions through DNA binding and protein-protein interactions, working synergistically with co-factors like MEF2 to regulate sarcomere proteins such as titin, where it binds to intronic enhancer elements essential for proper sarcomere formation and cardiac contractility 2. The transcription factor is expressed specifically in cardiomyocytes and cardiovascular progenitors, making it a valuable marker for cardiac cell lineages 3. Loss-of-function mutations in NKX2-5 cause severe cardiac malformations reminiscent of congenital heart defects observed in mouse models 4. Variants of unknown significance, such as K158N, demonstrate pathogenic potential through impaired DNA binding and reduced co-factor interactions 5. Clinically, NKX2-5 polymorphisms are associated with increased susceptibility to congenital heart disease 6. Beyond cardiac development, NKX2-5 may contribute to pathological processes in non-cardiac tissues through epigenetic regulation mechanisms 7.

Sources cited
1
NKX2-5 is the primary regulator of cardiomyocyte-specific LIPTER transcription, crucial for lipid metabolism
PMID: 37264180
2
NKX2-5 binds to titin intronic enhancer elements essential for sarcomere formation and cardiac contractility
PMID: 39688912
3
NKX2-5 is expressed in cardiomyocytes and cardiovascular progenitors, serving as a cardiac lineage marker
PMID: 35127713
4
NKX2-5 knockout causes cardiac malformations resembling congenital heart defects
PMID: 33558697
5
NKX2-5 variant K158N shows impaired DNA binding and reduced co-factor interactions
PMID: 37691628
6
NKX2-5 polymorphisms are associated with increased congenital heart disease susceptibility
PMID: 33346701
7
NKX2-5 participates in epigenetic regulation mechanisms in non-cardiac pathological processes
PMID: 40307990
Disease Associationsβ“˜26
Atrial septal defect - atrioventricular conduction defectsOpen Targets
0.78Strong
Tetralogy of FallotOpen Targets
0.77Strong
atrial septal defect 7Open Targets
0.77Strong
atrial heart septal defectOpen Targets
0.73Strong
hypothyroidism, congenital, nongoitrous, 5Open Targets
0.72Strong
ventricular septal defect 3Open Targets
0.68Moderate
hypoplastic left heart syndrome 2Open Targets
0.64Moderate
conotruncal heart malformationsOpen Targets
0.62Moderate
atrial fibrillationOpen Targets
0.55Moderate
congenital heart diseaseOpen Targets
0.55Moderate
Abnormality of the cardiovascular systemOpen Targets
0.53Moderate
neurodegenerative diseaseOpen Targets
0.51Moderate
Abnormal cardiovascular system morphologyOpen Targets
0.46Moderate
heart failureOpen Targets
0.45Moderate
atrial flutterOpen Targets
0.41Moderate
familial isolated congenital aspleniaOpen Targets
0.40Moderate
atrioventricular blockOpen Targets
0.40Weak
dilated cardiomyopathyOpen Targets
0.39Weak
Familial progressive cardiac conduction defectOpen Targets
0.39Weak
congenital left-sided heart lesionsOpen Targets
0.39Weak
Atrial septal defect 7, with or without atrioventricular conduction defectsUniProt
Conotruncal heart malformationsUniProt
Hypoplastic left heart syndrome 2UniProt
Hypothyroidism, congenital, non-goitrous, 5UniProt
Tetralogy of FallotUniProt
Ventricular septal defect 3UniProt
Pathogenic Variants126
NM_004387.4(NKX2-5):c.783del (p.Ala262fs)Pathogenic
Malformation of the heart and great vessels|Atrial septal defect 7|not provided|NKX2-5-related disorder|6 conditions
β˜…β˜…β˜†β˜†2025β†’ Residue 262
NM_004387.4(NKX2-5):c.512T>C (p.Leu171Pro)Pathogenic
Atrial septal defect 7
β˜…β˜…β˜†β˜†2025β†’ Residue 171
NM_004387.4(NKX2-5):c.475C>T (p.Gln159Ter)Pathogenic
Cardiovascular phenotype|Atrial septal defect 7
β˜…β˜…β˜†β˜†2025β†’ Residue 159
NM_004387.4(NKX2-5):c.533C>T (p.Thr178Met)Pathogenic
Atrial septal defect 7|not provided
β˜…β˜…β˜†β˜†2025β†’ Residue 178
NM_004387.4(NKX2-5):c.711C>A (p.Tyr237Ter)Pathogenic
Noncompaction cardiomyopathy;Primary dilated cardiomyopathy;Atrial septal defect;Ventricular fibrillation|Atrial septal defect 7|not provided
β˜…β˜…β˜†β˜†2025β†’ Residue 237
NM_004387.4(NKX2-5):c.437C>A (p.Ser146Ter)Pathogenic
Atrial septal defect 7|Cardiovascular phenotype
β˜…β˜…β˜†β˜†2025β†’ Residue 146
NM_004387.4(NKX2-5):c.112_137del (p.Glu38fs)Pathogenic
Atrial septal defect 7|Cardiovascular phenotype
β˜…β˜…β˜†β˜†2025β†’ Residue 38
NM_004387.4(NKX2-5):c.646del (p.Arg216fs)Pathogenic
Atrial septal defect 7|Cardiovascular phenotype
β˜…β˜…β˜†β˜†2024β†’ Residue 216
NM_004387.4(NKX2-5):c.768T>G (p.Tyr256Ter)Pathogenic
Atrial septal defect 7|not provided
β˜…β˜…β˜†β˜†2024β†’ Residue 256
NM_004387.4(NKX2-5):c.491C>A (p.Ser164Ter)Pathogenic
Cardiovascular phenotype|Atrial septal defect 7
β˜…β˜…β˜†β˜†2024β†’ Residue 164
NM_004387.4(NKX2-5):c.167_186dup (p.Ala63fs)Pathogenic
Atrial septal defect 7|Cardiovascular phenotype|not provided
β˜…β˜…β˜†β˜†2024β†’ Residue 63
NM_004387.4(NKX2-5):c.291C>A (p.Tyr97Ter)Pathogenic
Cardiovascular phenotype|Atrial septal defect 7
β˜…β˜…β˜†β˜†2024β†’ Residue 97
NM_004387.4(NKX2-5):c.270dup (p.Ala91fs)Pathogenic
Atrial septal defect 7
β˜…β˜…β˜†β˜†2023β†’ Residue 91
NM_004387.4(NKX2-5):c.212del (p.Ala71fs)Pathogenic
Atrial septal defect 7|Cardiovascular phenotype
β˜…β˜…β˜†β˜†2023β†’ Residue 71
NM_004387.4(NKX2-5):c.701C>A (p.Ser234Ter)Pathogenic
not provided|Atrial septal defect 7
β˜…β˜…β˜†β˜†2023β†’ Residue 234
NM_004387.4(NKX2-5):c.605_606del (p.Leu202fs)Pathogenic
Atrial septal defect 7|not provided|Inborn genetic diseases
β˜…β˜…β˜†β˜†2022β†’ Residue 202
NM_004387.4(NKX2-5):c.478_480delinsGTACCGTT (p.Gln160fs)Pathogenic
Abnormal cardiovascular system morphology|not provided
β˜…β˜…β˜†β˜†2017β†’ Residue 160
NM_004387.4(NKX2-5):c.571T>C (p.Tyr191His)Likely pathogenic
Atrial septal defect 7
β˜…β˜†β˜†β˜†2025β†’ Residue 191
NM_004387.4(NKX2-5):c.63_64delinsGA (p.Gln22Lys)Likely pathogenic
Atrial septal defect 7
β˜…β˜†β˜†β˜†2025β†’ Residue 22
NM_004387.4(NKX2-5):c.559C>T (p.Gln187Ter)Likely pathogenic
Atrial septal defect 7
β˜…β˜†β˜†β˜†2025β†’ Residue 187
View on ClinVar β†—
Related Genes

