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GeneE
26 sources retrieved Β· Most recent: April 2026 Β· Index updated 14 days ago
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SHANK3
SH3 and multiple ankyrin repeat domains 3
Chromosome 22 Β· 22q13.33
NCBI Gene: 85358Ensembl: ENSG00000292254.1HGNC: HGNC:14294UniProt: Q9BYB0
167PubMed Papers
2Diseases
0Drugs
194Pathogenic Variants
RESEARCH IMPACT
TrendingVariant-Rich
CLINICAL
OMIM Disease Gene
DATA QUALITY
βœ“ Experimental GO Evidenceβœ“ Swiss-Prot Reviewed
vocalization behaviorprotein bindingadult behaviorlearningPhelan-McDermid syndromeSchizophrenia 15
✦AI Summary

SHANK3 is a postsynaptic scaffolding protein that orchestrates dendritic spine and synapse formation, maturation, and maintenance 1. It functions as a central hub interconnecting glutamate receptors (NMDA, AMPA, and metabotropic) to the actin-based cytoskeleton through interactions with GKAP/PSD-95 and HOMER complexes, thereby regulating synaptic transmission and plasticity 1. SHANK3 controls actin dynamics through interactions with Arp2/3 and WAVE1 complexes, influencing dendritic spine structure and growth cone motility 2. Haploinsufficiency of SHANK3 causes Phelan-McDermid syndrome, characterized by developmental delay, language impairment, and autistic behaviors 3. SHANK3 mutations are prominently associated with autism spectrum disorder (ASD), representing a highly penetrant monogenic risk factor 4. Recent findings reveal SHANK3 dysfunction impairs glutamate signaling and myelination in oligodendrocytes, suggesting pathways beyond neuronal synapses 5. In ASD models, aberrant Wnt-glycolysis signaling in the anterior cingulate cortex contributes to social deficits through disrupted synaptic maturation 6. SHANK3 mutations affect both local and global brain connectivity patterns, with behavioral consequences including social impairments, learning deficits, and repetitive behaviors 4. These findings establish SHANK3 as a critical regulator of synaptic architecture and function underlying neurodevelopmental disorders.

