HK3
Chr 5hexokinase 3
Also known as: HKIII, HXK3
Hexokinase 3 catalyzes the phosphorylation of glucose to glucose-6-phosphate, the initial step of glycolysis and glucose metabolism pathways. Biallelic mutations cause severe infantile-onset epileptic encephalopathy with developmental delay, hypotonia, and movement disorders. This gene follows autosomal recessive inheritance and is not highly constrained against loss-of-function variants.
Population Genetics & Constraint
gnomAD v4 — loss-of-function & missense intolerance
Highly tolerant — LoF variants common in population
Mild missense constraint
The highest-scoring mechanism for this gene is dominant-negative.
Note: In-silico variant effect predictors (SIFT, PolyPhen, REVEL, CADD) may underestimate pathogenicity of missense variants in genes with GOF or DN mechanisms. Consider functional evidence and clinical context.
Predictions from Badonyi M, Marsh JA. PLoS ONE. 2024;19(8):e0307312.
ClinVar Variant Classifications
291 submitted variants in ClinVar
Classification Summary
Curated Variants Distribution
Classified variants from ClinVar · 5 ACMG categories
| Classification | LoF | Missense + Inframe | Non-coding | Synonymous | Total |
|---|---|---|---|---|---|
Pathogenic | 0 | 0 | 52 | 0 | 52 |
Likely Pathogenic | 0 | 0 | 2 | 0 | 2 |
VUS | 0 | 191 | 4 | 1 | 196 |
Likely Benign | 0 | 14 | 2 | 5 | 21 |
Benign | 0 | 2 | 0 | 2 | 4 |
| Total | 0 | 207 | 60 | 8 | 275 |
LoF = frameshift, stop gained/lost, canonical splice · Counts from ClinVar esearch · Updated hourly
View in ClinVar →Protein Context — Lollipop Plot
HK3 · protein map & ClinVar variants
Showing all ClinVar variants across the protein. Search a specific variant to highlight its position.
External Resources
Links to major genomics databases and tools
Clinical Trials
Active and recruiting trials from ClinicalTrials.gov
No active trials found for this gene.
Search ClinicalTrials.gov →External Resources
Links to major genomics databases and tools