Is ACTC1 p.Lys361= (c.1083G>A) pathogenic?

ACTC1 p.Lys361= (c.1083G>A) is classified Likely benign in ACTC1 (ClinVar, Multiple submitters, 2 submitters; last evaluated 2024-07-29). Very rare (popmax 0.00167%, amr); Associated with hypertrophic cardiomyopathy.

What condition is associated with ACTC1 p.Lys361= (c.1083G>A)?

ACTC1 p.Lys361= (c.1083G>A) is associated with hypertrophic cardiomyopathy (ClinVar).

How common is ACTC1 p.Lys361= (c.1083G>A) in the general population?

ACTC1 p.Lys361= (c.1083G>A) is very rare (popmax 0.00167%, amr) (gnomAD).

ACTC1 p.Lys361=

c.1083G>A · rs754736799 · VCV513570

Likely benign Multiple submitters

Classification

Likely benign

ClinVar

Review

Multiple submitters ★★☆☆

ClinVar · 2 submitters

gnomAD v4.1

Rare

very rare (popmax 0.00167%, amr)

Conditions

hypertrophic cardiomyopathy

Computational evidence

Protein change
Missense predictors do not apply to this variant type; conservation carries the signal.
Splicing
SpliceAI	—	not assessed · no allele here is in the release
Constraint at this position
Conservation	phyloP 0.83	GERP 1.4, phastCons 1
Overall
CADD	9.402	PHRED · no single calibrated threshold — expert panels disagree

Population frequency

gnomAD v4.1 · exomes + genomes

Grpmax group 0.00167% Admixed American · 1/60,024 alleles

Overall 6.84e-05% 1/1,461,868 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: ACTC1
Protein: p.Lys361=
Coding: c.1083G>A
MANE Select: NM_005159
dbSNP: rs754736799
Type: single nucleotide variant
Location: chr15:34790463 (GRCh38)
Gene constraint: LOEUF 0.511 · pLI 0.97 · ClinGen HI 1/3 (gnomAD)
Structure: AlphaFold pLDDT 95.47 · 16 PDB
Residue 361: an α-helix

Full ACTC1 gene report on Sugi Atlas → Gene function, pathways, protein structure, interactions & more

Disease context

hypertrophic cardiomyopathy — disease report on Sugi Atlas → Associated genes, phenotypes, clinical trials & treatments

Similar variants

ACTC1 p.Lys361Glu Uncertain significance ★ ⚠ same residue
ACTC1 p.Glu101Lys Pathogenic ★★★ same condition
ACTC1 p.Gly345Val Uncertain significance ★★★ ⚠ same condition
ACTC1 p.Pro266Leu Uncertain significance ★★★ ⚠ same condition
ACTC1 p.Val56Ile Uncertain significance ★★★ ⚠ same condition
ACTC1 c.-12A>G Uncertain significance ★★ same condition
ACTC1 c.-1G>A Uncertain significance ★★ same condition
ACTC1 p.Ala60Thr 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/actc1-p-lys361 (accessed [today's date]).

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