Sources cited
1
SHANK3 haploinsufficiency causes Phelan-McDermid syndrome with neurodevelopmental manifestations
PMID: 37392087
2
SHANK3 is a postsynaptic density protein involved in synapse formation, maturation, and maintenance
PMID: 22749736
3
SHANK proteins are postsynaptic scaffolding proteins at glutamatergic synapses; mutations associated with autism
PMID: 28179641
4
SHANK3 mutation impairs glutamate signaling and myelination in oligodendrocytes
PMID: 39392881
5
SHANK3 mutation is a highly penetrant monogenic risk factor for autism; causes altered brain connectivity and behavioral deficits
PMID: 31189958
6
Excessive Wnt-glycolysis signaling in SHANK3 mutant mice mediates social dysfunction through disrupted synaptic maturation
PMID: 37078424
Disease Associationsβ“˜2
Phelan-McDermid syndromeUniProt
Schizophrenia 15UniProt
Pathogenic Variants194
NM_001372044.2(SHANK3):c.3904dup (p.Ala1302fs)Pathogenic
Phelan-McDermid syndrome|Inborn genetic diseases|not provided|Autism spectrum disorder|Neurodevelopmental disorder|Schizophrenia 15;Phelan-McDermid syndrome|SHANK3-related disorder
β˜…β˜…β˜†β˜†2026β†’ Residue 1302
NM_001372044.2(SHANK3):c.3865dup (p.Ala1289fs)Pathogenic
Phelan-McDermid syndrome
β˜…β˜…β˜†β˜†2025β†’ Residue 1289
NM_001372044.2(SHANK3):c.3649_3650del (p.Leu1217fs)Pathogenic
not provided|SHANK3-related disorder|Autism spectrum disorder|Phelan-McDermid syndrome
β˜…β˜…β˜†β˜†2025β†’ Residue 1217
NM_001372044.2(SHANK3):c.2455+1G>APathogenic
not provided|Phelan-McDermid syndrome|Inborn genetic diseases|Intellectual disability|Neurodevelopmental abnormality
β˜…β˜…β˜†β˜†2025
NM_001372044.2(SHANK3):c.3989_4001del (p.Arg1330fs)Pathogenic
not provided|SHANK3-related disorder|Phelan-McDermid syndrome|Intellectual disability|Inborn genetic diseases|See cases
β˜…β˜…β˜†β˜†2025β†’ Residue 1330
NM_001372044.2(SHANK3):c.4090C>T (p.Gln1364Ter)Pathogenic
not provided|Phelan-McDermid syndrome
β˜…β˜…β˜†β˜†2024β†’ Residue 1364
NM_001372044.2(SHANK3):c.496C>T (p.Arg166Ter)Pathogenic
not provided|Seizure;Global developmental delay|Inborn genetic diseases
β˜…β˜…β˜†β˜†2024β†’ Residue 166
NM_001372044.2(SHANK3):c.2455+1G>CPathogenic
not provided
β˜…β˜…β˜†β˜†2024
NM_001372044.2(SHANK3):c.4874_4878dup (p.Pro1627fs)Pathogenic
not provided|Inborn genetic diseases
β˜…β˜…β˜†β˜†2024β†’ Residue 1627
NM_001372044.2(SHANK3):c.4311_4312del (p.Arg1438fs)Pathogenic
not provided|Phelan-McDermid syndrome
β˜…β˜…β˜†β˜†2023β†’ Residue 1438
NM_001372044.2(SHANK3):c.3952_3964del (p.Gln1318fs)Pathogenic
Phelan-McDermid syndrome|Phelan-McDermid syndrome;Schizophrenia 15
β˜…β˜…β˜†β˜†2023β†’ Residue 1318
NM_001372044.2(SHANK3):c.5197C>T (p.Arg1733Ter)Pathogenic
not provided|SHANK3-related disorder
β˜…β˜…β˜†β˜†2023β†’ Residue 1733
NM_001372044.2(SHANK3):c.4290_4291del (p.Val1432fs)Pathogenic
Intellectual disability|Phelan-McDermid syndrome|not provided
β˜…β˜…β˜†β˜†2022β†’ Residue 1432
NM_001372044.2(SHANK3):c.3977_3989del (p.Leu1326fs)Pathogenic
Inborn genetic diseases|not provided
β˜…β˜…β˜†β˜†2022β†’ Residue 1326
NM_001372044.2(SHANK3):c.2838C>GPathogenic
not provided|Phelan-McDermid syndrome
β˜…β˜…β˜†β˜†2022
NM_001372044.2(SHANK3):c.3904delPathogenic
Phelan-McDermid syndrome|Intellectual disability|Neurodevelopmental delay|not provided|Schizophrenia 15;Phelan-McDermid syndrome
β˜…β˜…β˜†β˜†2022
NM_001372044.2(SHANK3):c.5209C>T (p.Gln1737Ter)Pathogenic
Autistic behavior|not provided|Phelan-McDermid syndrome
β˜…β˜…β˜†β˜†2021β†’ Residue 1737
NM_001372044.2(SHANK3):c.2990del (p.Pro997fs)Pathogenic
Intellectual disability|Autism spectrum disorder
β˜…β˜…β˜†β˜†2020β†’ Residue 997
NM_001372044.2(SHANK3):c.4703_4704del (p.Val1568fs)Pathogenic
Phelan-McDermid syndrome|Intellectual disability
β˜…β˜…β˜†β˜†2019β†’ Residue 1568
NM_001372044.2(SHANK3):c.4627C>T (p.Gln1543Ter)Pathogenic
not provided|Inborn genetic diseases
β˜…β˜…β˜†β˜†2018β†’ Residue 1543
View on ClinVar β†—
Related Genes
CTTNProtein interaction98%SYNGAP1Protein interaction98%ARHGEF7Protein interaction98%BAIAP2Protein interaction98%DLGAP4Protein interaction98%LZTS3Protein interaction96%
Tissue Expression

No tissue expression data available for this gene.

Gene Interaction Network
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SHANK3CTTNSYNGAP1ARHGEF7BAIAP2DLGAP4LZTS3
PROTEIN STRUCTURE
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PDB7C7I Β· 2.28 Γ… Β· X-ray
View on RCSB β†—
RankingsWhere SHANK3 stands among ~20K protein-coding genes
  • #2,676of 20,598
    Most Researched167 Β· top quartile
  • #359of 5,498
    Most Pathogenic Variants194 Β· top 10%
Genes detectedSHANK3
Sources retrieved26 papers
Response timeβ€”
πŸ“„ Sources
26β–Ό
1
Updated consensus guidelines on the management of Phelan-McDermid syndrome.
PMID: 37392087
Am J Med Genet A Β· 2023
1.00
2
Shank3 mutation impairs glutamate signaling and myelination in ASD mouse model and human iPSC-derived OPCs.
PMID: 39392881
Sci Adv Β· 2024
0.90
3
SHANK3 as an autism spectrum disorder-associated gene.
PMID: 22749736
Brain Dev Β· 2013
0.80
4
SHANK proteins: roles at the synapse and in autism spectrum disorder.
PMID: 28179641
Nat Rev Neurosci Β· 2017
0.70
5
SHANK3 depletion leads to ERK signalling overdose and cell death in KRAS-mutant cancers.
PMID: 39266533
Nat Commun Β· 2024
0.64