C647W

Category 3/4 — Most DruggableUncertain significanceTransmembrane · predictedSource card

Cysteine → Tryptophan at position 647 · C-terminal ER-lumenal (calcium binding, calmodulin, chaperone) · WFS1 (Wolframin)

Interactive 3D Structure

Wild-type reference

Wild-type C647 — hydrogen bond to I643

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DynaMut2 mutant · C647W

Mutant W647 — hydrogen bond to Y650 lost (3 contacts lost)

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Bond changes · DynaMut2 interaction analysis

3 lost6 gained8 preserved

Interaction type	Wild-type partner	Mutant partner	Status
Hydrogen bond	I345	—	Lost
Hydrogen bond	I643	I643	Preserved
Hydrogen bond	V644	V644	Preserved
Hydrogen bond	Y650	Y650	Preserved
Hydrogen bond	V651	V651	Preserved
Polar contact	I643	I643	Preserved
Polar contact	V644	V644	Preserved
Polar contact	F649	—	Lost
Polar contact	Y650	Y650	Preserved
Polar contact	V651	V651	Preserved
Aromatic / π	—	W867	Gained
Van der Waals	—	I643	Gained
Van der Waals	V651	—	Lost
Hydrophobic	—	A342	Gained
Hydrophobic	—	I345	Gained
Hydrophobic	—	V651	Gained
Hydrophobic	—	W867	Gained

Lost / gained / preserved interatomic contacts at the variant residue, from the DynaMut2 (Arpeggio) interaction analysis of the wild-type and energy-minimized mutant structures.

Computational Predictions

DynaMut2 ΔΔG

-1.04kcal/mol

Destabilising — moderate

AlphaMissense

0.885

likely pathogenic

AlphaFold pLDDT

model confidence

Schema

Cat 3/4

Category 3/4 — Most Druggable

Clinical Evidence

ClinVar classificationUncertain significance

Review statuscriteria provided, multiple submitters, no conflicts

Associated conditions—

Population frequency (gnomAD v4)Ultra-rare · AF 0.00020%

cDNA changec.1941C>G

ClinVar accessionVCV004765406

Last evaluated2025/10/29 00:00

Observed at very low frequency in gnomAD.

Full Variant Card

WFS1 Wolframin — C647W Variant Card

Molecular Atlas Pilot · RareResearch.AI · Generated by wolfram-variant-card skill

Cysteine → Tryptophan at position 647. C-terminal ER-lumenal (calcium binding. ClinVar Uncertain significance, AlphaMissense 0.885, DynaMut2 ΔΔG -1.04 kcal/mol (destabilising).

Identity

Field	Value
Variant	C647W (p.Cysteine647Tryptophan)
DNA change	c.1941C>G
Gene · Protein	WFS1 · Wolframin (890 aa)
UniProt	O76024 · WFS1_HUMAN
ClinVar accession	VCV004765406
Amino acid change	Cysteine (C) → Tryptophan (W)

Structural Context

Field	Value
AlphaFold model	AF-O76024-F1, v6
pLDDT at residue 647	76.31 — well-folded
Domain	C-terminal ER-lumenal (calcium binding, calmodulin, chaperone)
Position context	C-terminal lumenal domain · position 647 projects into the ER lumen
IDR flag	No — pLDDT above 50 threshold

UniProt features at this position:

(none catalogued)

Position 647 sits in the C-terminal lumenal domain (residues 653–869), wolframin's largest soluble region. This domain projects into the ER lumen and is implicated in calcium handling, ER stress sensing, and protein–protein interactions with ATF6 and Na+/K+ ATPase β1. The wild-type residue is thiol (cysteine — disulfide-capable, free -SH); the mutant is bulky aromatic (tryptophan — indole ring). The chemistry shift implies altered local packing, hydrogen-bonding, and/or electrostatics at this site.

Computational Predictions

AlphaMissense

Field	Value
am_pathogenicity	0.8854
am_class	likely pathogenic
Interpretation	Likely pathogenic (threshold 0.564)

DynaMut2

Field	Value
ΔΔG (kcal/mol)	-1.04 (Destabilising)
Job ID	178092109334
Result URL	https://biosig.lab.uq.edu.au/dynamut2/results_prediction/178092109334

Clinical Evidence

Field	Value
Classification	Uncertain significance
Review status	criteria provided, multiple submitters, no conflicts
Last evaluated	2025/10/29 00:00
Inheritance	Inheritance pattern not specified in ClinVar entry; WFS1 has both AD and AR presentations.
WFS1 variant landscape	C647W is 1 of ~326 pathogenic-spectrum variants in WFS1 (out of 2,243 catalogued in ClinVar)

(no conditions catalogued)

Research Path Decision Tree

ΔΔG < 2  + binding site affected   →  CATEGORY 3 — docking experiments
ΔΔG 2–4                            →  CATEGORY 2 — pharmacological chaperones
ΔΔG > 4                            →  CATEGORY 1 — gene therapy
pLDDT < 50                         →  CATEGORY 5 — IDR, experimental only
Stable fold + functional site hit  →  CATEGORY 4 — site-specific docking

Final Schema Categorization

Category 3/4 — Most Druggable

<strong>Category 3/4 — Most Druggable</strong><br/><br/>|ΔΔG|=1.04 < 2 kcal/mol (fold intact) + AlphaMissense 0.885 confirms functional impact. Specific local contacts disrupted — priority for docking and pharmacological chaperone screening.

Why this card matters. Wolframin's fold survives this substitution (|ΔΔG|=1.04 kcal/mol). The pathogenic signal is real — AlphaMissense places it at 0.885. Protein still folds, but a specific local site is broken. Pharmacological chaperones and small-molecule binders are the rational therapeutic vector.

Files in this folder

AF-O76024-F1-model_v6.pdb — AlphaFold structure
C647W_molstar_viewer.html — interactive 3D viewer (auto-highlights position 647 with ball-and-stick + neighbors within 5Å)
C647W_variant_card.md — this card (source of truth)
C647W_variant_card.html — styled printable card
C647W_dynamut2_summary.html — clean offline DynaMut2 result card
dynamut2_result.json — structured result data
dynamut2_result_page.html — local snapshot of the Biosig result page (asset URLs absolutized)
C647W_wildtype_interactions.pse / C647W_mutant_interactions.pse — PyMOL sessions

Generated by wolfram-variant-card skill · RareResearch.AI Molecular Atlas Every assumption documented. Every score sourced.

Therapeutic Strategy Handoff · prediction

Feed this card to Wolfram Intelligence

Download the C647W PDF below and upload it to Wolfram Intelligence to generate therapeutic-strategy proposals — guanidinium mimetics, sigma-1 agonist docking, NAC thiol-capping. NAC is already on the bench-testing list.

Download C647W PDF card ↓Strategies are AI-generated predictions, not validated therapeutics.