USP7

Chr 16AD

ubiquitin specific peptidase 7

Also known as: C16DELp13.2, DEL16P13.2, HAFOUS, HAUSP, TEF1

USP7 encodes a deubiquitinating enzyme that removes ubiquitin from target proteins including p53, PTEN, and components involved in DNA repair and chromatin regulation. Mutations cause Hao-Fountain syndrome, a neurodevelopmental disorder with autosomal dominant inheritance. This gene is highly constrained against loss-of-function variants in the general population.

OMIMResearchSummary from RefSeq, OMIM, UniProt
LOFmechanismADLOEUF 0.061 OMIM phenotype
Clinical SummaryUSP7
🧬
Gene-Disease Validity (ClinGen)
Hao-Fountain syndrome · ADDefinitive

Definitive — sufficient evidence for diagnostic panels

Population Constraint (gnomAD)
Highly constrained gene — heterozygous loss-of-function variants are very rare in the population (pLI 1.00). One damaged copy is likely sufficient to cause disease.

Population Genetics & Constraint

gnomAD v4 — loss-of-function & missense intolerance

Dual constrained — LoF & missense intolerant
LoF Constraint
0.06LOEUF
pLI 1.000
Z-score 8.04
OE 0.01 (0.000.06)
Highly constrained

Among the most LoF-intolerant genes (~top 3%)

Missense Constraint
5.65Z-score
OE missense 0.36 (0.320.41)
225 obs / 621.1 exp
Constrained

Extremely missense-constrained (top ~0.01%)

Observed / Expected Ratios
LoF OE0.01 (0.000.06)
00.351.4
Missense OE0.36 (0.320.41)
00.61.4
Synonymous OE1.20
01.21.6
LoF obs/exp: 1 / 77.2Missense obs/exp: 225 / 621.1Syn Z: -2.44
Curated Mechanism (G2P)Gene2Phenotype (DDG2P) ↗
strongUSP7-related developmental disorderLOFAD
DN
0.2997th %ile
GOF
0.3293th %ile
LOF
0.73top 10%

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

LOFprediction above median · 1 literature citation · LOEUF 0.06

Literature Evidence

LOFThe consistency of clinical features among all individuals presented regardless of de novo USP7 variant type supports haploinsufficiency as a mechanism for pathogenesis and refines the clinical impact faced by affected individuals and caregivers.PMID:30679821

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

USP7 · 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.

Search ClinicalTrials.gov →
Clinical Literature
Open Research Assistant →