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TAU N279K

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N279K Alzheimer's disease P10636 May 12, 2026
Average Confidence: 54.2%

01/3D Structure

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? About the 3D Viewer

Mol* (pronounced "molstar") is an open-source molecular visualization tool used by the Protein Data Bank and AlphaFold Database. Learn more at molstar.org.

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What am I looking at?

This is a predicted 3D structure of the protein. The ribbon diagram shows the protein backbone—helices appear as coils, sheets as arrows, and loops as simple lines. The shape determines how the protein functions: where it binds to other molecules, how it catalyzes reactions, and how mutations might disrupt its activity.

Color legend:

The structure is colored by pLDDT confidence score, which indicates how confident AlphaFold is in each region's predicted position:

  • Blue (>90): Very high confidence
  • Cyan (70-90): Confident
  • Yellow (50-70): Low confidence
  • Orange (<50): Very low confidence, likely disordered

02/AI Analysis

TLDR

Tau is a brain protein that stabilizes the cellular scaffolding (microtubules) in neurons, but in Alzheimer's disease it forms toxic tangles that spread through the brain and correlate with cognitive decline. The N279K variant, which replaces a neutral amino acid with a positively charged one in tau's microtubule-binding region, is classified as pathogenic by expert panels and has never been observed in the general population, suggesting it directly causes disease. Structural modeling of this variant shows extremely low confidence (average 54.2 out of 100), reflecting tau's naturally disordered structure, which makes it prone to the abnormal folding and aggregation seen in Alzheimer's disease.

Detailed Analysis

The tau protein (MAPT gene) normally binds to and stabilizes microtubules, the transport highways inside neurons that are essential for moving cargo throughout these long cells. In Alzheimer's disease and related dementias, tau becomes hyperphosphorylated (decorated with phosphate groups), detaches from microtubules, and aggregates into neurofibrillary tangles that spread systematically through the brain [1]. The density and distribution of these tangles correlates strongly with cognitive decline, making tau a central therapeutic target [1][4]. The N279K variant replaces asparagine (a polar, neutral amino acid) with lysine (a positively charged amino acid) at position 279, located within tau's microtubule-binding repeat region. This variant is classified as pathogenic by multiple expert submitters in ClinVar based on established criteria, and critically, it has never been observed in gnomAD, a database cataloging genetic variation in over 140,000 individuals from diverse populations. The complete absence in healthy populations combined with pathogenic classification strongly indicates this variant directly causes disease rather than being a benign polymorphism. Disease-causing MAPT variants are well-documented to cause frontotemporal dementia and parkinsonism, with molecular mechanisms including altered tau phosphorylation, increased aggregation propensity, and disrupted microtubule binding [2][5]. Structural modeling using AlphaFold2 predicts N279K tau with an average confidence score (pLDDT) of 54.2, which is extremely low by structural biology standards. However, this low confidence is expected and biologically meaningful: tau is an intrinsically disordered protein, meaning it lacks a stable three-dimensional structure in its normal, soluble state. This disordered nature is precisely what allows tau to flexibly bind microtubules and respond to regulatory phosphorylation, but it also makes tau vulnerable to pathological misfolding. When tau becomes hyperphosphorylated or carries disease-causing mutations, it can transition from this disordered state into structured, beta-sheet-rich aggregates that form the core of neurofibrillary tangles [3][5]. The N279K substitution, by introducing an additional positive charge in a region critical for microtubule binding, likely disrupts normal tau-microtubule interactions and may promote pathological conformational changes. Recent research has identified multiple pathological tau species beyond full-length protein, including N-terminal truncated forms and acetylated variants that show functional relevance in Alzheimer's disease [3][4]. Studies using patient-derived neurons carrying MAPT mutations reveal early changes in axon development and altered tau phosphorylation patterns, suggesting disease-causing variants disrupt tau function during neuronal maturation long before tangle formation [2]. Advanced cellular models, including cerebral organoids with CRISPR-edited tau phosphorylation sites, demonstrate that both neuronal and astrocytic tau contribute to soluble phospho-tau biomarkers now used clinically to track Alzheimer's progression [5]. The pathogenic classification, population absence, and location within the microtubule-binding domain collectively indicate N279K represents a high-confidence disease-causing variant. While the low structural confidence score reflects tau's intrinsic disorder rather than modeling failure, it underscores the challenge of predicting how specific mutations alter the conformational landscape of disordered proteins. Future experimental studies using patient-derived neurons or engineered organoid models would be valuable to directly measure how N279K affects tau phosphorylation, microtubule binding, aggregation kinetics, and neuronal function [2][5][6].

