SCN5A Variant S484T

Summary of observed carriers, functional annotations, and structural context for SCN5A S484T. Data combine curated literature, international cohorts, and gnomAD observations.

Estimated LQT3 penetrance

2%

0/10 effective observations

Estimated BrS1 penetrance

7%

0/10 effective observations

Total carriers

0

0 BrS1 · 0 LQT3 · 0 unaffected

S484T has not been reported in gnomAD. This residue resides in a Non_Hotspot region for Brugada syndrome and a Non_Hotspot region for LQT3.

Variant features alone are equivalent to phenotyping 0 individuals for Brugada syndrome and 0 individuals for LQT3.

In silico predictors

Variant-level computational predictors.
PROVEAN PolyPhen-2 BLAST-PSSM REVEL Penetrance Density BrS (%) Penetrance Density LQT3 (%)
NA NA NA 0.347 3 0

PROVEAN scores below -2 suggest deleterious impact. REVEL scores above 0.5–0.75 are often interpreted as likely pathogenic. PolyPhen-2 scores above 0.85 are typically pathogenic. Penetrance density summarises neighbouring residue risk (Kroncke et al. 2019).

Reported carrier data

Observed carriers by publication or cohort.
Source Year Carriers Unaffected LQT3 BrS1 Other Other Disease
Literature, cohort, and gnomAD – 0 0 0 0 –
Variant features alone – 15 15 0 0 – –

Totals may differ from individual publications due to duplicate patients removed during curation.

Nearby variants

Neighbouring residues within 15 Ångström provide structural context. Variants listed in the right-most column have been observed clinically or in gnomAD.

Previously observed variants near S484T.
Neighbour residue Distance (Å) Observed variants
469 15 V469I,
470 14 N470K,
471 14
472 13
473 13 E473X,
474 12 R474K, R474G,
475 11 R475K, R475S,
476 11
477 10 c.1428_1431delCAAG,
478 9
479 8
480 8 K480N,
481 7 R481W, R481Q,
482 5 M482I,
483 4
484 0
485 4
486 5 T486S, T486A
487 7
488 8
489 8
490 9 G490A, G490E,
491 10 E491G,
492 11
493 11 R493K,
494 12
495 13
496 13 K496M, K496N,
497 14 S497C,
498 14
499 15