Is ENG p.Leu370Pro (c.1109T>C) pathogenic?

ENG p.Leu370Pro (c.1109T>C) is classified Likely pathogenic in ENG (ClinVar, Single submitter, 1 submitter; last evaluated 2017-09-06). AlphaMissense: likely pathogenic (0.9765); Absent from gnomAD v4.1; Associated with Cardiovascular phenotype.

What condition is associated with ENG p.Leu370Pro (c.1109T>C)?

ENG p.Leu370Pro (c.1109T>C) is associated with Cardiovascular phenotype (ClinVar).

How common is ENG p.Leu370Pro (c.1109T>C) in the general population?

ENG p.Leu370Pro (c.1109T>C) is absent from gnomAD v4.1 (gnomAD).

What do computational predictors say about ENG p.Leu370Pro (c.1109T>C)?

AlphaMissense predicts likely pathogenic (score 0.9765) — an in-silico prediction, not a clinical call.

ENG p.Leu370Pro

c.1109T>C · rs1830547696 · VCV1794612

Likely pathogenic Single submitter

Classification

Likely pathogenic

ClinVar

Review

Single submitter ★☆☆☆

ClinVar · 1 submitter

AlphaMissense

likely pathogenic

0.9765 · ACMG-weighted

gnomAD v4.1

Absent

absent from gnomAD v4.1

Missense predictors

3/3 damaging

AlphaMissense, REVEL, SaProt

Conditions

Cardiovascular phenotype

Computational evidence

Protein change
AlphaMissense	0.9765	likely pathogenic ✓ concordant with ClinVar · top 1% in ENG
REVEL	0.734	pathogenic-leaning
SaProt	LLR -15.95	damaging
⇒ AlphaMissense, REVEL and SaProt all call this damaging.
Splicing
SpliceAI	<0.2	all four deltas below 0.2 · A>T here scores Δ0.82 · evaluated, not missing
Constraint at this position
Conservation	phyloP 11	GERP 1.7, phastCons 1
Regional constraint	o/e 0.86	unconstrained · MANE · 39 kb · p 5.2e-05 · regional, not allelic
Overall
CADD	27.7	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: ENG
Protein: p.Leu370Pro
Coding: c.1109T>C
MANE Select: NM_001114753
dbSNP: rs1830547696
Type: single nucleotide variant
Location: chr9:127824329 (GRCh38)
Gene constraint: LOEUF 0.374 · pLI 1.00 · ClinGen HI 3/3 (gnomAD)
Structure: AlphaFold pLDDT 80.84 · 3 PDB
Residue 370: a β-strand; the zp domain

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

Disease context

Cardiovascular phenotype — disease report on Sugi Atlas → Associated genes, phenotypes, clinical trials & treatments

Similar variants

ENG p.Leu370= Likely benign ★★ same residue
ENG p.Leu370Gln Uncertain significance ★ ⚠ same residue
ENG p.Leu370Val Likely benign ★ same residue
ENG c.1134+1G>T Pathogenic/Likely pathogenic ★★ same condition
ENG c.1311+2T>A Pathogenic ★★ same condition
ENG c.1428+1G>A Pathogenic/Likely pathogenic ★★ same condition
ENG c.1687-1G>A Pathogenic/Likely pathogenic ★★ same condition
ENG c.219+1G>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/eng-p-leu370pro (accessed [today's date]).

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