No related genes found for this gene.

Tissue Expression

No tissue expression data available for this gene.

Gene Interaction Network

No interaction data available for this gene.

PROTEIN STRUCTURE
Preparing viewer…
PDB3RKQ Β· 1.70 Γ… Β· X-ray
View on RCSB β†—
Constraintβ“˜
LOEUFβ“˜
0.32Highly Constrained
pLIβ“˜
1.00Intolerant
Observed/Expected LoF0.12 [0.06–0.32]
RankingsWhere NKX2-5 stands among ~20K protein-coding genes
  • #1,809of 20,598
    Most Researched225 Β· top 10%
  • #616of 5,498
    Most Pathogenic Variants126 Β· top quartile
  • #1,300of 17,882
    Most Constrained (LOEUF)0.32 Β· top 10%
Genes detectedNKX2-5
Sources retrieved31 papers
Response timeβ€”
πŸ“„ Sources
31β–Ό
1
Lipid droplet-associated lncRNA LIPTER preserves cardiac lipid metabolism.
PMID: 37264180
Nat Cell Biol Β· 2023
1.00
2
Human heart-forming organoids recapitulate early heart and foregut development.
PMID: 33558697
Nat Biotechnol Β· 2021
0.90
3
NKX2-5 regulates human cardiomyogenesis via a HEY2 dependent transcriptional network.
PMID: 29636455
Nat Commun Β· 2018
0.84
4
Human Genetics of Tetralogy of Fallot and Double-Outlet Right Ventricle.
PMID: 38884738
Adv Exp Med Biol Β· 2024
0.80
5
Modeling a variant of unknown significance in the Drosophila ortholog of the human cardiogenic gene NKX2.5.
PMID: 37691628
Dis Model Mech Β· 2023
0.80