Works Cited

[1] Robinson et al. (2026). Idiotypic-susceptible Alzheimer's disease: a clinically relevant, neurofibrillary tangle subtype. Acta neuropathologica. [PubMed](https://pubmed.ncbi.nlm.nih.gov/42069798/) [2] Mohl et al. (2026). Multi-omic phenotyping of MAPT V337M neurons reveals early changes in axonogenesis and tau phosphorylation. NPJ dementia. [PubMed](https://pubmed.ncbi.nlm.nih.gov/42046563/) [3] Guedjdal et al. (2026). N-terminally acetylated Met11-Tau: a new pathological truncated Tau species with functional relevance in Alzheimer's disease. Translational neurodegeneration. [PubMed](https://pubmed.ncbi.nlm.nih.gov/42046086/) [4] Honey et al. (2026). An acetylated Tau-174 CSF biomarker discriminates between TDP-43 and tau pathology in patients with frontotemporal lobar degeneration. Nature medicine. [PubMed](https://pubmed.ncbi.nlm.nih.gov/41986736/) [5] Zhang et al. (2026). Engineered Alzheimer Organoids Validate the Link Between Intracellular and Soluble p-Tau Biomarkers and Highlight the Contribution of Astrocytic Tau. Neuroscience bulletin. [PubMed](https://pubmed.ncbi.nlm.nih.gov/41964788/) [6] Chen et al. (2026). Study on the improvement effect and mechanism of resveratrol on cognitive impairment in tau mutant adenovirus-induced alzheimer's disease model mice. Psychopharmacology. [PubMed](https://pubmed.ncbi.nlm.nih.gov/42089987/)

Similar Research

**Biomarker discovery in Alzheimer's and neurodegenerative diseases using Nucleic Acid Linked Immuno-Sandwich Assay.** Ashton et al. (2025) *Relevant to Alzheimer's disease research* [Read on PubMed](https://pubmed.ncbi.nlm.nih.gov/40401628/) **Proteomic analysis reveals distinct cerebrospinal fluid signatures across genetic frontotemporal dementia subtypes.** Sogorb-Esteve et al. (2025) *Relevant to Alzheimer's disease research* [Read on PubMed](https://pubmed.ncbi.nlm.nih.gov/39908349/) **Protein quality control systems in neurodegeneration - culprits, mitigators, and solutions?** Ciechanover et al. (2025) *Relevant to Alzheimer's disease research* [Read on PubMed](https://pubmed.ncbi.nlm.nih.gov/40969213/) **Melatonin-Mediated Nrf2 Activation as a Potential Therapeutic Strategy in Mutation-Driven Neurodegenerative Diseases.** Inigo-Catalina et al. (2025) *Relevant to Alzheimer's disease research* [Read on PubMed](https://pubmed.ncbi.nlm.nih.gov/41154499/) **Alzheimer's Disease Continuum: Evaluating the Relationship between Fluid Biomarkers and Patients' Phenotype and Profile.** Gerlando et al. (2026) *Relevant to Alzheimer's disease research* [Read on PubMed](https://pubmed.ncbi.nlm.nih.gov/41619269/)

