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Updated: Jan 14, 2026

Identification and Classification of Position-specific GABAA Receptor Subunit Missense Variants for Their Role In Hippocampal Pyramidal Neurons
Published on: June 6, 2025
Novel PAK1 variants related to a variable phenotypic spectrum ranging from mild developmental delay to infantile
Ting Wang1, Shijia Ouyang1, Dongfang Zou2
1Children's Medical Center of Peking University First Hospital, Beijing 102627, China.
Objective:
To identify the novel variants and explore the new phenotypes of patients with PAK1-related disorder.
Methods:
Five patients with PAK1 variants were identified by whole-exon sequencing. Damaging effects of variants were analyzed using protein modelling.
Results:
In this study, 5 patients were identified with 5 de novo PAK1 variants, including p.Ile312Ser, p.Asp407Asn, p.Met453Thr, p.Leu470Pro, and p.Ile476Thr. All variants were missense, and one of which was a mosaic variant (Leu470Pro), with a variant allele fraction of 13.4 % (13/97). Four of five patients with PAK1 variants had epilepsy, the seizure types included focal seizures, generalized tonic-clonic seizure and epileptic spasms. One patient diagnosed with infantile epileptic spasms syndrome (IESS). Four patients had macrocephaly. One patient only had mild developmental delay (DD) and normal head circumference. All missense variants identified in this study were predicted to be "damaging" by multiple in silico tools and to alter the hydrogen bonds with surrounding residues and/or protein stability. Notably, the variant Asp407Asn associated with a milder phenotype is predicted to have increased hydrogen bonds with ATP in contrast to our other reported variants. Spatial and temporal expression analysis showed that PAK1 had three peak expressions in infant, adolescent and early adult brain subregions. Collectively, in our study (n = 5) and published studies (n = 11), all variants were missense variants. PAK1-related disorders encompass a wide phenotypic spectrum, including macrocephaly, epilepsy and DD/intellectual disability (ID). Seizures were observed in 81.25 % (13/16) of patients, and 53.8 % (7/13) patients with epilepsy had febrile seizure.
Conclusions:
All variants of PAK1-related disorders were missense variants. In this study, five de novo variants were included, and Leu470Pro was the first reported mosaic variant in PAK1. PAK1-related disorders encompass a wide phenotypic spectrum, including macrocephaly, epilepsy and DD/ID. IESS is a rare newly recognized phenotype of PAK1-related epilepsy. More than half of patients with epilepsy had febrile seizure.
Insights
This study identified five new de novo PAK1 variants in patients with PAK1-related disorders, revealing a broad spectrum of phenotypes including epilepsy and macrocephaly. The Leu470Pro variant was the first reported mosaic variant in PAK1.
Area of Science:
- Genetics
- Molecular Biology
- Neurology
Background:
- PAK1-related disorder is a genetic condition associated with various neurological and developmental abnormalities.
- Understanding novel variants and their phenotypic spectrum is crucial for diagnosis and management.
Purpose of the Study:
- To identify novel variants in the PAK1 gene.
- To explore the phenotypic spectrum of patients with PAK1-related disorders.
Main Methods:
- Whole-exome sequencing was used to identify variants in five patients.
- Protein modeling was employed to analyze the damaging effects of identified variants.
Main Results:
- Five de novo missense PAK1 variants were identified, including the first reported mosaic variant (Leu470Pro).
- Patients exhibited a range of phenotypes, including epilepsy (81.25%), macrocephaly, and developmental delay/intellectual disability.
- Infantile epileptic spasms syndrome (IESS) was identified as a rare phenotype associated with PAK1-related epilepsy.
Conclusions:
- All identified variants in PAK1-related disorders are missense.
- PAK1-related disorders present a wide phenotypic spectrum, with epilepsy and macrocephaly being common features.
- Febrile seizures are prevalent in over half of patients with epilepsy.
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