Is FSHR p.Ile545Thr (c.1634T>C) pathogenic?

FSHR p.Ile545Thr (c.1634T>C) is classified Pathogenic in FSHR (ClinVar, No assertion criteria, 1 submitter; last evaluated 2006-02-01). AlphaMissense: ambiguous (0.4157); Very rare (popmax 0.00329%, sas); Associated with ovarian hyperstimulation syndrome.

What condition is associated with FSHR p.Ile545Thr (c.1634T>C)?

FSHR p.Ile545Thr (c.1634T>C) is associated with ovarian hyperstimulation syndrome (ClinVar).

How common is FSHR p.Ile545Thr (c.1634T>C) in the general population?

FSHR p.Ile545Thr (c.1634T>C) is very rare (popmax 0.00329%, sas) (gnomAD).

How is Ovarian hyperstimulation syndrome inherited?

Typically Not applicable (Orphanet). A genetic counselor can assess individual risk for a family.

What do computational predictors say about FSHR p.Ile545Thr (c.1634T>C)?

AlphaMissense predicts ambiguous (score 0.4157) — an in-silico prediction, not a clinical call.

FSHR p.Ile545Thr

c.1634T>C · rs121909664 · VCV16253

Pathogenic No assertion criteria

Classification

Pathogenic

ClinVar

Review

No assertion criteria ☆☆☆☆

ClinVar · 1 submitter

AlphaMissense

ambiguous

0.4157 · ACMG-weighted

gnomAD v4.1

Rare

very rare (popmax 0.00329%, sas)

Missense predictors

2/2 damaging

REVEL, SaProt · AlphaMissense no call

Conditions

ovarian hyperstimulation syndrome

Computational evidence

Protein change
AlphaMissense	0.4157	ambiguous
REVEL	0.731	pathogenic-leaning
SaProt	LLR -11.07	damaging
⇒ REVEL and SaProt both call this damaging; AlphaMissense makes no call.
Splicing
SpliceAI	—	not assessed · no allele here is in the release
Constraint at this position
Conservation	phyloP 9.4	GERP 2.3, phastCons 1
Regional constraint	o/e 1.16	unconstrained · MANE · 192 kb · p 7.5e-06 · regional, not allelic
Overall
CADD	25.4	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

Grpmax group 0.00329% South Asian · 3/91,082 alleles

Filtering AF 0.000875% ClinGen BA1/BS1 input FAF95, joint · FAF99 0.000443%

Overall 0.000205% 3/1,461,838 alleles · very rare

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: FSHR
Protein: p.Ile545Thr
Coding: c.1634T>C
MANE Select: NM_000145
dbSNP: rs121909664
Type: single nucleotide variant
Location: chr2:48963187 (GRCh38)
Gene constraint: LOEUF 1.071 · pLI <0.01 (gnomAD)
Structure: AlphaFold pLDDT 81.87 · 5 PDB
Residue 545: an α-helix; a UniProt-annotated variant site (in ohss; displays promiscuous activation by both hcg and tsh together with detectable constitutive activity)

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

Disease context

ovarian hyperstimulation syndrome — disease report on Sugi Atlas → Associated genes, phenotypes, clinical trials & treatments

For Ovarian hyperstimulation syndrome (Orphanet):

Inheritance: Not applicable
Onset: Adolescent, Adult

Similar variants

FSHR p.Ile545Val Likely benign ★ ⚠ same residue
FSHR p.Arg229Gly Uncertain significance ★★ ⚠ same condition
FSHR p.Arg557Trp Uncertain significance ★★ ⚠ same condition
FSHR p.Glu300Lys Uncertain significance ★★ ⚠ same condition
FSHR p.Glu319Gly Uncertain significance ★★ ⚠ same condition
FSHR p.Ile230Val Uncertain significance ★★ ⚠ same condition
FSHR p.Ile382Thr Uncertain significance ★★ ⚠ same condition
FSHR p.Lys133= 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/fshr-p-ile545thr (accessed [today's date]).

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