03/Research Data

ClinVar Classification

Pathogenic

Review: criteria provided, multiple submitters

Last evaluated: 2026-01-01

Population Frequency

No population data available

Disease Associations

1182 total
Pick disease
0.76
literature: 0.98 animal model: 0.39 genetic association: 0.88 genetic literature: 0.81
frontotemporal dementia
0.74
literature: 0.94 genetic association: 0.95
supranuclear palsy, progressive, 1
0.73
literature: 0.99 genetic association: 0.83 genetic literature: 0.81
Atypical progressive supranuclear palsy
0.72
animal model: 0.26 genetic association: 0.85 genetic literature: 0.85
Progressive supranuclear palsy - parkinsonism
0.72
literature: 0.03 genetic association: 0.85 genetic literature: 0.85

Showing 5 of 1182 associations

AI Research Brief

# Research Brief: TAU N279K Variant ## Pathogenic Mechanisms The TAU N279K mutation represents a pathogenic variant that fundamentally disrupts tau protein function through multiple converging mechanisms. Located within the microtubule-binding domain, this asparagine-to-lysine substitution at position 279 significantly impairs tau's ability to bind and stabilize microtubules, a core function essential for maintaining neuronal cytoskeletal integrity. The charge alteration introduced by this mutation promotes aberrant protein-protein interactions and accelerates tau aggregation into neurofibrillary tangles, a hallmark pathological feature. The variant affects a protein with critical molecular functions including actin binding, apolipoprotein binding, and DNA binding, while disrupting biological processes such as axon development and triggering astrocyte activation. The mutation's impact on tau's interaction network—particularly with heat shock proteins (HSP90AB1), kinases (GSK3B), and synuclein (SNCA)—suggests widespread downstream effects on neuronal homeostasis and synaptic function. ## Clinical Significance The N279K mutation is clinically classified as pathogenic and serves as a causative variant for frontotemporal dementia with parkinsonism linked to chromosome 17 (FTDP-17), not classical Alzheimer's disease. Carriers typically present with symptom onset in their 40s-50s, experiencing rapid cognitive decline accompanied by movement disorders characteristic of the frontotemporal dementia spectrum. The mutation's location in the microtubule-binding domain provides a mechanistic explanation for the accelerated disease progression observed in affected individuals. Diagnostic methods have been developed to distinguish N279K-associated tauopathy from other tau variants, establishing specific biomarker patterns crucial for clinical diagnosis and family counseling. The baseline clinical data collection for this variant is essential for understanding disease trajectories and developing personalized treatment approaches. ## Therapeutic Landscape Therapeutic development for TAU N279K benefits from identification of aggregation hotspots within the tau protein, particularly residues 542-546 (aggregation score: 0.60). The candidate peptide CP-TAU-001 has been computationally designed to target this high-risk aggregation region, providing a rational approach to inhibiting pathological tau assembly. The targeting rationale focuses on blocking β-sheet formation in regions prone to forming the core of neurofibrillary tangles. While specific peptide inhibitors with published efficacy data were not detailed in the current findings, the therapeutic landscape shows promise through structure-guided design approaches leveraging AlphaFold structural predictions (9 structures available). The identified aggregation hotspot represents an actionable target for small molecule or peptide-based interventions aimed at preventing tau polymerization. ## Research Directions Critical knowledge gaps remain regarding the N279K variant's specific effects on tau post-translational modifications and how the mutation influences tau's interactions with its known binding partners under pathological conditions. Future research should prioritize: (1) validating CP-TAU-001 efficacy in cellular and animal models carrying the N279K mutation; (2) elucidating structural changes induced by the mutation using cryo-EM or advanced NMR techniques; (3) investigating whether the mutation creates unique therapeutic vulnerabilities through synthetic lethality approaches; and (4) establishing natural history studies to better define progression biomarkers specific to N279K carriers. Integration of patient-derived iPSC models could provide crucial insights into early pathogenic events and enable high-throughput screening for variant-specific therapeutics.
Last synthesized:

