SHANK3
Chr 22ADSH3 and multiple ankyrin repeat domains 3
Also known as: DEL22q13.3, PROSAP2, PSAP2, SCZD15, SPANK-2
SHANK3 encodes a multidomain scaffold protein that connects neurotransmitter receptors, ion channels, and membrane proteins to the actin cytoskeleton in postsynaptic densities and regulates synapse formation and dendritic spine maturation. Loss-of-function mutations cause autosomal dominant Phelan-McDermid syndrome (22q13.3 deletion syndrome) characterized by autism spectrum disorder, intellectual disability, and neurological symptoms, as well as schizophrenia type 15. The protein is highly intolerant to loss-of-function variants, indicating haploinsufficiency as the primary disease mechanism.
Definitive — sufficient evidence for diagnostic panels
Population Genetics & Constraint
gnomAD v4 — loss-of-function & missense intolerance
Among the most LoF-intolerant genes (~top 3%)
Highly missense-constrained (top ~0.1%)
The highest-scoring mechanism for this gene is loss-of-function (haploinsufficiency).
Literature Evidence
Predictions from Badonyi M, Marsh JA. PLoS ONE. 2024;19(8):e0307312. Mechanism ranking also informed by gnomAD constraint, ClinVar, and ClinGen data.
ClinVar Variant Classifications
0 submitted variants in ClinVar
Protein Context — Lollipop Plot
SHANK3 · protein map & ClinVar variants
Showing all ClinVar variants across the protein. Search a specific variant to highlight its position.
3D Protein StructureAlphaFold
External Resources
Links to major genomics databases and tools
Clinical Trials
Active and recruiting trials from ClinicalTrials.gov
GENES AND AUTISM - IPSC
NOT YET RECRUITINGMulticenter Study of Patients With SHANK3 Mutations: Identification of Genes Modificators in Phelan-McDermid Syndrome (EUQ13)
NOT YET RECRUITINGRB001 Gene Therapy Study in Children With SHANK3-related Phelan McDermid Syndrome (PMS)
RECRUITINGProspective Study to Determine the Prevalence of Signs of Central Sensitization in Adults With ASD Without Intellectual Developmental Disorders
RECRUITINGJAG201 Gene Therapy Study in Children & Adults With SHANK3 Haploinsufficiency
RECRUITINGExternal Resources
Links to major genomics databases and tools