Is ERCC3 p.Gly336= (c.1008G>A) pathogenic?

ERCC3 p.Gly336= (c.1008G>A) is classified Benign/Likely benign in ERCC3 (ClinVar, Multiple submitters, 5 submitters; last evaluated 2026-07-01). Rare (popmax 0.816%, afr); Associated with xeroderma pigmentosum.

What condition is associated with ERCC3 p.Gly336= (c.1008G>A)?

ERCC3 p.Gly336= (c.1008G>A) is associated with xeroderma pigmentosum (ClinVar).

How common is ERCC3 p.Gly336= (c.1008G>A) in the general population?

ERCC3 p.Gly336= (c.1008G>A) is rare (popmax 0.816%, afr) (gnomAD).

How is Xeroderma pigmentosum inherited?

Typically Autosomal recessive (Orphanet). A genetic counselor can assess individual risk for a family.

ERCC3 p.Gly336=

c.1008G>A · rs115924997 · VCV695452

Benign/Likely benign Multiple submitters

Classification

Benign/Likely benign

ClinVar

Review

Multiple submitters ★★☆☆

ClinVar · 5 submitters

gnomAD v4.1

Rare

rare (popmax 0.816%, afr)

Conditions

xeroderma pigmentosum

Computational evidence

Protein change
Missense predictors do not apply to this variant type; conservation carries the signal.
REVEL	0.578	indeterminate
Splicing
SpliceAI	—	not assessed · no allele here is in the release
Constraint at this position
Conservation	phyloP -1.3	GERP -4
Overall
CADD	3.669	PHRED · no single calibrated threshold — expert panels disagree

Population frequency

gnomAD v4.1 · exomes + genomes

Grpmax group 0.816% African / African-American · 612/75,032 alleles

Filtering AF 0.762% ClinGen BA1/BS1 input FAF95, joint · FAF99 0.741%

Overall 0.0453% 731/1,614,092 alleles · rare

Ancestry group	Frequency	1 in
African / African-Americangrpmax	0.816%	123
Admixed American	0.09%	1,112
Remaining individualsnot grpmax-eligible	0.0752%	1,330
Middle Eastern	0.0495%	2,021
European (non-Finnish)	0.00127%	78,665

Rarity supports pathogenicity (ACMG PM2); frequency above a disease-specific BA1/BS1 threshold argues against it. A variant frequent in one ancestry group can be near-absent in others, so a single global figure can mislead.

Variant & gene context

Gene: ERCC3
Protein: p.Gly336=
Coding: c.1008G>A
MANE Select: NM_000122
dbSNP: rs115924997
Type: single nucleotide variant
Location: chr2:127288679 (GRCh38)
Gene constraint: LOEUF 0.797 · pLI <0.01 (gnomAD)
Structure: AlphaFold pLDDT 76.34 · 56 PDB
Residue 336: the helicase atp-binding domain; a β-strand

Full ERCC3 gene report on Sugi Atlas → Gene function, pathways, protein structure, interactions & more

Disease context

xeroderma pigmentosum — disease report on Sugi Atlas → Associated genes, phenotypes, clinical trials & treatments

For Xeroderma pigmentosum (Orphanet):

Inheritance: Autosomal recessive
Onset: All ages
Prevalence: 1-9 / 1 000 000 (United States)

Similar variants

ERCC3 c.471+1G>A Pathogenic ★★ same condition
ERCC3 c.657+1G>A Likely pathogenic ★★ same condition
ERCC3 p.Arg109Ter Pathogenic/Likely pathogenic ★★ same condition
ERCC3 p.Arg195Ter Pathogenic ★★ same condition
ERCC3 p.Glu434Ter Pathogenic/Likely pathogenic ★★ same condition
ERCC3 p.Glu105Gly Uncertain significance ★★ ⚠ same condition
ERCC3 p.Glu48Asp Uncertain significance ★★ ⚠ same condition
ERCC3 p.Glu48Gly Uncertain significance ★★ ⚠ same condition

Built on 18 open, versioned datasets — ClinVar, gnomAD, AlphaMissense, REVEL, ClinGen & more — plus Sugi Variant's own cross-source analysis. Source data 2026-01–2026-10, ClinVar 2026-10. Full sources & versions →

Cite Sugi Variant

Gür T. Sugi Variant: A Deterministic Per-Variant Germline Reference from a Knowledge Graph for Humans and AI Agents. 2026. doi:10.5281/zenodo.21509445. This variant: https://sugi.bio/variant/ercc3-p-gly336 (accessed [today's date]).

Preprint & method: sugi.bio/variant/method Machine-readable: this page as Markdown