A102T

Category 4 — Stable Fold, Function DisruptedUncertain significanceCytoplasmic · predictedSource card

Alanine → Threonine at position 102 · N-terminal cytoplasmic (intrinsically disordered) · WFS1 (Wolframin)

Interactive 3D Structure

Wild-type reference

Wild-type A102 — hydrogen bond to D99

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DynaMut2 mutant · A102T

Mutant T102 — hydrogen bond to E105 lost (4 contacts lost)

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Bond changes · DynaMut2 interaction analysis

4 lost5 gained11 preserved

Interaction type	Wild-type partner	Mutant partner	Status
Hydrogen bond	V91	V91	Preserved
Hydrogen bond	—	A95	Gained
Hydrogen bond	D99	D99	Preserved
Hydrogen bond	E105	—	Lost
Hydrogen bond	V106	V106	Preserved
Polar contact	V91	V91	Preserved
Polar contact	—	R94	Gained
Polar contact	—	A95	Gained
Polar contact	D99	D99	Preserved
Polar contact	T104	T104	Preserved
Polar contact	E105	E105	Preserved
Polar contact	V106	V106	Preserved
Van der Waals	—	V91	Gained
Van der Waals	—	A95	Gained
Van der Waals	T104	T104	Preserved
Van der Waals	E105	—	Lost
Hydrophobic	V91	V91	Preserved
Hydrophobic	R94	R94	Preserved
Hydrophobic	A95	—	Lost
Hydrophobic	D99	—	Lost

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

-1.66kcal/mol

Destabilising — moderate

AlphaMissense

0.436

ambiguous

AlphaFold pLDDT

model confidence

Schema

Cat 4

Category 4 — Stable Fold, Function Disrupted

Clinical Evidence

ClinVar classificationUncertain significance

Review statuscriteria provided, multiple submitters, no conflicts

Associated conditionsWolfram syndrome 1; Autosomal dominant nonsyndromic hearing loss 6; Type 2 diabetes mellitus; Wolfram-like syndrome; Cataract 41; Inborn genetic diseases

Population frequency (gnomAD v4)Ultra-rare · AF 0.00021%

cDNA changec.304G>A

ClinVar accessionVCV001395184

Last evaluated2024/06/05 00:00

Observed at very low frequency in gnomAD.

Full Variant Card

WFS1 Wolframin — A102T Variant Card

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

Alanine → Threonine at position 102. N-terminal cytoplasmic (intrinsically disordered). ClinVar Uncertain significance, AlphaMissense 0.436, DynaMut2 ΔΔG -1.66 kcal/mol (destabilising).

Identity

Field	Value
Variant	A102T (p.Alanine102Threonine)
DNA change	c.304G>A
Gene · Protein	WFS1 · Wolframin (890 aa)
UniProt	O76024 · WFS1_HUMAN
ClinVar accession	VCV001395184
Amino acid change	Alanine (A) → Threonine (T)

Structural Context

Field	Value
AlphaFold model	AF-O76024-F1, v6
pLDDT at residue 102	91.75 — well-folded
Domain	N-terminal cytoplasmic (intrinsically disordered)
Position context	N-terminal cytoplasmic (intrinsically disordered)
IDR flag	No — pLDDT above 50 threshold

UniProt features at this position:

(none catalogued)

Position 102 sits in N-terminal cytoplasmic (intrinsically disordered). The wild-type residue is small/hydrophobic (alanine — methyl sidechain); the mutant is small polar (threonine — hydroxyl). The chemistry shift implies altered local packing, hydrogen-bonding, and/or electrostatics at this site.

Computational Predictions

AlphaMissense

Field	Value
am_pathogenicity	0.4363
am_class	ambiguous
Interpretation	Likely benign (threshold 0.564)

DynaMut2

Field	Value
ΔΔG (kcal/mol)	-1.66 (Destabilising)
Job ID	178094720331
Result URL	https://biosig.lab.uq.edu.au/dynamut2/results_prediction/178094720331

Clinical Evidence

Field	Value
Classification	Uncertain significance
Review status	criteria provided, multiple submitters, no conflicts
Last evaluated	2024/06/05 00:00
Inheritance	Autosomal dominant pattern indicated by associated DFNA6/14/38 (WFS1 hearing loss 6).
WFS1 variant landscape	A102T is 1 of ~326 pathogenic-spectrum variants in WFS1 (out of 2,243 catalogued in ClinVar)

Wolfram syndrome 1
Autosomal dominant nonsyndromic hearing loss 6
Type 2 diabetes mellitus
Wolfram-like syndrome
Cataract 41
Inborn genetic diseases

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 4 — Stable Fold, Function Disrupted

<strong>Category 4 — Stable Fold, Function Disrupted</strong><br/><br/>|ΔΔG|=1.66 negligible. Likely site-specific functional disruption — docking strategy.

Why this card matters. Wolframin's fold survives this substitution (|ΔΔG|=1.66 kcal/mol). The pathogenic signal is real — AlphaMissense places it at 0.436. 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
A102T_molstar_viewer.html — interactive 3D viewer (auto-highlights position 102 with ball-and-stick + neighbors within 5Å)
A102T_variant_card.md — this card (source of truth)
A102T_variant_card.html — styled printable card
A102T_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)
A102T_wildtype_interactions.pse / A102T_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 A102T 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 A102T PDF card ↓Strategies are AI-generated predictions, not validated therapeutics.