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P492=

SynonymousSilentLikely benignTransmembrane · predicted
Synonymous variant · codon at position 492 · Lumenal loop 3 · WFS1 (Wolframin)

Silent — Silent — no amino-acid change

Interactive 3D Structure

Interactive structure
rotate · zoom · variant + 5 Å neighbors
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AlphaFold wild-type wolframin · the variant site near residue 492 (Lumenal loop 3) is highlighted.

Variant Assessment

Variant type
Synonymous
Schema
Silent
Silent — no amino-acid change
Domain
Lumenal loop 3
Status
—

Therapeutic Implication · Silent

No amino-acid change (P492 is unchanged): the codon is altered but the protein sequence is identical to wild-type. No structural, stability or AlphaMissense effect applies. Synonymous variants are typically benign unless they affect splicing or regulatory elements; this one is not adjacent to an exon boundary.

Clinical Evidence

ClinVar classificationLikely benign
Review statuscriteria provided, multiple submitters, no conflicts
Associated conditionsCataract 41; Autosomal dominant nonsyndromic hearing loss 6; Type 2 diabetes mellitus; Wolfram syndrome 1; Wolfram-like syndrome
Population frequency (gnomAD v4)Absent from gnomAD v4
cDNA changec.1476T>C
Protein consequenceP492=
ClinVar variantNM_006005.3(WFS1):c.1476T>C (p.Pro492=)
ClinVar accessionVCV001577010
Last evaluated2025/03/11 00:00

Not observed in ~730k individuals — consistent with a rare allele (ACMG PM2_supporting).

Therapeutic Strategy Handoff · prediction

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Full Variant Card

P492= — WFS1 Molecular Atlas Card

Variant type: Synonymous (silent) Codon: position 492 (Proline, P) — amino acid unchanged Domain context: Lumenal loop 3

Schema category: Silent — Silent — no amino-acid change

No amino-acid change (P492 is unchanged): the codon is altered but the protein sequence is identical to wild-type. No structural, stability or AlphaMissense effect applies. Synonymous variants are typically benign unless they affect splicing or regulatory elements; this one is not adjacent to an exon boundary.

Clinical evidence

  • Classification: Likely benign
  • Review status: criteria provided, multiple submitters, no conflicts
  • Associated conditions: Cataract 41; Autosomal dominant nonsyndromic hearing loss 6; Type 2 diabetes mellitus; Wolfram syndrome 1; Wolfram-like syndrome
  • cDNA change: c.1476T>C
  • ClinVar accession: VCV001577010
  • Last evaluated: 2025/03/11 00:00
  • Submissions: 1

Card generated by wolfram-atlas-batch (synonymous pipeline) on 2026-06-08T02:53:55.807568Z. WFS1: UniProt O76024, AlphaFold v6. Synonymous variants carry no protein-structural effect.