PWWP2A

Chr 5

PWWP domain containing 2A

Also known as: MST101

The protein acts as a chromatin-binding adapter that regulates histone acetylation levels at actively transcribed genes by forming subcomplexes with the NuRD chromatin remodeling complex. Mutations cause neurodevelopmental disorders with intellectual disability, developmental delay, and various congenital anomalies, inherited in an autosomal dominant pattern. This gene is highly constrained against loss-of-function mutations, indicating that such variants are likely to be pathogenic when identified in patients with compatible clinical features.

OMIMResearchSummary from RefSeq, UniProt
LOFmechanismLOEUF 0.30
Clinical SummaryPWWP2A
Population Constraint (gnomAD)
Highly constrained gene — heterozygous loss-of-function variants are very rare in the population (pLI 0.98). One damaged copy is likely sufficient to cause disease.
Some data sources returned errors (1)

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Population Genetics & Constraint

gnomAD v4 — loss-of-function & missense intolerance

LoF intolerant — likely haploinsufficient
LoF Constraint
0.30LOEUF
pLI 0.983
Z-score 3.86
OE 0.09 (0.040.30)
Highly constrained

Highly LoF-intolerant (top ~10% of genes)

Missense Constraint
2.35Z-score
OE missense 0.67 (0.600.74)
268 obs / 400.2 exp
Mild constraint

Moderately missense-constrained (top ~2.5%)

Observed / Expected Ratios
LoF OE0.09 (0.040.30)
00.351.4
Missense OE0.67 (0.600.74)
00.61.4
Synonymous OE0.90
01.21.6
LoF obs/exp: 2 / 21.2Missense obs/exp: 268 / 400.2Syn Z: 1.01
DN
0.2199th %ile
GOF
0.1999th %ile
LOF
0.86top 5%

The highest-scoring mechanism for this gene is loss-of-function (haploinsufficiency).

LOFprediction above median · LOEUF 0.30

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

PWWP2A · protein map & ClinVar variants

Showing all ClinVar variants across the protein. Search a specific variant to highlight its position.

3D Protein StructureAlphaFold

Clinical Trials

Active and recruiting trials from ClinicalTrials.gov

No active trials found for this gene.

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Clinical Literature
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