KCNH2 Variant P441R

Summary of observed carriers, functional annotations, and structural context for KCNH2 P441R. Data combine curated literature, international cohorts, and gnomAD observations.

Estimated LQT2 penetrance

7%

0/13 effective observations

Total carriers

3

0 LQT2 · 3 unaffected

Functional studies

0

Publications with functional data

P441R is present in 3 alleles in gnomAD. This residue resides in a Non_Hotspot region for LQT2.

We have tested the trafficking efficiency of this variant: 139% of WT with a standard error of 21%. In our analysis we used SE < 20% as 'high quality'. Approximately below 50% of WT is considered PS3 moderate and below 30% is PS3 strong.

Variant features alone are equivalent to phenotyping 0 individuals with LQT2 and 10 unaffected individuals.

In silico predictors

Variant-level computational predictors.
PROVEAN PolyPhen-2 BLAST-PSSM REVEL Penetrance Density LQT2 (%)
1.933 0.0 1 0.588 4

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. BLAST-PSSM reflects evolutionary conservation; more negative values indicate rarer substitutions. Penetrance density summarises neighbouring residue risk (Kroncke et al. 2019).

Reported carrier data

Observed carriers by publication or cohort.
Source Year Carriers Unaffected LQT2 Other Disease
Literature, cohort, and gnomAD – 3 3 0 –
Variant features alone – 10 10 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. Note that some residues appear multiple times at different distances since the functional KV11.1 channel (protein product of KCNH2/hERG) is a homotetramer and occasionally the same residue from multiple subunits is present within the 15Å window.

Previously observed variants near P441R.
Neighbour residue Distance (Å) Observed variants
441 0 P441R, P441L,
440 4 P440L,
442 4
439 5
443 5 T443fsX, T443N,
438 7 E438K, E438X,
444 7 E444K, E444D, E444D,
437 8
445 8
436 8 T436M,
446 8
435 9 E435G, E435X,
447 9 Y447X,
434 10
448 10 A448T, A448S,
433 11
449 11
432 11
450 11
431 12 F431L, F431L, F431L,
451 12 P451L,
430 13
452 13
429 13 A429P, A429V,
453 13
428 14 S428fsX, S428X, S428L,
454 14
427 14 Y427H, Y427S, Y427C,
455 14
426 15 P426H,
456 15 D456Y