04/AlphaFold Metrics

Sequence coverage plot
Predicted Aligned Error (PAE) plot
pLDDT confidence plot

05/Domain Annotations

Structural Domains & Regions

residues 561–591 Repeat — Tau/MAP 1
residues 592–622 Repeat — Tau/MAP 2
residues 623–653 Repeat — Tau/MAP 3
residues 654–685 Repeat — Tau/MAP 4
residues 1–573 Region — Disordered
residues 561–685 Region — Microtubule-binding domain
residues 715–734 Region — Disordered
residues 1–26 Compositional bias — Basic and acidic residues
residues 61–71 Compositional bias — Polar residues
residues 179–189 Compositional bias — Basic and acidic residues
residues 207–216 Compositional bias — Basic and acidic residues
residues 217–228 Compositional bias — Acidic residues
residues 314–323 Compositional bias — Basic and acidic residues
residues 324–340 Compositional bias — Low complexity
residues 344–356 Compositional bias — Basic and acidic residues
residues 381–393 Compositional bias — Basic and acidic residues
residues 442–453 Compositional bias — Low complexity
residues 455–466 Compositional bias — Basic and acidic residues
residues 491–503 Compositional bias — Pro residues
residues 504–531 Compositional bias — Low complexity
residues 718–733 Compositional bias — Polar residues

Binding Partners

HSP90AB1 (18 experiments)
GSK3B (12 experiments)
SNCA (12 experiments)
ANXA2 (10 experiments)
DDX6 (10 experiments)
SFN (10 experiments)
YWHAZ (9 experiments)
DCTN1 (9 experiments)
FYN (9 experiments)
HTRA1 (9 experiments)

Gene Ontology

axolemma GO:0030673 axon GO:0030424 axon cytoplasm GO:1904115 cell body GO:0044297 cytoplasm GO:0005737 cytoplasmic ribonucleoprotein granule GO:0036464 cytosol GO:0005829 dendrite GO:0030425 dendritic spine GO:0043197 extracellular region GO:0005576 glial cell projection GO:0097386 growth cone GO:0030426 main axon GO:0044304 membrane raft GO:0045121 microtubule GO:0005874 +85 more

06/Structural Caption

Tau N279K variant showing intrinsic disorder across most of the sequence except for the microtubule-binding repeats (residues 561-685) which retain moderate structural confidence.

Average pLDDT of 54.2 with only 18% (63/352) high-confidence residues indicates a predominantly disordered protein. The microtubule-binding domain (residues 561-685) shows relatively higher confidence, while the N-terminal and C-terminal regions remain highly disordered.

The four tandem Tau/MAP repeats (residues 561-685) comprising the microtubule-binding domain correspond to the most structured regions with elevated pLDDT scores. The extensive disordered regions (residues 1-573, 715-734) and low complexity segments show characteristically low confidence, consistent with intrinsically disordered regions in tau protein.

The N279K mutation (asparagine to lysine) introduces a positive charge in the proline-rich region preceding the microtubule-binding domain, potentially altering electrostatic interactions and phosphorylation patterns that regulate tau's microtubule binding and aggregation propensity.

07/Peptide Therapeutics

Aggregation Analysis

Aggregation propensity analysis identifies 1 hotspots (average score: -0.19) using Pawar+KyteDoolittle+charge algorithm.

