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10 sources retrieved · Most recent: April 2026 · Index updated 14 days ago
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PKNOX1
PBX/knotted 1 homeobox 1
Chromosome 21 · 21q22.3
NCBI Gene: 5316Ensembl: ENSG00000160199.15HGNC: HGNC:9022UniProt: B4DGV5
70PubMed Papers
20Diseases
0Drugs
0Pathogenic Variants
FUNCTIONAL ROLE
Transcription Factor
DATA QUALITY
✓ Experimental GO Evidence✓ Swiss-Prot Reviewed
protein bindingsequence-specific double-stranded DNA bindingDNA-binding transcription factor activityRNA polymerase II cis-regulatory region sequence-specific DNA bindingneurodegenerative diseasehypertensionpericarditisneoplasm
✦AI Summary

PKNOX1 (PBX/knotted 1 homeobox 1) is a homeodomain-containing transcription factor that functions as a transcriptional activator, particularly in cooperation with PBX proteins 1. The protein contains 436 amino acids and belongs to the TALE (three-amino-acid loop extension) homeodomain family, showing close homology to mouse Meis1 and plant Knotted1 proteins 1. PKNOX1 activates transcription through sequence-specific DNA binding and requires cofactors like PBX1A and HOXA1 for optimal activity. The gene is located on chromosome 21.3 and undergoes alternative splicing to produce multiple isoforms, including PKNOX1B which lacks 30 amino acids at the C-terminus 2. PKNOX1 shows broad tissue expression and plays roles in development and cellular regulation 12. In disease contexts, PKNOX1 has emerged as a potential cancer biomarker, showing overexpression across multiple tumor types and association with poor prognosis 3. The protein promotes cancer cell proliferation, migration, and invasion in hepatocellular carcinoma and breast cancer 3. Additionally, PKNOX1 contributes to acute kidney injury through interaction with PKM2 and regulation of ferroptosis pathways 4. In neurological contexts, PKNOX1 binding sites are enriched for neuropsychiatric disorder risk variants, and the gene functions as a dosage-sensitive hub in Down syndrome, where chromosome 21 trisomy disrupts neurodevelopmental programs 56.

Sources cited
1
PKNOX1 encodes a 436 amino acid homeodomain-containing transcription factor related to mouse Meis1, located on chromosome 21q22.3
PMID: 9143494
2
PKNOX1 undergoes alternative splicing producing PKNOX1B isoform lacking 30 amino acids at C-terminus, with broad tissue expression
PMID: 15468914
3
PKNOX1 is overexpressed in multiple cancer types, associated with poor prognosis, and promotes cancer cell proliferation and invasion
PMID: 40625743
4
PKNOX1 interacts with PKM2 and regulates ALOX12-mediated ferroptosis in acute kidney injury
PMID: 41136411
5
PKNOX1 binding sites are enriched for neuropsychiatric disorder risk variants
PMID: 38831039
6
PKNOX1 functions as a dosage-sensitive transcriptional hub in Down syndrome affecting neurodevelopmental programs
PMID: 41545595
Disease Associationsⓘ20
neurodegenerative diseaseOpen Targets
0.46Moderate
hypertensionOpen Targets
0.21Weak
pericarditisOpen Targets
0.20Weak
neoplasmOpen Targets
0.09Suggestive
melanomaOpen Targets
0.08Suggestive
gastric adenocarcinomaOpen Targets
0.08Suggestive
cancerOpen Targets
0.08Suggestive
hepatocellular carcinomaOpen Targets
0.07Suggestive
reticular dysgenesisOpen Targets
0.06Suggestive
immunodeficiency 18Open Targets
0.06Suggestive
breast cancerOpen Targets
0.06Suggestive
combined immunodeficiency with skin granulomasOpen Targets
0.06Suggestive
hemoglobin D diseaseOpen Targets
0.05Suggestive
immunodeficiency 105Open Targets
0.05Suggestive
isolated agammaglobulinemiaOpen Targets
0.05Suggestive
short-limb skeletal dysplasia with severe combined immunodeficiencyOpen Targets
0.05Suggestive
immunodeficiency 112Open Targets
0.05Suggestive
BENTA diseaseOpen Targets
0.05Suggestive
severe combined immunodeficiency due to LAT deficiencyOpen Targets
0.05Suggestive
X-Linked Combined Immunodeficiency DiseasesOpen Targets
0.05Suggestive
Pathogenic Variants
No pathogenic variants reported on ClinVar for this gene.
View on ClinVar ↗
Related Genes
PBX1Protein interaction100%PBX2Protein interaction97%HOXB1Protein interaction96%HOXB2Protein interaction86%PBX4Protein interaction82%TRNAU1APProtein interaction78%
Tissue Expression6 tissues
Ovary
100%
Brain
86%
Lung
61%
Heart
59%
Liver
58%
Bone Marrow
47%
Gene Interaction Network
Click a node to explore
PKNOX1PBX1PBX2HOXB1HOXB2PBX4TRNAU1AP
PROTEIN STRUCTURE
Preparing viewer…
PDB1X2N · NMR
View on RCSB ↗
Constraintⓘ
LOEUFⓘ
0.59Moderately Constrained
pLIⓘ
0.78Intermediate
Observed/Expected LoF0.35 [0.21–0.59]
RankingsWhere PKNOX1 stands among ~20K protein-coding genes
  • #6,746of 20,598
    Most Researched70
  • #4,054of 17,882
    Most Constrained (LOEUF)0.59 · top quartile
Genes detectedPKNOX1
Sources retrieved10 papers
Response time—
📄 Sources
10▼
1
Cloning of a novel homeobox-containing gene, PKNOX1, and mapping to human chromosome 21q22.3.
PMID: 9143494
Genomics · 1997
1.00
2
Systematic pan-cancer analysis identifies PKNOX1 as a potential prognostic and immunological biomarker and its functional validation.
PMID: 40625743
Front Immunol · 2025
0.90
3
Inhibition of PGK1 ameliorates acute kidney injury through inactivating the PKM2/ALOX12/ferroptosis pathway in a study with male mice.
PMID: 41136411
Nat Commun · 2025
0.80
4
[Molecular cloning for an alternatively splicing cDNA of human PKNOX1 gene and it's expression analysis].
PMID: 15468914
Yi Chuan Xue Bao · 2004
0.70
5
Lnc-PKNOX1-1 inhibits tumor progression in cutaneous malignant melanoma by regulating NF-κB/IL-8 axis.
PMID: 37843471
Carcinogenesis · 2023
0.60