Is BRCA2 p.Pro201Arg (c.602C>G) pathogenic?

BRCA2 p.Pro201Arg (c.602C>G) is classified Uncertain significance in BRCA2 (ClinVar, Single submitter, 2 submitters; last evaluated 2026-04-03). AlphaMissense: likely pathogenic (0.8808); Absent from gnomAD v4.1; Associated with hereditary breast carcinoma.

What condition is associated with BRCA2 p.Pro201Arg (c.602C>G)?

BRCA2 p.Pro201Arg (c.602C>G) is associated with hereditary breast carcinoma (ClinVar).

How common is BRCA2 p.Pro201Arg (c.602C>G) in the general population?

BRCA2 p.Pro201Arg (c.602C>G) is absent from gnomAD v4.1 (gnomAD).

How is Hereditary breast cancer inherited?

Typically Autosomal dominant, Multigenic/multifactorial (Orphanet). A genetic counselor can assess individual risk for a family.

What do computational predictors say about BRCA2 p.Pro201Arg (c.602C>G)?

AlphaMissense predicts likely pathogenic (score 0.8808) — an in-silico prediction, not a clinical call.

BRCA2 p.Pro201Arg

c.602C>G · rs397507822 · VCV51992

Uncertain significance Single submitter

Classification

Uncertain significance

ClinVar

Review

Single submitter ★☆☆☆

ClinVar · 2 submitters

AlphaMissense

likely pathogenic

0.8808 · ACMG-weighted

gnomAD v4.1

Absent

absent from gnomAD v4.1

Conditions

hereditary breast carcinoma

Computational evidence

Protein change
AlphaMissense	0.8808	likely pathogenic · top 2% in BRCA2
REVEL	0.461	indeterminate
Splicing
SpliceAI	—	not assessed · no allele here is in the release
Constraint at this position
Conservation	phyloP 7.5	GERP 2.3, phastCons 1
Regional constraint	o/e 1.03	unconstrained · MANE · 47 kb · p 0.059 · regional, not allelic
Overall
CADD	25.3	PHRED · no single calibrated threshold — expert panels disagree

AlphaMissense carries the ACMG weight for missense; REVEL and SaProt are independent agreement signals.

Population frequency

gnomAD v4.1 · exomes + genomes

Absent from gnomAD v4.1. Not observed in any sequenced alleles — a rarity signal (ACMG PM2-supporting), not evidence of pathogenicity on its own.

Variant & gene context

Gene: BRCA2
Protein: p.Pro201Arg
Coding: c.602C>G
MANE Select: NM_000059
dbSNP: rs397507822
Type: single nucleotide variant
Location: chr13:32326584 (GRCh38)
Gene constraint: LOEUF 0.803 · pLI <0.01 · ClinGen HI 3/3 (gnomAD)
Residue 201: an α-helix; a UniProt-annotated variant site (in bc)

Full BRCA2 gene report on Sugi Atlas → Gene function, pathways, protein structure, interactions & more

Disease context

hereditary breast carcinoma — disease report on Sugi Atlas → Associated genes, phenotypes, clinical trials & treatments

For Hereditary breast cancer (Orphanet):

Inheritance: Autosomal dominant, Multigenic/multifactorial
Onset: Adult, Elderly

Similar variants

BRCA2 p.Pro201fs Pathogenic ★★★ same residue
BRCA2 p.Pro201Ala Uncertain significance ★★ same residue
BRCA2 p.Pro201Leu Uncertain significance ★★ same residue
BRCA2 p.Pro201Ser Uncertain significance ★★ ⚠ same residue
BRCA2 p.Pro201Thr Uncertain significance ★ same residue
BRCA2 p.Pro201= Likely benign ★ same residue
BRCA2 c.316+2T>C Pathogenic ★★★ same condition
BRCA2 c.316+5G>A Pathogenic ★★★ 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/brca2-p-pro201arg (accessed [today's date]).

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