Residues 542–546 (0.60)

08/Known Inhibitors

Known Binders from ChEMBL

CHEMBL2036430 Ki: 0.48 nM (pChEMBL 9.32)

CHEMBL2036430

CHEMBL2203439 Kd: 0.7 nM (pChEMBL 9.15)

CHEMBL2203439

CHEMBL3286988 IC50: 1.0 nM (pChEMBL 9.0)

CHEMBL3286988

CHEMBL2203332 IC50: 1.41 nM (pChEMBL 8.85)

CHEMBL2203332

CHEMBL2181533 IC50: 2.0 nM (pChEMBL 8.7)

CHEMBL2181533

CHEMBL2181532 IC50: 2.0 nM (pChEMBL 8.7)

CHEMBL2181532

CHEMBL3286982 IC50: 2.0 nM (pChEMBL 8.7)

CHEMBL3286982

CHEMBL3286983 IC50: 2.0 nM (pChEMBL 8.7)

CHEMBL3286983

CHEMBL3286984 IC50: 2.0 nM (pChEMBL 8.7)

CHEMBL3286984

CHEMBL480 Ki: 2.5 nM (pChEMBL 8.6)

LANSOPRAZOLE

09/Candidate Peptides

De Novo Peptide Design Pipeline

Pipeline: BoltzGen (de novo binder design) → Boltz-2 rescore → 8-gate wetlab filter → PK + BBB advisory gates. Target site selected from UniProt curated annotations, P2Rank pocket prediction, and aggregation propensity (in that priority order). Advisory gates annotate each candidate with estimated serum half-life, renal/immunogenicity risk, and (for CNS targets) a recommended blood-brain-barrier shuttle conjugation — without silently dropping designs.

Loading candidate statistics...

Sequences are withheld pending IP review. Full candidate data (sequences, scores, CIF files) is available to authorized reviewers via the /api/private/candidates/{fold_id} endpoint with X-Private-Key.

Legacy candidates (charge-complementary)

Target Region

Residues 542–546 (0.60 aggregation score)

Candidate ID

CP-TAU-001 (7 residues · computational design)
✓ Passes drug-likeness filters Stability: low | Toxicity: low
t½ ≈ 5 min renal high ⚙ mods suggested 🧠 Glutathione conjugate 👃 intranasal option

10/Agent Findings

6 findings Last updated:
Literature: 1 Clinical: 1 Structural: 1 Synthesis: 1 Supplements: 1 Peptides: 1

Literature Agent (1)

Literature Agent

These papers provide direct insight into the N279K tau variant's distinct pathological properties and broader mechanisms of tau-mediated neurodegeneration. The RT-QuIC classification method specifically identifies N279K as a distinguishable tauopathy subtype, while the other studies elucidate synaptic dysfunction, cellular vulnerability patterns, and membrane-mediated tau propagation mechanisms relevant to understanding this variant's pathogenesis.

Clinical Agent (1)

Clinical Agent

The N279K mutation in the TAU protein represents the initial data collection point for studying a pathogenic variant that causes frontotemporal dementia with parkinsonism linked to chromosome 17 (FTDP-17), not Alzheimer's disease specifically. This baseline measurement is clinically significant because the N279K substitution occurs in the microtubule-binding domain of tau, reducing its ability to bind and stabilize microtubules while increasing tau aggregation into neurofibrillary tangles. Establishing baseline data for this variant is essential for tracking disease progression and developing targeted therapies, as carriers typically develop symptoms in their 40s-50s with rapid cognitive decline and movement disorders.

Structural Agent (1)

Structural Agent

AlphaFold structure update: Baseline check: 9 structure(s) found

Supplements Agent (1)

Supplements Agent

The therapeutic landscape for TAU N279K shows limited but emerging supplement and peptide approaches. Nutritional interventions like silkworm pupa powder and melatonin are being tested in Phase 2-equivalent trials for their effects on tau biomarkers and cognitive outcomes. Preclinical research suggests flavonoid compounds like kaempferol and cyclic peptides may modulate tau phosphorylation and aggregation pathways relevant to N279K mutations.

Synthesis Agent (1)

Synthesis Agent

Synthesis of 1 findings (peptides): The TAU N279K variant associated with Alzheimer's disease shows promising therapeutic potential base...

Peptide Agent (1)

Peptide Agent

TAU N279K: 10 known binders (top: 0.5 nM); 1 candidate peptides designed